Collinsella aerofaciens CCUG 28087 is an anaerobe bacterium that was isolated from human faeces.
anaerobe genome sequence 16S sequence Bacteria| @ref 20215 |
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Last LPSN update
2026-02-09 11:18:25 |
| Domain Bacteria |
| Phylum Actinomycetota |
| Class Coriobacteriia |
| Order Coriobacteriales |
| Family Coriobacteriaceae |
| Genus Collinsella |
| Species Collinsella aerofaciens |
| Full scientific name Collinsella aerofaciens (Eggerth 1935) Kageyama et al. 1999 |
| Synonyms (2) |
| @ref | Name | Growth | Medium link | Composition | |
|---|---|---|---|---|---|
| 1537 | CHOPPED MEAT MEDIUM (DSMZ Medium 78) | Medium recipe at MediaDive  | Name: CHOPPED MEAT MEDIUM (DSMZ Medium 78; with strain-specific modifications) Composition: Ground beef 500.0 g/l Casitone 30.0 g/l Agar 15.0 g/l Ethanol 9.5 g/l (optional) K2HPO4 5.0 g/l Yeast extract 5.0 g/l L-Cysteine HCl 0.5 g/l Haemin 0.005 g/l (optional) Resazurin 0.001 g/l Vitamin K3 0.0005 g/l (optional) Vitamin K1 0.0001 g/l NaOH (optional) Distilled water | ||
| 1537 | FASTIDIOUS ANAEROBE BROTH (DSMZ Medium 1203a) | Medium recipe at MediaDive | Name: FASTIDIOUS ANAEROBE BROTH (DSMZ Medium 1203a) Composition: Fastidious Anaerobe Basal Broth 35.4 g/l Distilled water | ||
| 1537 | FASTIDIOUS ANAEROBE AGAR (DSMZ Medium 1203) | Medium recipe at MediaDive | Name: FASTIDIOUS ANAEROBE AGAR (DSMZ Medium 1203) Composition: Horse blood 100.0 g/l Fastidious Anaerobe Agar 45.7 g/l Distilled water |
| @ref | Spore formation | Confidence | |
|---|---|---|---|
| 125439 | 99.6 |
| @ref | Chebi-ID | Metabolite | Utilization activity | Kind of utilization tested | |
|---|---|---|---|---|---|
| 68380 | 16024 ChEBI | D-mannose | - | fermentation | from API rID32A |
| 68380 | 29985 ChEBI | L-glutamate | - | degradation | from API rID32A |
| 68380 | 17632 ChEBI | nitrate | - | reduction | from API rID32A |
| 68380 | 16634 ChEBI | raffinose | - | fermentation | from API rID32A |
| 68380 | 27897 ChEBI | tryptophan | - | energy source | from API rID32A |
| 68380 | 16199 ChEBI | urea | - | hydrolysis | from API rID32A |
| @ref | Chebi-ID | Metabolite | Production | |
|---|---|---|---|---|
| 68380 | 35581 ChEBI | indole | from API rID32A |
| @ref | Chebi-ID | Metabolite | Indole test | |
|---|---|---|---|---|
| 68380 | 35581 ChEBI | indole | - | from API rID32A |
| @ref | Value | Activity | Ec | |
|---|---|---|---|---|
| 68380 | alanine arylamidase | - | 3.4.11.2 | from API rID32A |
| 68380 | alkaline phosphatase | - | 3.1.3.1 | from API rID32A |
| 68380 | alpha-arabinosidase | - | 3.2.1.55 | from API rID32A |
| 68380 | alpha-fucosidase | - | 3.2.1.51 | from API rID32A |
| 68380 | alpha-galactosidase | - | 3.2.1.22 | from API rID32A |
| 68380 | beta-Galactosidase 6-phosphate | - | from API rID32A | |
| 68380 | beta-glucosidase | - | 3.2.1.21 | from API rID32A |
| 68380 | beta-glucuronidase | - | 3.2.1.31 | from API rID32A |
| 68380 | glutamate decarboxylase | - | 4.1.1.15 | from API rID32A |
| 68380 | glutamyl-glutamate arylamidase | - | from API rID32A | |
| 68380 | N-acetyl-beta-glucosaminidase | - | 3.2.1.52 | from API rID32A |
| 68380 | phenylalanine arylamidase | - | from API rID32A | |
| 68380 | proline-arylamidase | + | 3.4.11.5 | from API rID32A |
| 68380 | pyrrolidonyl arylamidase | - | 3.4.19.3 | from API rID32A |
| 68380 | serine arylamidase | - | from API rID32A | |
| 68380 | tryptophan deaminase | - | 4.1.99.1 | from API rID32A |
| 68380 | tyrosine arylamidase | - | from API rID32A | |
| 68380 | urease | - | 3.5.1.5 | from API rID32A |
| @ref | URE | ADH (Arg) | alpha GAL | beta GAL | beta-Galactosidase 6-phosphatebeta GP | alpha GLU | beta GLU | alpha ARA | beta GUR | beta-N-Acetyl-beta-glucosaminidasebeta NAG | MNE | RAF | GDC | alpha FUC | Reduction of nitrateNIT | IND | PAL | L-arginine arylamidaseArgA | ProA | LGA | Phenylalanine arylamidasePheA | Leucine arylamidaseLeuA | PyrA | Tyrosine arylamidaseTyrA | Alanine arylamidaseAlaA | Glycin arylamidaseGlyA | Histidine arylamidaseHisA | Glutamyl-glutamate arylamidaseGGA | Serine arylamidaseSerA | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 1537 | - | - | - | + | - | + | - | - | - | - | - | - | - | - | - | - | - | + | + | - | - | - | - | - | - | +/- | + | - | - | |
| 1537 | - | + | - | + | - | + | - | - | - | - | - | - | - | - | - | - | - | +/- | + | - | - | - | - | - | - | - | +/- | - | - | |
| 1537 | - | + | - | + | - | +/- | - | - | - | - | - | - | - | - | - | - | - | + | + | - | - | - | - | - | - | - | - | - | - | |
| 1537 | - | + | - | + | - | + | - | - | - | - | - | - | - | - | - | - | - | + | + | - | - | - | - | - | - | - | - | - | - | |
| 1537 | - | - | - | +/- | - | + | - | - | - | - | - | - | - | - | - | - | - | + | + | +/- | - | +/- | - | - | - | +/- | + | - | - |
| @ref | Description | Assembly level | INSDC accession | BV-BRC accession | IMG accession | NCBI tax ID | Score | |
|---|---|---|---|---|---|---|---|---|
| 66792 | ASM1050907v1 assembly for Collinsella aerofaciens ATCC 25986 JCM 10188 | complete | GCA_010509075   | 411903.30  | 8003350506  | 411903 | 90.83 | |
| 67770 | 50279_E02 assembly for Collinsella aerofaciens NCTC11838 | contig | GCA_900461335 | 74426.133 | 2814123380 | 74426 | 70.57 | |
| 67770 | ASM16903v1 assembly for Collinsella aerofaciens ATCC 25986 | contig | GCA_000169035 | 411903.6 | 640612206 | 411903 | 63.92 |
| @ref | GC-content (mol%) | Method | |
|---|---|---|---|
| 67770 | 61 | high performance liquid chromatography (HPLC) |
| Topic | Title | Authors | Journal | DOI | Year | |
|---|---|---|---|---|---|---|
| Enzyme degradation and proinflammatory activity in arthritogenic and nonarthritogenic Eubacterium aerofaciens cell walls. | Zhang X, Rimpilainen M, Simelyte E, Toivanen P. | Infect Immun | 10.1128/iai.69.12.7277-7284.2001 | 2001 | | |
| Genetics | A simple method that enhances minority species detection in the microbiota: 16S metagenome-DRIP (Deeper Resolution using an Inhibitory Primer). | Nakajima A, Yoshida K, Gotoh A, Katoh T, Ojima MN, Sakanaka M, Xiao JZ, Odamaki T, Katayama T. | Microbiome Res Rep | 10.20517/mrr.2022.08 | 2022 | |
| Metabolism | Gut microbial carbohydrate metabolism contributes to insulin resistance. | Takeuchi T, Kubota T, Nakanishi Y, Tsugawa H, Suda W, Kwon AT, Yazaki J, Ikeda K, Nemoto S, Mochizuki Y, Kitami T, Yugi K, Mizuno Y, Yamamichi N, Yamazaki T, Takamoto I, Kubota N, Kadowaki T, Arner E, Carninci P, Ohara O, Arita M, Hattori M, Koyasu S, Ohno H. | Nature | 10.1038/s41586-023-06466-x | 2023 | |
| Phylogeny | Distribution and phylogenetic analysis of family 19 chitinases in Actinobacteria. | Kawase T, Saito A, Sato T, Kanai R, Fujii T, Nikaidou N, Miyashita K, Watanabe T. | Appl Environ Microbiol | 10.1128/aem.70.2.1135-1144.2004 | 2004 | |
| Integrated multi-omics of feces, plasma and urine can describe and differentiate pediatric active Crohn's Disease from remission. | Koopman N, Jaspers Y, van Leeuwen PT, Chronas K, Li Yim AYF, Diederen K, Te Velde AA, Roseboom W, Kindermann A, Benninga MA, Kramer G, de Jonge WJ, Brul S, Levin E, Kemp S, Seppen J. | Commun Med (Lond) | 10.1038/s43856-025-00984-7 | 2025 | | |
| Pathogenicity | Blood-borne immune cells carry low biomass DNA remnants of microbes in patients with colorectal cancer or inflammatory bowel disease. | Morsy Y, Walberg A, Wawrzyniak P, Hubeli B, Truscello L, Mamie C, Niechcial A, Gueguen E, Manzini R, Gottier C, Lang S, Scharl S, Blumel S, Biedermann L, Rogler G, Turina M, Ramser M, Petrowsky H, Arnold IC, Zeissig S, Zamboni N, Egli A, Niess JH, Hruz P, Knuth A, Fritsch R, Manz MG, Wawrzyniak M, Scharl M. | Gut Microbes | 10.1080/19490976.2025.2530157 | 2025 | |
| Genetics | Ecology- and genome-based identification of the Bifidobacterium adolescentis prototype of the healthy human gut microbiota. | Argentini C, Lugli GA, Tarracchini C, Fontana F, Mancabelli L, Viappiani A, Anzalone R, Angelini L, Alessandri G, Bianchi MG, Taurino G, Bussolati O, Milani C, van Sinderen D, Turroni F, Ventura M. | Appl Environ Microbiol | 10.1128/aem.02014-23 | 2024 | |
| A Small-Molecule Inhibitor of Gut Bacterial Urease Protects the Host from Liver Injury. | Richards-Corke KC, Jiang Y, Yeliseyev V, Zhang Y, Franzosa EA, Wang ZA, Yapa Abeywardana M, Cole PA, Huttenhower C, Bry L, Balskus EP. | ACS Chem Biol | 10.1021/acschembio.3c00556 | 2025 | | |
| Diet-driven differential response of Akkermansia muciniphila modulates pathogen susceptibility. | Wolter M, Grant ET, Boudaud M, Pudlo NA, Pereira GV, Eaton KA, Martens EC, Desai MS. | Mol Syst Biol | 10.1038/s44320-024-00036-7 | 2024 | | |
| Heterologous expression and antimicrobial potential of class II bacteriocins. | Elisa Heesemann Rosenkilde C, Olsen Lutzhoft D, Vazquez-Uribe R, Otto Alexander Sommer M. | Gut Microbes | 10.1080/19490976.2024.2369338 | 2024 | | |
| Pathogenicity | Quantifying the varying harvest of fermentation products from the human gut microbiota. | Arnoldini M, Sharma R, Moresi C, Chure G, Chabbey J, Slack E, Cremer J. | Cell | 10.1016/j.cell.2025.07.005 | 2025 | |
| Deciphering oxidative stress responses in human gut microbes and fecal microbiota: a cultivation-based approach. | Zund JN, Caflisch M, Mujezinovic D, Pluss S, Lacroix C, Pugin B. | FEMS Microbiol Ecol | 10.1093/femsec/fiaf054 | 2025 | | |
| Transcriptome | Simplified Intestinal Microbiota to Study Microbe-Diet-Host Interactions in a Mouse Model. | Kovatcheva-Datchary P, Shoaie S, Lee S, Wahlstrom A, Nookaew I, Hallen A, Perkins R, Nielsen J, Backhed F. | Cell Rep | 10.1016/j.celrep.2019.02.090 | 2019 | |
| Pathogenicity | Constructing a gnotobiotic mouse model with a synthetic human gut microbiome to study host-microbe cross talk. | Steimle A, De Sciscio A, Neumann M, Grant ET, Pereira GV, Ohno H, Martens EC, Desai MS. | STAR Protoc | 10.1016/j.xpro.2021.100607 | 2021 | |
| Maternal diet and gut microbiome composition modulate early-life immune development. | Grant ET, Boudaud M, Muller A, Muller A, Macpherson AJ, Desai MS. | EMBO Mol Med | 10.15252/emmm.202217241 | 2023 | | |
| Dynamic metabolic interactions and trophic roles of human gut microbes identified using a minimal microbiome exhibiting ecological properties. | Shetty SA, Kostopoulos I, Geerlings SY, Smidt H, de Vos WM, Belzer C. | ISME J | 10.1038/s41396-022-01255-2 | 2022 | | |
| Mucolytic bacteria license pathobionts to acquire host-derived nutrients during dietary nutrient restriction. | Sugihara K, Kitamoto S, Saraithong P, Nagao-Kitamoto H, Hoostal M, McCarthy C, Rosevelt A, Muraleedharan CK, Gillilland MG, Imai J, Omi M, Bishu S, Kao JY, Alteri CJ, Barnich N, Schmidt TM, Nusrat A, Inohara N, Golob JL, Kamada N. | Cell Rep | 10.1016/j.celrep.2022.111093 | 2022 | | |
| Opposing diet, microbiome, and metabolite mechanisms regulate inflammatory bowel disease in a genetically susceptible host. | Pereira GV, Boudaud M, Wolter M, Alexander C, De Sciscio A, Grant ET, Trindade BC, Pudlo NA, Singh S, Campbell A, Shan M, Zhang L, Yang Q, Willieme S, Kim K, Denike-Duval T, Fuentes J, Bleich A, Schmidt TM, Kennedy L, Lyssiotis CA, Chen GY, Eaton KA, Desai MS, Martens EC. | Cell Host Microbe | 10.1016/j.chom.2024.03.001 | 2024 | | |
| Metabolism | SIMMER employs similarity algorithms to accurately identify human gut microbiome species and enzymes capable of known chemical transformations. | Bustion AE, Nayak RR, Agrawal A, Turnbaugh PJ, Pollard KS. | Elife | 10.7554/elife.82401 | 2023 | |
| Pathogenicity | The Use of Defined Microbial Communities To Model Host-Microbe Interactions in the Human Gut. | Elzinga J, van der Oost J, de Vos WM, Smidt H. | Microbiol Mol Biol Rev | 10.1128/mmbr.00054-18 | 2019 | |
| Deciphering microbial interactions in synthetic human gut microbiome communities. | Venturelli OS, Carr AC, Fisher G, Hsu RH, Lau R, Bowen BP, Hromada S, Northen T, Arkin AP. | Mol Syst Biol | 10.15252/msb.20178157 | 2018 | | |
| Metabolism | Methotrexate impacts conserved pathways in diverse human gut bacteria leading to decreased host immune activation. | Nayak RR, Alexander M, Deshpande I, Stapleton-Gray K, Rimal B, Patterson AD, Ubeda C, Scher JU, Turnbaugh PJ. | Cell Host Microbe | 10.1016/j.chom.2020.12.008 | 2021 | |
| Development of an in vitro Model of Human Gut Microbiota for Screening the Reciprocal Interactions With Antibiotics, Drugs, and Xenobiotics. | El Houari A, Ecale F, Mercier A, Crapart S, Laparre J, Soulard B, Ramnath M, Berjeaud JM, Rodier MH, Crepin A. | Front Microbiol | 10.3389/fmicb.2022.828359 | 2022 | | |
| Enzymology | Molecular diversity, cultivation, and improved detection by fluorescent in situ hybridization of a dominant group of human gut bacteria related to Roseburia spp. or Eubacterium rectale. | Aminov RI, Walker AW, Duncan SH, Harmsen HJ, Welling GW, Flint HJ. | Appl Environ Microbiol | 10.1128/aem.00701-06 | 2006 | |
| Metabolism | Recurrent neural networks enable design of multifunctional synthetic human gut microbiome dynamics. | Baranwal M, Clark RL, Thompson J, Sun Z, Hero AO, Venturelli OS. | Elife | 10.7554/elife.73870 | 2022 | |
| A Dietary Fiber-Deprived Gut Microbiota Degrades the Colonic Mucus Barrier and Enhances Pathogen Susceptibility. | Desai MS, Seekatz AM, Koropatkin NM, Kamada N, Hickey CA, Wolter M, Pudlo NA, Kitamoto S, Terrapon N, Muller A, Young VB, Henrissat B, Wilmes P, Stappenbeck TS, Nunez G, Martens EC. | Cell | 10.1016/j.cell.2016.10.043 | 2016 | | |
| Pathogenicity | Inhibitory activity spectrum of reuterin produced by Lactobacillus reuteri against intestinal bacteria. | Cleusix V, Lacroix C, Vollenweider S, Duboux M, Le Blay G. | BMC Microbiol | 10.1186/1471-2180-7-101 | 2007 | |
| Metabolism | pH and peptide supply can radically alter bacterial populations and short-chain fatty acid ratios within microbial communities from the human colon. | Walker AW, Duncan SH, McWilliam Leitch EC, Child MW, Flint HJ. | Appl Environ Microbiol | 10.1128/aem.71.7.3692-3700.2005 | 2005 | |
| Cultivation | MediaMatch: Prediction of Bacterial Growth on Different Culture Media Using the XGBoost Algorithm. | Liu J, Xu G, Liu W, Liu T, Li Y, Tu T, Luo H, Wu N, Yao B, Tian J, Zhang J, Guan F. | Microb Biotechnol | 10.1111/1751-7915.70245 | 2025 | |
| Pathogenicity | Collinsella aerofaciens Produces a pH-Responsive Lipid Immunogen. | Kwon J, Bae M, Szamosvari D, Cassilly CD, Bolze AS, Jackson DR, Xavier RJ, Clardy J. | J Am Chem Soc | 10.1021/jacs.3c00250 | 2023 | |
| The microbiome diversifies long- to short-chain fatty acid-derived N-acyl lipids. | Mannochio-Russo H, Charron-Lamoureux V, van Faassen M, Lamichhane S, Goncalves Nunes WD, Deleray V, Ayala AV, Tanaka Y, Patan A, Vittali K, Rajkumar P, El Abiead Y, Zhao HN, Gomes PWP, Mohanty I, Lee C, Sund A, Sharma M, Liu Y, Pattynama D, Walker GT, Norton GJ, Khatib L, Andalibi MS, Wang CX, Ellis RJ, Moore DJ, Iudicello JE, Franklin D, Letendre S, Chin L, Walker C, Renwick S, Zemlin J, Meehan MJ, Song X, Kasper D, Burcham Z, Kim JJ, Kadakia S, Raffatellu M, Bode L, Chu H, Zengler K, Wang M, Siegel D, Knight R, Dorrestein PC. | Cell | 10.1016/j.cell.2025.05.015 | 2025 | | |
| A Gnotobiotic Mouse Model with Divergent Equol-Producing Phenotypes: Potential for Determining Microbial-Driven Health Impacts of Soy Isoflavone Daidzein. | Leonard LM, Simpson AMR, Li S, Reddivari L, Cross TL. | Nutrients | 10.3390/nu16071079 | 2024 | | |
| A widely distributed gene cluster compensates for uricase loss in hominids. | Liu Y, Jarman JB, Low YS, Augustijn HE, Huang S, Chen H, DeFeo ME, Sekiba K, Hou BH, Meng X, Weakley AM, Cabrera AV, Zhou Z, van Wezel G, Medema MH, Ganesan C, Pao AC, Gombar S, Dodd D. | Cell | 10.1016/j.cell.2023.06.010 | 2023 | | |
| Identifying glycan consumers in human gut microbiota samples using metabolic labeling coupled with fluorescence-activated cell sorting. | Dridi L, Altamura F, Gonzalez E, Lui O, Kubinski R, Pidgeon R, Montagut A, Chong J, Xia J, Maurice CF, Castagner B. | Nat Commun | 10.1038/s41467-023-36365-8 | 2023 | | |
| The genomic landscape of reference genomes of cultivated human gut bacteria. | Lin X, Hu T, Chen J, Liang H, Zhou J, Wu Z, Ye C, Jin X, Xu X, Zhang W, Jing X, Yang T, Wang J, Yang H, Kristiansen K, Xiao L, Zou Y. | Nat Commun | 10.1038/s41467-023-37396-x | 2023 | | |
| Development of culture methods capable of culturing a wide range of predominant species of intestinal bacteria. | Hirano R, Nishita I, Nakai R, Bito A, Sasabe R, Kurihara S. | Front Cell Infect Microbiol | 10.3389/fcimb.2023.1056866 | 2023 | | |
| Metabolism | Bioremediation of a Common Product of Food Processing by a Human Gut Bacterium. | Wolf AR, Wesener DA, Cheng J, Houston-Ludlam AN, Beller ZW, Hibberd MC, Giannone RJ, Peters SL, Hettich RL, Leyn SA, Rodionov DA, Osterman AL, Gordon JI. | Cell Host Microbe | 10.1016/j.chom.2019.09.001 | 2019 | |
| Genetics | Discovery of antimicrobial peptides in the global microbiome with machine learning. | Santos-Junior CD, Torres MDT, Duan Y, Rodriguez Del Rio A, Schmidt TSB, Chong H, Fullam A, Kuhn M, Zhu C, Houseman A, Somborski J, Vines A, Zhao XM, Bork P, Huerta-Cepas J, de la Fuente-Nunez C, Coelho LP. | Cell | 10.1016/j.cell.2024.05.013 | 2024 | |
| Identification of a 10-species microbial signature of inflammatory bowel disease by machine learning and external validation. | Yu S, Li J, Ye Z, Zhang M, Guo X, Wang X, Liu L, Wang Y, Zhou X, Fu W, Zhang MQ, Chen YG. | Cell Regen | 10.1186/s13619-025-00246-w | 2025 | | |
| The Regulation of Nucleic Acid Vaccine Responses by the Microbiome. | Johnson AMF, Hager K, Alameh MG, Van P, Potchen N, Mayer-Blackwell K, Fiore-Gartland A, Minot S, Lin PJC, Tam YK, Weissman D, Kublin JG. | J Immunol | 10.4049/jimmunol.2300196 | 2023 | | |
| Enriched pathways in gut microbiome predict response to immune checkpoint inhibitor treatment across demographic regions and various cancer types. | Cai X, Cho JY, Chen L, Liu Y, Ji F, Salgado K, Ge S, Yang D, Yu H, Shao J, Futreal PA, Sepesi B, Gibbons D, Chen Y, Wang G, Cheng C, Wu M, Zhang J, Hsiao A, Xia T. | iScience | 10.1016/j.isci.2025.112162 | 2025 | | |
| Deep learning for HGT insertion sites recognition. | Li C, Chen J, Li SC. | BMC Genomics | 10.1186/s12864-020-07296-1 | 2020 | | |
| Enzymology | Two distinct gut microbial pathways contribute to meta-organismal production of phenylacetylglutamine with links to cardiovascular disease. | Zhu Y, Dwidar M, Nemet I, Buffa JA, Sangwan N, Li XS, Anderson JT, Romano KA, Fu X, Funabashi M, Wang Z, Keranahalli P, Battle S, Tittle AN, Hajjar AM, Gogonea V, Fischbach MA, DiDonato JA, Hazen SL. | Cell Host Microbe | 10.1016/j.chom.2022.11.015 | 2023 | |
| Genetics | A Genomic Toolkit for the Mechanistic Dissection of Intractable Human Gut Bacteria. | Bisanz JE, Soto-Perez P, Noecker C, Aksenov AA, Lam KN, Kenney GE, Bess EN, Haiser HJ, Kyaw TS, Yu FB, Rekdal VM, Ha CWY, Devkota S, Balskus EP, Dorrestein PC, Allen-Vercoe E, Turnbaugh PJ. | Cell Host Microbe | 10.1016/j.chom.2020.04.006 | 2020 | |
| Human gut Actinobacteria boost drug absorption by secreting P-glycoprotein ATPase inhibitors. | Kyaw TS, Zhang C, Sandy M, Trepka K, Zhang S, Ramirez Hernandez LA, Ramirez L, Goh JJN, Yu K, Dimassa V, Bess EN, Brockert JG, Dumlao DS, Bisanz JE, Turnbaugh PJ. | iScience | 10.1016/j.isci.2024.110122 | 2024 | | |
| Implications of Flagellar Attachment Zone Proteins TcGP72 and TcFLA-1BP in Morphology, Proliferation, and Intracellular Dynamics in Trypanosoma cruzi. | Souza-Melo N, de Lima Alcantara C, Vidal JC, Rocha GM, de Souza W. | Pathogens | 10.3390/pathogens12111367 | 2023 | | |
| Genetics | Functional metagenomics reveals novel salt tolerance loci from the human gut microbiome. | Culligan EP, Sleator RD, Marchesi JR, Hill C. | ISME J | 10.1038/ismej.2012.38 | 2012 | |
| Metabolism | Intestinal microbiota composition modulates choline bioavailability from diet and accumulation of the proatherogenic metabolite trimethylamine-N-oxide. | Romano KA, Vivas EI, Amador-Noguez D, Rey FE. | mBio | 10.1128/mbio.02481-14 | 2015 | |
| Deep-learning-enabled antibiotic discovery through molecular de-extinction. | Wan F, Torres MDT, Peng J, de la Fuente-Nunez C. | Nat Biomed Eng | 10.1038/s41551-024-01201-x | 2024 | | |
| Pathogenicity | Microbiota-derived bile acids antagonize the host androgen receptor and drive anti-tumor immunity. | Jin WB, Xiao L, Jeong M, Han SJ, Zhang W, Yano H, Shi H, Arifuzzaman M, Lyu M, Wang D, Tang YA, Qiao S, JRI IBD Live Cell Bank Consortium, Yang X, Yang HS, Fu J, Sonnenberg GF, Collins N, Artis D, Guo CJ. | Cell | 10.1016/j.cell.2025.02.029 | 2025 | |
| Design, construction, and in vivo augmentation of a complex gut microbiome. | Cheng AG, Ho PY, Aranda-Diaz A, Jain S, Yu FB, Meng X, Wang M, Iakiviak M, Nagashima K, Zhao A, Murugkar P, Patil A, Atabakhsh K, Weakley A, Yan J, Brumbaugh AR, Higginbottom S, Dimas A, Shiver AL, Deutschbauer A, Neff N, Sonnenburg JL, Huang KC, Fischbach MA. | Cell | 10.1016/j.cell.2022.08.003 | 2022 | | |
| Metabolism | Strain dropouts reveal interactions that govern the metabolic output of the gut microbiome. | Wang M, Osborn LJ, Jain S, Meng X, Weakley A, Yan J, Massey WJ, Varadharajan V, Horak A, Banerjee R, Allende DS, Chan ER, Hajjar AM, Wang Z, Dimas A, Zhao A, Nagashima K, Cheng AG, Higginbottom S, Hazen SL, Brown JM, Fischbach MA. | Cell | 10.1016/j.cell.2023.05.037 | 2023 | |
| Metabolism | Systematic assessment of secondary bile acid metabolism in gut microbes reveals distinct metabolic capabilities in inflammatory bowel disease. | Heinken A, Ravcheev DA, Baldini F, Heirendt L, Fleming RMT, Thiele I. | Microbiome | 10.1186/s40168-019-0689-3 | 2019 | |
| Genetics | Metagenomic binning and association of plasmids with bacterial host genomes using DNA methylation. | Beaulaurier J, Zhu S, Deikus G, Mogno I, Zhang XS, Davis-Richardson A, Canepa R, Triplett EW, Faith JJ, Sebra R, Schadt EE, Fang G. | Nat Biotechnol | 10.1038/nbt.4037 | 2018 | |
| Metabolism | The microbial gbu gene cluster links cardiovascular disease risk associated with red meat consumption to microbiota L-carnitine catabolism. | Buffa JA, Romano KA, Copeland MF, Cody DB, Zhu W, Galvez R, Fu X, Ward K, Ferrell M, Dai HJ, Skye S, Hu P, Li L, Parlov M, McMillan A, Wei X, Nemet I, Koeth RA, Li XS, Wang Z, Sangwan N, Hajjar AM, Dwidar M, Weeks TL, Bergeron N, Krauss RM, Tang WHW, Rey FE, DiDonato JA, Gogonea V, Gerberick GF, Garcia-Garcia JC, Hazen SL. | Nat Microbiol | 10.1038/s41564-021-01010-x | 2022 | |
| Genetics | Systematic genome assessment of B-vitamin biosynthesis suggests co-operation among gut microbes. | Magnusdottir S, Ravcheev D, de Crecy-Lagard V, Thiele I. | Front Genet | 10.3389/fgene.2015.00148 | 2015 | |
| Rapid PCR Detection of Mycoplasma hominis, Ureaplasma urealyticum, and Ureaplasma parvum. | Cunningham SA, Mandrekar JN, Rosenblatt JE, Patel R. | Int J Bacteriol | 10.1155/2013/168742 | 2013 | | |
| Enzymology | Use of 16S rRNA gene-targeted group-specific primers for real-time PCR analysis of predominant bacteria in human feces. | Matsuki T, Watanabe K, Fujimoto J, Takada T, Tanaka R. | Appl Environ Microbiol | 10.1128/aem.70.12.7220-7228.2004 | 2004 | |
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| Genetics | Gut microbiota, immune cell, colorectal cancer association mediators: a Mendelian randomization study. | Li Y, Zhuang M, Mei S, Hu G, Zhang J, Qiu W, Wang X, Tang J. | BMC Cancer | 10.1186/s12885-025-13574-6 | 2025 | |
| Intestinal Microbiota Composition in Patients with Type 2 Diabetes and Effects of Oral Antidiabetics. | Kalkan AT, Yorulmaz G, Akalin A, Dinleyici EC. | J Clin Med | 10.3390/jcm14082786 | 2025 | | |
| The multiple sclerosis gut microbiome and disease activity: A systematic review. | Jette S, de Schaetzen C, Tsai CC, Tremlett H. | Mult Scler Relat Disord | 10.1016/j.msard.2024.106151 | 2024 | | |
| Characterization of the preweaned Holstein calf fecal microbiota prior to, during, and following resolution of uncomplicated gastrointestinal disease. | Claus-Walker RA, Slanzon GS, Elder LA, Hinnant HR, Mandella CM, Parrish LM, Trombetta SC, McConnel CS. | Front Microbiol | 10.3389/fmicb.2024.1388489 | 2024 | | |
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| Genetics | Multikingdom characterization of gut microbiota in patients with rheumatoid arthritis and rheumatoid arthritis-associated interstitial lung disease. | Xing Y, Liu Y, Sha S, Zhang Y, Dou Y, Liu C, Xu M, Zhao L, Wang J, Wang Y, Ma X, Yan Q, Kong X. | J Med Virol | 10.1002/jmv.29781 | 2024 | |
| Genetics | Characterizations of gut bacteriome, mycobiome, and virome of healthy individuals living in sea-level and high-altitude areas. | Xiao Z, Zhang Y, Zhang W, Zhang A, Wang G, Chen C, Ullah H, Ayaz T, Li S, Zhaxi D, Yan Q, Kang J, Xu X. | Int Microbiol | 10.1007/s10123-024-00531-9 | 2025 | |
| Association of gut microbiome with immune microenvironment in surgically treated colorectal cancer patients. | Han N, Chang HJ, Yeo HY, Kim BC, Kim B, Park SC, Kim J, Park JW, Oh JH. | Pathology | 10.1016/j.pathol.2024.01.010 | 2024 | | |
| Functional Abdominal Bloating Is Associated With Gut Microbiota Dysbiosis and Altered Intestinal Barrier Function: Experimental Evidence. | Akkoyunlu DS, Celebi A, Gur B, Kanli A, Ugurtas C, Ozer T, Sarikaya NK, Keskin SE, Cine N, Savli H. | In Vivo | 10.21873/invivo.14130 | 2025 | | |
| Metabolism | Integrated analysis of gut microbiota, fecal and serum metabolites in type 2 diabetes mellitus with peripheral neuropathy. | Xu W, Wang Q, Yang Y, Sun S, Qi H, He J, Jin T, Yao P, Wang J, Lin F. | J Endocrinol Invest | 10.1007/s40618-025-02640-2 | 2025 | |
| Gut microbiota modulation, prebiotic and bioactive characteristics of date pomace polysaccharides extracted by microwave-assisted deep eutectic solvent. | Bamigbade GB, Subhash AJ, Al-Ramadi B, Kamal-Eldin A, Gan RY, Liu SQ, Ayyash M. | Int J Biol Macromol | 10.1016/j.ijbiomac.2024.130167 | 2024 | | |
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| Phylogeny | Optimizing Fecal Occult Blood Test (FOBT) Colorectal Cancer Screening Using Gut Bacteriome as a Biomarker. | Chowdhury MR, Hone KGMS, Prevost K, Balthazar P, Avino M, Arguin M, Beaudoin J, Malick M, Desgagne M, Robert G, Scott M, Dube J, Laforest-Lapointe I, Masse E. | Clin Colorectal Cancer | 10.1016/j.clcc.2023.10.004 | 2024 | |
| Fecal microbiome analysis in patients with metabolic syndrome and type 2 diabetes. | Sinisterra Loaiza LI, Fernandez-Edreira D, Linares-Blanco J, Cepeda A, Cardelle-Cobas A, Fernandez-Lozano C. | PeerJ | 10.7717/peerj.19108 | 2025 | | |
| Microbiota dysbiosis associated with type 2 diabetes-like effects caused by chronic exposure to a mixture of chlorinated persistent organic pollutants in zebrafish. | Lee H, Yoon S, Park YH, Lee JS, Rhyu DY, Kim KT. | Environ Pollut | 10.1016/j.envpol.2023.122108 | 2023 | | |
| Genetics | Metagenome-guided culturomics for the targeted enrichment of gut microbes. | Armetta J, Li SS, Vaaben TH, Vazquez-Uribe R, Sommer MOA. | Nat Commun | 10.1038/s41467-024-55668-y | 2025 | |
| Heptamethoxyflavone Alleviates Metabolic Syndrome in High-Fat Diet-Fed Mice by Regulating the Composition, Function, and Metabolism of Gut Microbiota. | Feng K, Zhang H, Chen C, Ho CT, Kang M, Zhu S, Xu J, Deng X, Huang Q, Cao Y. | J Agric Food Chem | 10.1021/acs.jafc.3c01881 | 2023 | | |
| Effects of Italian Mediterranean Organic Diet on the Gut Microbiota: A Pilot Comparative Study with Conventional Products and Free Diet. | Di Renzo L, Frank G, Pala B, Cianci R, La Placa G, Raffaelli G, Palma R, Peluso D, De Lorenzo A, Gualtieri P, On Behalf Of Clinical Nutrition And Nutrigenomics Project Group. | Microorganisms | 10.3390/microorganisms13071694 | 2025 | | |
| Phylogeny | BN-BacArena: Bayesian network extension of BacArena for the dynamic simulation of microbial communities. | Blasco T, Balzerani F, Valcarcel LV, Larranaga P, Bielza C, Francino MP, Rufian-Henares JA, Planes FJ, Perez-Burillo S. | Bioinformatics | 10.1093/bioinformatics/btae266 | 2024 | |
| Phylogeny | Collinsella aerofaciens as a predictive marker of response to probiotic treatment in non-constipated irritable bowel syndrome. | Gargari G, Mantegazza G, Cremon C, Taverniti V, Valenza A, Barbaro MR, Marasco G, Duncan R, Fiore W, Ferrari R, De Vitis V, Barbara G, Guglielmetti S. | Gut Microbes | 10.1080/19490976.2023.2298246 | 2024 | |
| Traditional Medicine Pien Tze Huang Suppresses Colorectal Tumorigenesis Through Restoring Gut Microbiota and Metabolites. | Gou H, Su H, Liu D, Wong CC, Shang H, Fang Y, Zeng X, Chen H, Li Y, Huang Z, Fan M, Wei C, Wang X, Zhang X, Li X, Yu J. | Gastroenterology | 10.1053/j.gastro.2023.08.052 | 2023 | | |
| Multi-cohort analysis unveils novel microbial targets for the treatment of hyperuricemia and gout. | Qie J, Cao M, Xu M, Zhang Y, Luo L, Sun C, Ke D, Yuan S, Jia W, Qiu T, Li T, Du X, Xiao C, Hong Z, Zhang B. | mSystems | 10.1128/msystems.01091-25 | 2025 | | |
| Gut Microbiome and Symptom Burden in Obese and Non-Obese Women Receiving Chemotherapy for Breast Cancer. | Cherwin CH, Hoang J, Roberts EK, Mangalam A. | Biol Res Nurs | 10.1177/10998004251318397 | 2025 | | |
| Metabolism | Collinsella aerofaciens linked with increased ethanol production and liver inflammation contribute to the pathophysiology of NAFLD. | Purohit A, Kandiyal B, Kumar S, Pragasam AK, Kamboj P, Talukdar D, Verma J, Sharma V, Sarkar S, Mahajan D, Yadav R, Ahmed R, Nanda R, Dikshit M, Banerjee SK, Shalimar, Das B. | iScience | 10.1016/j.isci.2023.108764 | 2024 | |
| Gut microbiota profile in adults with abdominal obesity and non-abdominal obesity: links to body composition and macronutrient intake in Semarang, Indonesia-a brief research report. | Fadhillah FS, Arafat FB, Maharani N, Fadhilah J, Zariyah H, Sobirin MA, Tsutsui H, Wibowo A, Juniarto AZ, Pramono A. | Front Nutr | 10.3389/fnut.2025.1648575 | 2025 | | |
| Microbial Ecosystem Therapeutics 4 (MET4) elicits treatment-specific IgG responses associated with changes in gut microbiota in immune checkpoint inhibitor recipients with advanced solid tumors. | Wong MK, Boukhaled GM, Armstrong E, Liu R, Heirali AA, Yee NR, Tsang J, Spiliopoulou P, Schneeberger PHH, Wang BX, Cochrane K, Sherriff K, Allen-Vercoe E, Siu LL, Spreafico A, Coburn B. | J Immunother Cancer | 10.1136/jitc-2024-010681 | 2025 | | |
| Comparison of the gut microbiota in older people with and without sarcopenia: a systematic review and meta-analysis. | Ren Y, He X, Wang L, Chen N. | Front Cell Infect Microbiol | 10.3389/fcimb.2025.1480293 | 2025 | | |
| Phylogeny | Fecal Microbiota Characteristics in Constipation-Predominant and Mixed-Type Irritable Bowel Syndrome. | Gryaznova M, Smirnova Y, Burakova I, Morozova P, Lagutina S, Chizhkov P, Korneeva O, Syromyatnikov M. | Microorganisms | 10.3390/microorganisms12071414 | 2024 | |
| Gut microbiota from patients with Parkinson's disease causes motor deficits in honeybees. | Zeng J, Li Y, Yan J, Chang R, Xu M, Zhou G, Meng J, Liu D, Mao Z, Yang Y. | Front Microbiol | 10.3389/fmicb.2024.1418857 | 2024 | | |
| The Bacterial Composition of the Gut Microbiota of Mexicans with Overweight and Obesity: A Systematic Review | Samudio-Cruz M, Luna-Angulo A, Cabrera-Ruiz E, Landa-Solis C, Rangel-Lopez E, Carrillo-Mora P, Rios-Martinez J, Toledo-Perez R, Paniagua-Perez R, Martinez-Canseco C, Lino-Gonzalez A, Saldana Solano A, Sanchez-Chapul L. | Microorganisms | 2025 | | ||
| Exploring the role of acylated ghrelin and gut microbiome in delineating cognitive health in the elderly. | Rout S, Dash R, Satish V, Venugopal G, Rao BN, Bandhyopadhyay D, Bhoi SK, Ramadass B. | Aging (Albany NY) | 10.18632/aging.206200 | 2025 | | |
| Red meat consumption in higher healthy eating index diets is associated with brain health critical nutritional adequacy, and fecal microbial diversity. | Dhakal S, Hossain M, Parajuli S. | Sci Rep | 10.1038/s41598-025-18907-w | 2025 | | |
| Phylogeny | Culture-based characterization of gut microbiota in inflammatory bowel disease. | Park H, Yeo S, Lee T, Han Y, Ryu CB, Huh CS. | Front Microbiol | 10.3389/fmicb.2025.1538620 | 2025 | |
| Isolated White Lupin Proteins Beneficially Modulate the Intestinal Microbiota Composition in Rats. | Rubio LA, Chiesa G. | Nutrients | 10.3390/nu17030551 | 2025 | | |
| Gut Microbiome and Intestinal Colonization with Multidrug-Resistant Strains of Enterobacterales: An Interplay Between Microbial Communities. | Kocsis B, Szabo D, Sipos L. | Antibiotics (Basel) | 10.3390/antibiotics14090890 | 2025 | | |
| Transcriptome | Gut metatranscriptomics based de novo assembly reveals microbial signatures predicting immunotherapy outcomes in non-small cell lung cancer. | Dora D, Kiraly P, Somodi C, Ligeti B, Dulka E, Galffy G, Lohinai Z. | J Transl Med | 10.1186/s12967-024-05835-y | 2024 | |
| Pathogenicity | Unraveling the gut microbiota's role in obesity: key metabolites, microbial species, and therapeutic insights. | Iqbal M, Yu Q, Tang J, Xiang J. | J Bacteriol | 10.1128/jb.00479-24 | 2025 | |
| Gut microbiota of elite female football players is not altered during an official international tournament. | Oliveira CB, Marques C, Abreu R, Figueiredo P, Calhau C, Brito J, Sousa M. | Scand J Med Sci Sports | 10.1111/sms.14096 | 2022 | | |
| The effect of culturing temperature on the growth of the most dominant bacterial species of human gut microbiota and harmful bacterial species. | Shimokawa H, Sakakibara H, Ami Y, Hirano R, Kurihara S. | Biosci Microbiota Food Health | 10.12938/bmfh.2024-087 | 2025 | | |
| Differences in the faecal microbiome of obese and non-obese pregnant women: a matched cohort study in Sweden. | Patavoukas E, Tong B, Gudnadottir U, Charalampous K, Brusselaers N, Schuppe-Koistinen I, Engstrand L, Fransson E, Wiberg-Itzel E, Hugerth L. | BMC Microbiol | 10.1186/s12866-025-04473-8 | 2025 | | |
| BNT162b2 mRNA vaccination affects the gut microbiome composition of patients with follicular lymphoma and chronic lymphocytic leukemia. | Chiarenza A, Aluisio GV, Parrinello NL, Marino S, Corsale AM, Privitera GF, Azgomi M, La Spina E, Cambria D, Curtopelle A, Isola G, Botta C, Di Raimondo F, Romano A, Santagati M. | Biomark Res | 10.1186/s40364-025-00734-w | 2025 | | |
| Signs of aging in midlife: physical function and sex differences in microbiota. | Tzemah-Shahar R, Turjeman S, Sharon E, Gamliel G, Hochner H, Koren O, Agmon M. | Geroscience | 10.1007/s11357-023-00905-3 | 2024 | | |
| Eggerthella lenta down regulated flavone and flavonol biosynthesis promoted Kawasaki disease. | Yeh YT, Chen KD, Huang CH, Tsai JR, Kuo HC. | Virulence | 10.1080/21505594.2025.2512401 | 2025 | | |
| Exploring the Interplay Between Gut Microbiota and the Melatonergic Pathway in Hormone Receptor-Positive Breast Cancer. | Laborda-Illanes A, Boutriq S, Aranega-Martin L, Castellano-Castillo D, Sanchez-Alcoholado L, Plaza-Andrades I, Peralta-Linero J, Alba E, Fernandez-Garcia JC, Gonzalez-Gonzalez A, Queipo-Ortuno MI. | Int J Mol Sci | 10.3390/ijms26146801 | 2025 | | |
| Genetics | Impact of Fecal Microbiota Transplantation on Gut Bacterial Bile Acid Metabolism in Humans. | Bustamante JM, Dawson T, Loeffler C, Marfori Z, Marchesi JR, Mullish BH, Thompson CC, Crandall KA, Rahnavard A, Allegretti JR, Cummings BP. | Nutrients | 10.3390/nu14245200 | 2022 | |
| Adjudicative efficacy of Bifidobacterium animalis subsp. lactis BLa80 in treating acute diarrhea in children: a randomized, double-blinded, placebo-controlled study. | Chen K, Jin S, Ma Y, Cai L, Xu P, Nie Y, Luo L, Yu Q, Shen Y, Zhou Z, Liu C. | Eur J Clin Nutr | 10.1038/s41430-024-01428-6 | 2024 | | |
| Metabolism | Systematic identification of secondary bile acid production genes in global microbiome. | Yang Y, Gao W, Zhu R, Tao L, Chen W, Zhu X, Shen M, Xu T, Zhao T, Zhang X, Zhu L, Jiao N. | mSystems | 10.1128/msystems.00817-24 | 2025 | |
| Fecal Proteolytic Bacteria and Staphylococcal Superantigens Are Associated With Abdominal Pain Severity in Irritable Bowel Syndrome. | Quan R, Decraecker L, Appeltans I, Cuende-Estevez M, Van Remoortel S, Aguilera-Lizarraga J, Wang Z, Hicks G, Wykosky J, McLean P, Denadai-Souza A, Hussein H, Boeckxstaens GE. | Am J Gastroenterol | 10.14309/ajg.0000000000003042 | 2025 | | |
| Exploring the Characteristics of Intestinal Microbiota in Hematologic Malignancy Patients via 16s rDNA High-Throughput Sequencing. | Pei Z, Xiaowei W, Yajuan L, Yuanhong X. | Clin Lab | 10.7754/clin.lab.2020.200448 | 2021 | | |
| Phylogeny | Evaluation of Gut Microbiota in Healthy Persons and Type 1 Diabetes Mellitus Patients in North-Western Russia. | Chukhlovin AB, Dudurich VV, Kusakin AV, Polev DE, Ermachenko ED, Aseev MV, Zakharov YA, Eismont YA, Danilov LG, Glotov OS. | Microorganisms | 10.3390/microorganisms11071813 | 2023 | |
| Rethinking Short-Chain Fatty Acids: A Closer Look at Propionate in Inflammation, Metabolism, and Mucosal Homeostasis | Facchin S, Calgaro M, Savarino E. | Cells | 2025 | | ||
| The effects of probiotic supplementation on cardiometabolic health in patients with prediabetes: a systematic review, meta-analysis, and GRADE assessment. | Liu R, Wong G. | Front Nutr | 10.3389/fnut.2025.1616476 | 2025 | | |
| Polygonati Rhizoma Prevents Glucocorticoid-Induced Growth Inhibition of Muscle via Promoting Muscle Angiogenesis Through Deoxycholic Acid. | Shi S, Li R, Han Y, Xie J, Wang S, Liu J, Wan F, Hou G, Liu Z, Sun X, Zuo B, Jia Z, Mei Z, Song T. | J Cachexia Sarcopenia Muscle | 10.1002/jcsm.13853 | 2025 | | |
| Fecal Bacterial Community and Metagenome Function in Asians with Type 2 Diabetes, According to Enterotypes. | Wu X, Park S. | Biomedicines | 10.3390/biomedicines10112998 | 2022 | | |
| Longitudinal gut microbiota composition of South African and Nigerian infants in relation to tetanus vaccine responses. | Iwase SC, Osawe S, Happel A-U, Gray CM, Holmes SP, Blackburn JM, Abimiku A, Jaspan HB. | Microbiol Spectr | 10.1128/spectrum.03190-23 | 2024 | | |
| Exploring the gut microbiota of healthy captive Asian elephants from various locations in Yunnan, China. | Wang Y, Wang Y, Zhou J, Bao M, Shah T, Yang S, Zheng J, Li Q, Hou Y, Wang B, Yuan R. | Front Microbiol | 10.3389/fmicb.2024.1403930 | 2024 | | |
| Improving the Nutritional Quality of Protein and Microbiota Effects in Additive- and Allergen-Free Cooked Meat Products. | Ayuso P, Quizhpe J, Yepes F, Miranzo D, Avellaneda A, Nieto G, Ros G. | Foods | 10.3390/foods13121792 | 2024 | | |
| Prospective Randomized, Double-Blind, Placebo-Controlled Study of a Standardized Oral Pomegranate Extract on the Gut Microbiome and Short-Chain Fatty Acids. | Sivamani RK, Chakkalakal M, Pan A, Nadora D, Min M, Dumont A, Burney WA, Chambers CJ. | Foods | 10.3390/foods13010015 | 2023 | | |
| Mendelian randomization analysis reveals a causal effect of Streptococcus salivarius on diabetic retinopathy through regulating host fasting glucose. | Li J, Zheng G, Jiang D, Deng C, Zhang Y, Ma Y, Su J. | J Cell Mol Med | 10.1111/jcmm.18200 | 2024 | | |
| Genetics | Comparison of gut microbiota in male MAFLD patients with varying liver stiffness. | Zhang Y, Yan S, Sheng S, Qin Q, Chen J, Li W, Li T, Gao X, Wang L, Ang L, Ding S. | Front Cell Infect Microbiol | 10.3389/fcimb.2022.873048 | 2022 | |
| Understanding the role of the gut microbiome in solid tumor responses to immune checkpoint inhibitors for personalized therapeutic strategies: a review. | Lim MY, Hong S, Nam YD. | Front Immunol | 10.3389/fimmu.2024.1512683 | 2024 | | |
| Pathogenicity | Hyperbaric Oxygen Therapy Reduces the Traumatic Brain Injury-Mediated Neuroinflammation Through Enrichment of Prevotella Copri in the Gut of Male Rats. | Nyam TE, Wee HY, Chiu MH, Tu KC, Wang CC, Yeh YT, Kuo CL. | Neurocrit Care | 10.1007/s12028-024-01997-1 | 2024 | |
| Impact of active lifestyle on the primary school children saliva microbiota composition. | Mancini A, Cerulli C, Vitucci D, Lasorsa VA, Parente D, Di Credico A, Orru S, Brustio PR, Lupo C, Rainoldi A, Schena F, Capasso M, Buono P. | Front Nutr | 10.3389/fnut.2023.1226891 | 2023 | | |
| Perspectives on the gut microbiota in patients with non-small cell lung cancer-Two-Sample Mendelian Randomization combined with bibliometric analysis (2001-2023). | Fu XQ, Wang J, Dai ZJ, Chang QX. | J Cardiothorac Surg | 10.1186/s13019-025-03584-7 | 2025 | | |
| Lactulose selectively stimulates members of the gut microbiota, as determined by multi-modal activity-based sorting. | Rasoulimehrabani H, Riva A, Inan D, Hodzic A, Hausmann B, Nikolov G, Khadem S, Hieger N, Wiesenbauer J, Kaiser C, Filz V, Bottcher T, Berry D. | Gut Microbes | 10.1080/19490976.2025.2525482 | 2025 | | |
| A Review of Fecal Microbiota Transplantation in Children-Exploring Its Role in the Treatment of Inflammatory Bowel Diseases. | Ko Y, Alaedin S, Fernando D, Zhou J, Ho V. | Medicina (Kaunas) | 10.3390/medicina60111899 | 2024 | | |
| High-fat diet and estrogen modulate the gut microbiota in a sex-dependent manner in mice. | Hases L, Stepanauskaite L, Birgersson M, Brusselaers N, Schuppe-Koistinen I, Archer A, Engstrand L, Williams C. | Commun Biol | 10.1038/s42003-022-04406-5 | 2023 | | |
| Systematic review of the impact of intestinal microbiota on vaccine responses. | Ardura-Garcia C, Curtis N, Zimmermann P. | NPJ Vaccines | 10.1038/s41541-024-01000-0 | 2024 | | |
| Similar bacterial signatures in the gut microbiota of type 1 and type 2 diabetes patients and its association with G protein-coupled receptor 41 and 43 gene expression. | Demirci M, Taner Z, Keskin FE, Ozyazar M, Kiraz N, Kocazeybek BS, Tokman HB. | J Diabetes Metab Disord | 10.1007/s40200-022-01068-2 | 2022 | | |
| Genetics | Revealing gut microbiota biomarkers associated with melanoma immunotherapy response and key bacteria-fungi interaction relationships: evidence from metagenomics, machine learning, and SHAP methodology. | Zhou Y, Han W, Feng Y, Wang Y, Liu X, Sun T, Xu J. | Front Immunol | 10.3389/fimmu.2025.1539653 | 2025 | |
| Effects of a 217-km mountain ultramarathon on the gut microbiota of an obese runner: A case report. | Saragiotto GK, de Oliveira LFV, Scharlack NK, de Oliveira MM, Freire FC, Simabuco FM, Sivieri K, Sartoratto A, Belli T, Antunes AEC. | Physiol Rep | 10.14814/phy2.70017 | 2024 | | |
| Severe Cognitive Decline in Long-term Care Is Related to Gut Microbiome Production of Metabolites Involved in Neurotransmission, Immunomodulation, and Autophagy. | Shoubridge AP, Carpenter L, Flynn E, Papanicolas LE, Collins J, Gordon D, Lynn DJ, Whitehead C, Leong LEX, Cations M, De Souza DP, Narayana VK, Choo JM, Wesselingh SL, Crotty M, Inacio MC, Ivey K, Taylor SL, Rogers GB. | J Gerontol A Biol Sci Med Sci | 10.1093/gerona/glaf053 | 2025 | | |
| Technical versus biological variability in a synthetic human gut community. | van de Velde C, Joseph C, Simoens K, Raes J, Bernaerts K, Faust K. | Gut Microbes | 10.1080/19490976.2022.2155019 | 2023 | | |
| Research trends and hotspots of metabolites and inflammatory bowel disease: a bibliometric analysis. | Lyu JQ, Xiao FJ, Wang KY, Liu YJ, Hui JM, Lin J. | Front Microbiol | 10.3389/fmicb.2025.1548233 | 2025 | | |
| Altered gut microbiome composition by appendectomy contributes to colorectal cancer. | Shi F, Liu G, Lin Y, Guo CL, Han J, Chu ESH, Shi C, Li Y, Zhang H, Hu C, Liu R, He S, Guo G, Chen Y, Zhang X, Coker OO, Wong SH, Yu J, She J. | Oncogene | 10.1038/s41388-022-02569-3 | 2023 | | |
| High-throughput workflow for cultivation and characterization of gut microbiota strains with anti-inflammatory properties and metabolite signature associated with gut-brain communication. | Dokic J, Dinic M, Sokovic Bajic S, Bisenic A, Mitrovic H, Jakovljevic S, Radojevic D, Brdaric E, Lukic J, Zivkovic M, Tolinacki M, Terzic-Vidojevic A, Golic N. | Sci Rep | 10.1038/s41598-025-93180-5 | 2025 | | |
| Microbiota Diversity in Non-Small Cell Lung Cancer Gut and Mouth Cavity Microbiota Diversity in Non-Small Cell Lung Cancer Patients. | Brisudova A, Bielnikova-Krystofova H, Motyka O, Fritzova D, Katuchova V, Ponikelska N, Skanderova D, Raclavsky V, Michalek J, Mittak M, Svecova P, Jakubec P, Rozsivalova D, Szkorupa M, Klein J, Skarda J, Kolar Z, Skopelidou V. | Pol J Microbiol | 10.33073/pjm-2023-044 | 2023 | | |
| Gut microbiota is associated with persistence of longer-term BNT162b2 vaccine immunogenicity. | Ng HY, Liao Y, Cheung CL, Zhang R, Chan KH, Seto WK, Leung WK, Hung IFN, Lam TTY, Cheung KS. | Front Immunol | 10.3389/fimmu.2025.1534787 | 2025 | | |
| Association of the human gut microbiota with vascular stiffness. | Cuadrat RRC, Goris T, Birukov A, Eichelmann F, Andrade BGN, Bang C, Franke A, Wittenbecher C, Schulze MB. | Sci Rep | 10.1038/s41598-023-40178-6 | 2023 | | |
| Dual regulatory effects of gut microbiota and their metabolites in rheumatoid arthritis: balancing pathogenic and protective mechanisms. | Xie X, Chen X, Wang X, Wang S, Qi P. | Front Immunol | 10.3389/fimmu.2025.1584023 | 2025 | | |
| Human milk oligosaccharides modulate the intestinal microbiome of healthy adults. | Jacobs JP, Lee ML, Rechtman DJ, Sun AK, Autran C, Niklas V. | Sci Rep | 10.1038/s41598-023-41040-5 | 2023 | | |
| Genetics | Mendelian randomization analyses support causal relationships between gut microbiome and longevity. | Chen S, Chen W, Wang X, Liu S. | J Transl Med | 10.1186/s12967-024-05823-2 | 2024 | |
| Phylogeny | Diet and the Gut Microbiome as Determinants Modulating Metabolic Outcomes in Young Obese Adults. | Livantsova EN, Leonov GE, Starodubova AV, Varaeva YR, Vatlin AA, Koshechkin SI, Korotkova TN, Nikityuk DB. | Biomedicines | 10.3390/biomedicines12071601 | 2024 | |
| Metabolism | Gut microbiome association with brain imaging markers, APOE genotype, calcium and vegetable intakes, and obesity in healthy aging adults. | Hammond TC, Green SJ, Jacobs Y, Chlipala GE, Xing X, Heil S, Chen A, Aware C, Flemister A, Stromberg A, Balchandani P, Lin AL. | Front Aging Neurosci | 10.3389/fnagi.2023.1227203 | 2023 | |
| Modulation of Gut Microbiota Using VSL#3 and Its Impact on Aortic Parameters in a Rat Model. | Altun M, Kucuk U, Yildirim N. | Anatol J Cardiol | 10.14744/anatoljcardiol.2025.5048 | 2025 | | |
| Metabolism | Impact of Co-Delivery of EGCG and Tuna Oil within a Broccoli Matrix on Human Gut Microbiota, Phenolic Metabolites and Short Chain Fatty Acids In Vitro. | Shi M, Watson E, Conlon M, Sanguansri L, Augustin MA. | Molecules | 10.3390/molecules27030656 | 2022 | |
| Disentangle beneficial effects of strain engraftment after fecal microbiota transplantation in subjects with MetSyn. | van der Vossen EWJ, Davids M, Voermans B, Wortelboer K, Hartstra AV, Koopen AM, de Groot P, Levin E, Nieuwdorp M. | Gut Microbes | 10.1080/19490976.2024.2388295 | 2024 | | |
| Tea Consumption and Gut Microbiome in Older Chinese Adults. | Wang L, Shu XO, Cai H, Yang Y, Xu W, Wu J, Cai Q, Zheng W, Yu D. | J Nutr | 10.1016/j.tjnut.2022.12.002 | 2023 | | |
| Fecal Microbiota Transplantation Using Donor Stool Obtained from Exercised Mice Suppresses Colonic Tumor Development Induced by Azoxymethane in High-Fat Diet-Induced Obese Mice. | Matsumoto H, Gu T, Yo S, Sasahira M, Monden S, Ninomiya T, Osawa M, Handa O, Umegaki E, Shiotani A. | Microorganisms | 10.3390/microorganisms13051009 | 2025 | | |
| Phylogeny | Evaluation of the gastric microbiota based on body mass index using 16S rRNA gene sequencing. | Lee SH, Kim EB, Park SC, Nam SJ, Cho H, Jeon HJ, Lee SP. | Front Cell Infect Microbiol | 10.3389/fcimb.2025.1651316 | 2025 | |
| Effects of feeding Saccharomyces cerevisiae fermentation postbiotic on the fecal microbial community of Holstein dairy calves. | Centeno-Martinez RE, Dong W, Klopp RN, Yoon I, Boerman JP, Johnson TA. | Anim Microbiome | 10.1186/s42523-023-00234-y | 2023 | | |
| Genetics | Early antimicrobial regimen shapes gut microbiota and health trajectories in pigs: a longitudinal study from weaning to finishing. | Correa F, Luise D, Palladino G, Estelle J, Turroni S, Scicchitano D, Babbi G, Rampelli S, Candela M, Martelli PL, Stefanelli C, Perez-Calvo E, Trevisi P. | Anim Microbiome | 10.1186/s42523-025-00477-x | 2025 | |
| Gut microbiota and clinical response to immune checkpoint inhibitor therapy in patients with advanced cancer. | Chang JW, Hsieh JJ, Tsai CY, Chiu HY, Lin YF, Wu CE, Shen YC, Hou MM, Chang CY, Chen JA, Chen CL, Chiu CT, Yeh YM, Chiu CH. | Biomed J | 10.1016/j.bj.2024.100698 | 2024 | | |
| Gut-skin axis: Emerging insights for gastroenterologists-a narrative review. | Singla N, Singla K, Attauabi M, Aggarwal D. | World J Gastrointest Pathophysiol | 10.4291/wjgp.v16.i3.108952 | 2025 | | |
| Phylogeny | Microbiota of vaccinated and non-vaccinated clinically inconspicuous and conspicuous piglets under natural Lawsonia intracellularis infection. | Hankel J, Sander S, Muthukumarasamy U, Strowig T, Kamphues J, Jung K, Visscher C. | Front Vet Sci | 10.3389/fvets.2022.1004506 | 2022 | |
| Detrimental effect of an early exposure to antibiotics on the outcomes of immunotherapy in a multi-tumor cohort of patients. | Guerrero P, Albarran V, Gonzalez-Merino C, Garcia de Quevedo C, Sotoca P, Chamorro J, Rosero DI, Barrill A, Alia V, Calvo JC, Moreno J, Perez de Aguado P, Alvarez-Ballesteros P, San Roman M, Serrano JJ, Soria A, Olmedo ME, Saavedra C, Cortes A, Gomez A, Lage Y, Ruiz A, Ferreiro MR, Longo F, Guerra E, Martinez-Delfrade I, Garrido P, Gajate P. | Oncologist | 10.1093/oncolo/oyae284 | 2025 | | |
| Evaluating the prebiotic activity of arabinogalactan on the human gut microbiota using 16S rRNA gene sequencing and Raman-activated cell sorting. | Rasoulimehrabani H, Khadem S, Hodzic A, Philipp M, Gallo R, Nikolov G, Seneca J, Ramesmayer J, Sivulic P, Berry D. | Microbiome Res Rep | 10.20517/mrr.2025.29 | 2025 | | |
| First Study on profiling of gut microbiome in wild and captive Sumatran orangutans (Pongo abelii). | Safika S, Indrawati A, Afiff U, Hastuti YT, Zureni Z, Jati AP. | Vet World | 10.14202/vetworld.2023.717-727 | 2023 | | |
| Phylogeny | Gut microbial changes in a specialist blister beetle larvae and their nutritional metabolic characteristics. | Ma J, Fu Z, Yang X, Ming W, Song X, Du C. | Ecol Evol | 10.1002/ece3.70184 | 2024 | |
| Pathogenicity | Association of Sarcopenia and Gut Microbiota Composition in Older Patients with Advanced Chronic Kidney Disease, Investigation of the Interactions with Uremic Toxins, Inflammation and Oxidative Stress. | Margiotta E, Caldiroli L, Callegari ML, Miragoli F, Zanoni F, Armelloni S, Rizzo V, Messa P, Vettoretti S. | Toxins (Basel) | 10.3390/toxins13070472 | 2021 | |
| Structural and digestive characters of a heteropolysaccharide fraction from tea (Camellia sinensis L.) flower. | Chen D, Wang A, Lv J, Tang C, Jin CH, Liu J, Zeng X, Wang L. | Food Chem X | 10.1016/j.fochx.2023.101058 | 2024 | | |
| Functional recovery outcomes following acute stroke is associated with abundance of gut microbiota related to inflammation, butyrate and secondary bile acid. | Hammond TC, Powell E, Green SJ, Chlipala G, Frank J, Yackzan AT, Yanckello LM, Chang YH, Xing X, Heil S, Springer JE, Pennypacker K, Stromberg A, Sawaki L, Lin AL. | Front Rehabil Sci | 10.3389/fresc.2022.1017180 | 2022 | | |
| Dietary index for gut microbiota and risk of incident irritable bowel syndrome: a large-scale prospective cohort study. | Li Y, Liu S, Zhang Q, Zhang S, Wu S. | Nutr J | 10.1186/s12937-025-01224-3 | 2025 | | |
| Gut microbiota shapes cancer immunotherapy responses. | Lei W, Zhou K, Lei Y, Li Q, Zhu H. | NPJ Biofilms Microbiomes | 10.1038/s41522-025-00786-8 | 2025 | | |
| Genetics | Dynamics of Gut Microbiota and Short-Chain Fatty Acids during a Cycling Grand Tour Are Related to Exercise Performance and Modulated by Dietary Intake. | Fernandez-Sanjurjo M, Fernandez J, Martinez-Camblor P, Rodriguez-Alonso M, Ortolano-Rios R, Pinto-Hernandez P, Castilla-Silgado J, Coto-Vilcapoma A, Ruiz L, Villar CJ, Tomas-Zapico C, Margolles A, Fernandez-Garcia B, Iglesias-Gutierrez E, Lombo F. | Nutrients | 10.3390/nu16050661 | 2024 | |
| Gender-Based Differences in Gut Microbiota Composition in Response to Anxiety and Stress in Shooting and Archery Athletes. | Wei Y, Huo S, Liang R, Cui Y, Wang L, Zhao Y, Zhao C, Shao C. | Brain Behav | 10.1002/brb3.70933 | 2025 | | |
| Phylogeny | The role of intestinal microbiota in the humoral response to SARS-CoV-2 after mRNA-1273 vaccination. | Tarrino M, Gutierrez-Bautista JF, Duran MJO, Garcia-Diaz A, Cabrera-Serrano AJ, Sainz J, Cobo F, Rodriguez T, Reguera JA, Bernal M, Lopez-Nevot MA, Sampedro A. | Sci Rep | 10.1038/s41598-025-11103-w | 2025 | |
| Metabolism | Carrot-Derived Rhamnogalacturonan-I Consistently Increases the Microbial Production of Health-Promoting Indole-3-Propionic Acid Ex Vivo. | Mercenier A, Vu LD, Poppe J, Albers R, McKay S, Van den Abbeele P. | Metabolites | 10.3390/metabo14120722 | 2024 | |
| Pathogenicity | Psoriatic patients have a distinct structural and functional fecal microbiota compared with controls. | Shapiro J, Cohen NA, Shalev V, Uzan A, Koren O, Maharshak N. | J Dermatol | 10.1111/1346-8138.14933 | 2019 | |
| The alteration and potential relationship of vaginal microbiota and chemokines for unexplained recurrent spontaneous abortion. | Fan T, Zhong XM, Wei XC, Miao ZL, Luo SY, Cheng H, Xiao Q. | Medicine (Baltimore) | 10.1097/md.0000000000023558 | 2020 | | |
| Pathogenicity | Serum-Derived Bovine Immunoglobulin Promotes Barrier Integrity and Lowers Inflammation for 24 Human Adults Ex Vivo. | Van den Abbeele P, Kunkler CN, Poppe J, Rose A, van Hengel IAJ, Baudot A, Warner CD. | Nutrients | 10.3390/nu16111585 | 2024 | |
| Phylogeny | Gut Microbiota Profile and Its Association with Clinical Variables and Dietary Intake in Overweight/Obese and Lean Subjects: A Cross-Sectional Study. | Companys J, Gosalbes MJ, Pla-Paga L, Calderon-Perez L, Llaurado E, Pedret A, Valls RM, Jimenez-Hernandez N, Sandoval-Ramirez BA, Del Bas JM, Caimari A, Rubio L, Sola R. | Nutrients | 10.3390/nu13062032 | 2021 | |
| Alterations in intestinal microbiota in ultramarathon runners. | Sato M, Suzuki Y. | Sci Rep | 10.1038/s41598-022-10791-y | 2022 | | |
| Viability and probiotic activity of Lactiplantibacillus plantarum PMO08 in human gastrointestinal tract analyzed by in vitro gut model. | Seong H, Han SH, Kim G, Han NS. | Food Sci Biotechnol | 10.1007/s10068-024-01622-z | 2024 | | |
| The intestinal microbiota associated with cardiac valve calcification differs from that of coronary artery disease. | Liu Z, Li J, Liu H, Tang Y, Zhan Q, Lai W, Ao L, Meng X, Ren H, Xu D, Zeng Q. | Atherosclerosis | 10.1016/j.atherosclerosis.2018.11.038 | 2019 | | |
| Design and application of synthetic human gut microbial communities. | Kim MS, Bisanz JE. | Gut Microbes | 10.1080/19490976.2025.2575923 | 2025 | | |
| Pathogenicity | A cross talk between dysbiosis and gut-associated immune system governs the development of inflammatory arthropathies. | Kalinkovich A, Livshits G. | Semin Arthritis Rheum | 10.1016/j.semarthrit.2019.05.007 | 2019 | |
| Genetics | Alterations of the gut microbiome are associated with epigenetic age acceleration and physical fitness. | Torma F, Kerepesi C, Jokai M, Babszki G, Koltai E, Ligeti B, Kalcsevszki R, McGreevy KM, Horvath S, Radak Z. | Aging Cell | 10.1111/acel.14101 | 2024 | |
| Genetics | Enterococcus dysbiosis as a mediator of vitamin D deficiency-associated memory impairments. | Vinogradova E, Jarmukhanov Z, Nurgaziyev M, Kossumov A, Nurgozhina A, Mukhanbetzhanov N, Sergazy S, Chulenabyeva L, Issilbayeva A, Askarova S, Kaiyrlykyzy A, Rakhimova S, Kozhamkulov U, Kairov U, Khassenbekova Z, Tarzhanova D, Akilzhanova A, Lee JH, Terwilliger J, Sailybayeva A, Bekbossynova M, Zhumadilov Z, Kozhakhmetov S, Kushugulova A. | Heliyon | 10.1016/j.heliyon.2025.e41969 | 2025 | |
| Perinatal depressive and anxiety symptoms are associated with gut microbiota in pregnant women with overweight and obesity. | Hieta J, Benchraka C, Parnanen K, Houttu N, Mokkala K, Lotankar M, Kataja EL, Lahti L, Laitinen K. | Brain Behav Immun Health | 10.1016/j.bbih.2025.101042 | 2025 | | |
| The Effect of the Ideal Food Pyramid on Gut Microbiota in Rheumatoid Arthritis Patients. | Kacar Mutluturk U, Cicek B, Cengiz G. | Life (Basel) | 10.3390/life15030463 | 2025 | | |
| The Gut Microbiota-Sex-Immunity Axis in Non-Communicable Diseases. | Caldarelli M, Rio P, Franza L, Cutrupi S, Menegolo M, Franceschi F, Gasbarrini A, Gambassi G, Cianci R. | Life (Basel) | 10.3390/life15101510 | 2025 | | |
| Streptomyces uses both polar and dispersed cell wall synthesis during exploratory growth. | Zambri MP, Baglio CR, Irazoki O, Jones SE, Garner EC, Cava F, Elliot MA. | Nat Microbiol | 10.1038/s41564-025-02080-x | 2025 | | |
| Effect of Relocation, Social Housing Changes, and Diarrhea Status on Microbiome Composition of Juvenile Cynomolgus Macaques (Macaca fascicularis). | McGrew K, de Oca NM, Kosten TA. | Microorganisms | 10.3390/microorganisms13010098 | 2025 | | |
| Causal relationship between gut microbiota and polycystic ovary syndrome: a literature review and Mendelian randomization study. | Sun J, Wang M, Kan Z. | Front Endocrinol (Lausanne) | 10.3389/fendo.2024.1280983 | 2024 | | |
| Genetics | A metagenome-wide association study of gut microbiota in hepatitis B virus-related cirrhosis in northwest China. | Feng M, Chai Y, Li J, Wang Q, Zhang D. | Front Genet | 10.3389/fgene.2025.1619911 | 2025 | |
| Exploring the regulatory mechanism of intestinal flora based on PD-1 receptor/ligand targeted cancer immunotherapy. | Gao X, Jiang J. | Front Immunol | 10.3389/fimmu.2024.1359029 | 2024 | | |
| Microbiome-Based Colon Cancer Patient Stratification and Survival Analysis. | Smyth J, Godet J, Choudhary A, Das A, Gkoutos GV, Acharjee A. | Cancer Med | 10.1002/cam4.70434 | 2024 | | |
| Autoimmunity-Associated Gut Commensals Modulate Gut Permeability and Immunity in Humanized Mice. | Balakrishnan B, Luckey D, Taneja V. | Mil Med | 10.1093/milmed/usy309 | 2019 | | |
| The effect of in vitro simulated colonic pH gradients on microbial activity and metabolite production using common prebiotics as substrates. | Xie Z, He W, Gobbi A, Bertram HC, Nielsen DS. | BMC Microbiol | 10.1186/s12866-024-03235-2 | 2024 | | |
| Intestinal microbiome and maternal mental health: preventing parental stress and enhancing resilience in mothers. | Matsunaga M, Takeuchi M, Watanabe S, Takeda AK, Kikusui T, Mogi K, Nagasawa M, Hagihara K, Myowa M. | Commun Biol | 10.1038/s42003-024-05884-5 | 2024 | | |
| Immunoglobulin-coating patterns reveal altered humoral responses to gut bacteria in pediatric cow milk allergies. | Augustine T, Murugesan S, Badri F, Gentilcore G, Grivel JC, Akobeng A, Elawad M, Adeli M, Al Khodor S, van Panhuys N. | J Transl Med | 10.1186/s12967-024-05850-z | 2024 | | |
| Complete Genome Sequence of Collinsella aerofaciens Isolated from the Gut of a Healthy Indian Subject. | Bag S, Ghosh TS, Das B. | Genome Announc | 10.1128/genomea.01361-17 | 2017 | | |
| Prolonged effect of antibiotic therapy on the gut microbiota composition, functionality, and antibiotic resistance genes' profiles in healthy stool donors. | Karimianghadim R, Satokari R, Yeo S, Arkkila P, Kao D, Pakpour S. | Front Microbiol | 10.3389/fmicb.2025.1589704 | 2025 | | |
| Pathogenicity | Could dysbiosis of inflammatory and anti-inflammatory gut bacteria have an implications in the development of type 2 diabetes? A pilot investigation. | Kulkarni P, Devkumar P, Chattopadhyay I. | BMC Res Notes | 10.1186/s13104-021-05466-2 | 2021 | |
| Roxadustat alleviates the inflammatory status in patients receiving maintenance hemodialysis with erythropoiesis-stimulating agent resistance by increasing the short-chain fatty acids producing gut bacteria. | Zhao XN, Liu SX, Wang ZZ, Zhang S, You LL. | Eur J Med Res | 10.1186/s40001-023-01179-3 | 2023 | | |
| Firmicutes in gut microbiota: hormonal influence on breast cancer in obese individuals. | Chen J, Zhang Z, Ma M, Huang Q, Ling Z, Liu Y, Gao Z, Wang S, Zhu Y, Zhang L, Li M, Liu M. | Discov Oncol | 10.1007/s12672-025-03562-4 | 2025 | | |
| Impact of Ex Vivo Bisphenol A Exposure on Gut Microbiota Dysbiosis and Its Association with Childhood Obesity. | Luque G, Ortiz P, Torres-Sanchez A, Ruiz-Rodriguez A, Lopez-Moreno A, Aguilera M. | J Xenobiot | 10.3390/jox15010014 | 2025 | | |
| Dissecting the molecular interactions between botanical extracts and the human gut microbiota. | Mancabelli L, Tarracchini C, Longhi G, Alessandri G, Ventura M, Turroni F. | Front Microbiol | 10.3389/fmicb.2025.1610170 | 2025 | | |
| Metabolism | Diet, gut microbiota, and health: a review. | Zhang L, Tuoliken H, Li J, Gao H. | Food Sci Biotechnol | 10.1007/s10068-024-01759-x | 2025 | |
| Expansion of Rare and Harmful Lineages is Associated with Established Rheumatoid Arthritis. | Mena-Vazquez N, Ruiz-Limon P, Moreno-Indias I, Manrique-Arija S, Tinahones FJ, Fernandez-Nebro A. | J Clin Med | 10.3390/jcm9041044 | 2020 | | |
| Genetics | Expressions of resistome is linked to the key functions and stability of active rumen microbiome. | Ma T, Zaheer R, McAllister TA, Guo W, Li F, Tu Y, Diao Q, Guan LL. | Anim Microbiome | 10.1186/s42523-022-00189-6 | 2022 | |
| Associations between sleep and the gut microbiome in adults with colorectal cancer and their caregivers. | Barb JJ, Lee LJ, Ahmed A, Son EH, Nanda S, Yang L, Ban Y, Ting A, Tsai TC, Kim Y. | Sci Rep | 10.1038/s41598-025-18402-2 | 2025 | | |
| Dynamic development of gut microbiota and metabolism during and after weaning of kittens. | Zhang H, Ren Y, Wei S, Jin H, Wang Y, Jin M. | Anim Microbiome | 10.1186/s42523-024-00373-w | 2025 | | |
| The Influence of Microbiota on Breast Cancer: A Review. | Neagoe CX, Ionica M, Neagoe OC, Trifa AP. | Cancers (Basel) | 10.3390/cancers16203468 | 2024 | | |
| Causal associations between gut microbiota and cutaneous melanoma: a Mendelian randomization study. | Bao YQ, Zhang Y, Li ZN. | Front Microbiol | 10.3389/fmicb.2024.1339621 | 2024 | | |
| Phylogeny | The intensive physical activity causes changes in the composition of gut and oral microbiota. | Urban S, Chmura O, Wator J, Panek P, Zapala B. | Sci Rep | 10.1038/s41598-024-71684-w | 2024 | |
| The impact of protein source and grain inclusion on digestibility, fecal metabolites, and fecal microbiome in adult canines. | Clark SD, Hsu C, McCauley SR, de Godoy MRC, He F, Streeter RM, Taylor EG, Quest BW. | J Anim Sci | 10.1093/jas/skad268 | 2023 | | |
| The Relationship Between Fiber Intake and Gut Bacterial Diversity and Composition During the Third Trimester of Pregnancy. | Schwartz LT, Ladouceur JG, Russell MM, Xie SYL, Bu S, Kerver JM, Comstock SS. | Nutrients | 10.3390/nu17050773 | 2025 | | |
| Genetics | Profiling and comprehensive analysis of microbiome and ARGs of nurses and nursing workers in China: a cross-sectional study. | Liu Y, Wang F, Zhou Z, Liu B, Wu Z, Pan X. | Sci Rep | 10.1038/s41598-024-82659-2 | 2024 | |
| Genetics | Predictive modeling of colorectal cancer using exhaustive analysis of microbiome information layers available from public metagenomic data. | Murovec B, Deutsch L, Stres B. | Front Microbiol | 10.3389/fmicb.2024.1426407 | 2024 | |
| Bifidobacterium as a Potential Biomarker of Sarcopenia in Elderly Women. | Wang Z, Xu X, Deji Y, Gao S, Wu C, Song Q, Shi Z, Xiang X, Zang J, Su J. | Nutrients | 10.3390/nu15051266 | 2023 | | |
| mNFE: microbiome network flow entropy for detecting pre-disease states of type 1 diabetes. | Gao R, Li P, Ni Y, Peng X, Ren J, Chen L. | Gut Microbes | 10.1080/19490976.2024.2327349 | 2024 | | |
| Genetics | Metagenomic interrogation of urban Superfund site reveals antimicrobial resistance reservoir and bioremediation potential. | Kolokotronis SO, Bhattacharya C, Panja R, Quate I, Seibert M, Jorgensen E, Mason CE, Henaff EM. | J Appl Microbiol | 10.1093/jambio/lxaf076 | 2025 | |
| Genetics | Alterations of the Gut Microbiome in Patients With Pituitary Adenoma. | Hu J, Yang J, Chen L, Meng X, Zhang X, Li W, Li Z, Huang G. | Pathol Oncol Res | 10.3389/pore.2022.1610402 | 2022 | |
| Gut microbiota alterations are linked to COVID-19 severity in North African and European populations. | Bredon M, Hausfater P, Khalki L, Tijani Y, Cheikh A, Brot L, Creusot L, Rolhion N, Trottein F, Lambeau G, Georgin-Lavialle S, Bleibtreu A, Baudel JL, Lefevre A, Emond P, Tubach F, Simon-Tillaux N, Simon T, Gorochov G, Zaid Y, Sokol H. | NPJ Biofilms Microbiomes | 10.1038/s41522-025-00733-7 | 2025 | | |
| Phylogeny | Prediction and causal inference of hyperuricemia using gut microbiota. | Miyajima Y, Karashima S, Mizoguchi R, Kawakami M, Ogura K, Ogai K, Koshida A, Ikagawa Y, Ami Y, Zhu Q, Tsujiguchi H, Hara A, Kurihara S, Arakawa H, Nakamura H, Tamai I, Nambo H, Okamoto S. | Sci Rep | 10.1038/s41598-024-60427-6 | 2024 | |
| Genetics | A novel computational approach for the mining of signature pathways using species co-occurrence networks in gut microbiomes. | Kim S, Thapa I, Ali H. | BMC Microbiol | 10.1186/s12866-024-03633-6 | 2024 | |
| Physical activity-induced alterations of the gut microbiota are BMI dependent. | Shah S, Mu C, Moossavi S, Shen-Tu G, Schlicht K, Rohmann N, Geisler C, Laudes M, Franke A, Zullig T, Kofeler H, Shearer J. | FASEB J | 10.1096/fj.202201571r | 2023 | | |
| Microbial dysbiosis in irritable bowel syndrome: A single-center metagenomic study in Saudi Arabia. | Masoodi I, Alshanqeeti AS, Alyamani EJ, AlLehibi AA, Alqutub AN, Alsayari KN, Alomair AO. | JGH Open | 10.1002/jgh3.12313 | 2020 | | |
| Beneficial Effects of a Low-Glycemic Diet on Serum Metabolites and Gut Microbiota in Obese Women With Prevotella and Bacteriodes Enterotypes: A Randomized Clinical Trial. | Hur HJ, Wu X, Yang HJ, Kim MJ, Lee KH, Hong M, Park S, Kim MS. | Front Nutr | 10.3389/fnut.2022.861880 | 2022 | | |
| Nutritional optimization of fecal microbiota transplantation in humans: a scoping review. | Teigen LM, Hoeg A, Zehra H, Shah P, Johnson R, Hutchison K, Kocher M, Lin AW, Johnson AJ, Vaughn BP. | Gut Microbes | 10.1080/19490976.2024.2446378 | 2025 | | |
| Metabolism | Identification of commensal gut bacterial strains with lipogenic effects contributing to NAFLD in children. | Wei J, Luo J, Yang F, Dai W, Pan X, Luo M. | iScience | 10.1016/j.isci.2024.108861 | 2024 | |
| Therapeutic effect of fecal microbiota transplantation on hyperuricemia mice by improving gut microbiota | Yuan S, Jia W, Liu X, Liu R, Cao M, Wu Y, Li Y, Xu W, Xiao C, Hong Z, Zhang B. | Front Microbiol | 2025 | | ||
| Effects of Betaine and Polydextrose on Intestinal Microbiota and Liver Ergothioneine in a High-Fat Diet-Fed Mouse Model and a Human Colonic Simulation Model. | Saarinen MT, Forssten SD, Evans K, Airaksinen K, Telving R, Hornshoj BH, Jensen HM, Jokkala J, Hanhineva K, Tiihonen K. | Nutrients | 10.3390/nu17010109 | 2024 | | |
| From dysbiosis to precision therapy: decoding the gut-bladder axis in bladder carcinogenesis. | Liu ZQ, Yang XY, Chen JH, Ge SC, Dai SX, Zhu SH, Xian ZY. | Front Oncol | 10.3389/fonc.2025.1630726 | 2025 | | |
| Secondary hemophagocytic lymphohistiocytosis associated with heat stroke: A case report and review of literature. | Wi W, Yoon KW, Kim HJ. | Medicine (Baltimore) | 10.1097/md.0000000000033842 | 2023 | | |
| Elucidating the gut microbiome alterations of tribal community of Arunachal Pradesh: perspectives on their lifestyle or food habits. | Hazarika P, Chattopadhyay I, Umpo M, Choudhury Y, Sharma I. | Sci Rep | 10.1038/s41598-022-23124-w | 2022 | | |
| Understanding the ADHD-Gut Axis by Metabolic Network Analysis. | Tas E, Ulgen KO. | Metabolites | 10.3390/metabo13050592 | 2023 | | |
| Disruption of gut microbiome and metabolome in treatment-naïve children with attention deficit hyperactivity disorder. | Han D, Zhang Y, Liu W, Wan R, Hu J, Pan F, Pan X, Weng W, Wang Y, Ma Z, Zhang H, Chen J. | BMC Microbiol | 10.1186/s12866-025-04048-7 | 2025 | | |
| The role of the microbiome in rheumatoid arthritis: a review. | Tsetseri MN, Silman AJ, Keene DJ, Dakin SG. | Rheumatol Adv Pract | 10.1093/rap/rkad034 | 2023 | | |
| Characterization of the Gut and Skin Microbiome over Time in Young Children with IgE-Mediated Food Allergy. | Roth MS, d'Aujourd'hui M, Kunstner A, Hirose M, Olbrich M, Ibrahim S, Hartmann K, Roduit C, Busch H, Bellutti Enders F. | Nutrients | 10.3390/nu16223942 | 2024 | | |
| Lacticaseibacillus rhamnosus LRa05 in the treatment of acute diarrhea in children: a randomized controlled trial. | Chen K, Zeng K, Jin S, Ma Y, Cai L, Xu P, Nie Y, Luo L, Yu Q, Liu C. | Front Nutr | 10.3389/fnut.2024.1479186 | 2024 | | |
| Phylogeny | A Randomized, Double-Blind, Placebo-Controlled Trial: Efficacy of Opuntia ficus-indica Prebiotic Supplementation in Subjects with Gut Dysbiosis. | Mellai M, Allesina M, Edoardo B, Cascella F, Nobile V, Spina A, Amone F, Zaccaria V, Insolia V, Perri A, Lofaro D, Puoci F. | Nutrients | 10.3390/nu16050586 | 2024 | |
| Pathogenicity | DMARDs-Gut Microbiota Feedback: Implications in the Response to Therapy. | Zaragoza-Garcia O, Castro-Alarcon N, Perez-Rubio G, Guzman-Guzman IP. | Biomolecules | 10.3390/biom10111479 | 2020 | |
| Phylogeny | Optimizing Akkermansia muciniphila Isolation and Cultivation: Insights into Gut Microbiota Composition and Potential Growth Promoters in a Chinese Cohort. | Meng X, Xv C, Lv J, Zhang S, Ma C, Pang X. | Microorganisms | 10.3390/microorganisms12050881 | 2024 | |
| Using whole-genome sequencing (WGS) to plot colorectal cancer-related gut microbiota in a population with varied geography. | Shuwen H, Yinhang W, Xingming Z, Jing Z, Jinxin L, Wei W, Kefeng D. | Gut Pathog | 10.1186/s13099-022-00524-x | 2022 | | |
| Gut Microbial Signatures of Distinct Trimethylamine N-Oxide Response to Raspberry Consumption. | Franck M, de Toro-Martin J, V Varin T, Garneau V, Pilon G, Roy D, Couture P, Couillard C, Marette A, Vohl MC. | Nutrients | 10.3390/nu14081656 | 2022 | | |
| Genetics | Assessment of metagenomic workflows using a newly constructed human gut microbiome mock community. | Mori H, Kato T, Ozawa H, Sakamoto M, Murakami T, Taylor TD, Toyoda A, Ohkuma M, Kurokawa K, Ohno H. | DNA Res | 10.1093/dnares/dsad010 | 2023 | |
| Fecal Microbiome Composition Correlates with Pathologic Complete Response in Patients with Operable Esophageal Cancer Treated with Combined Chemoradiotherapy and Immunotherapy. | Shaikh FY, Lee S, White JR, Zhao Y, Ferri JT, Pereira G, Landon BV, Ke S, Hu C, Feliciano JL, Hales RK, Voong KR, Battafarano RJ, Yang SC, Broderick S, Ha J, Thompson E, Shin EJ, Bartlett DL, Weksler B, Pardoll DM, Anagnostou V, Lam VK, Zaidi AH, Kelly RJ, Sears CL. | Cancers (Basel) | 10.3390/cancers16213644 | 2024 | | |
| Effects of Lactiplantibacillus plantarum CBT LP3 and Bifidobacterium breve CBT BR3 supplementation on weight loss and gut microbiota of overweight dogs. | Choi J, Son D, An S, Cho E, Lim S, Lee HJ. | Sci Rep | 10.1038/s41598-024-75594-9 | 2024 | | |
| Young-onset Rectal Cancer: Unique Tumoral Microbiome and Correlation With Response to Neoadjuvant Therapy. | White MG, Damania A, Alshenaifi J, Sahasrabhojane P, Peacock O, Losh J, Wong MC, Lutter-Berkova Z, Chang GJ, Futreal A, Wargo JA, Ajami NJ, Kopetz S, You YN. | Ann Surg | 10.1097/sla.0000000000006015 | 2023 | | |
| Microbiota of the Colonic Diverticula in the Complicated Form of Diverticulitis: A Case Report. | Yarullina D, Pankratova Y, Karaseva O, Grigoryeva T, Karpukhin O. | Life (Basel) | 10.3390/life12122129 | 2022 | | |
| Baseline Gut Microbiota Was Associated with Long-Term Immune Response at One Year Following Three Doses of BNT162b2. | Zhang LN, Tan JT, Ng HY, Liao YS, Zhang RQ, Chan KH, Hung IF, Lam TT, Cheung KS. | Vaccines (Basel) | 10.3390/vaccines12080916 | 2024 | | |
| Age-related effects on the modulation of gut microbiota by pectins and their derivatives: an in vitro study. | Gu F, Larsen N, Pascale N, Petersen SA, Khakimov B, Respondek F, Jespersen L. | Front Microbiol | 10.3389/fmicb.2023.1207837 | 2023 | | |
| Gut microbiota diversity and composition in predicting immunotherapy response and immunotherapy-related colitis in melanoma patients: A systematic review. | Oey O, Liu YY, Sunjaya AF, Simadibrata DM, Khattak MA, Gray E. | World J Clin Oncol | 10.5306/wjco.v13.i11.929 | 2022 | | |
| Proteome | Fibromyalgia diagnosis from a multi-omics approach: a gut feeling. | Duran-Gonzalez E, Ramirez-Tejero JA, Perez-Sanchez M, Morales-Torres C, Gomez-Morano R, Diaz-Lopez C, Martinez-Lara A, Cotan D. | Front Microbiol | 10.3389/fmicb.2025.1641185 | 2025 | |
| Comprehensive analysis of vaginal microbiota, metabolites, and inflammatory factors in preterm and term pregnancies. | Shen LP, Cai BJ, Guan JX, Peng T, Jin L. | Front Microbiol | 10.3389/fmicb.2025.1689494 | 2025 | | |
| Metabolism | Thermophilic Alkaline Fermentation Followed by Mesophilic Anaerobic Digestion for Efficient Hydrogen and Methane Production from Waste-Activated Sludge: Dynamics of Bacterial Pathogens as Revealed by the Combination of Metagenomic and Quantitative PCR Analyses. | Wan J, Jing Y, Rao Y, Zhang S, Luo G. | Appl Environ Microbiol | 10.1128/aem.02632-17 | 2018 | |
| Gut Microbiota Secondary Metabolites: Key Roles in GI Tract Cancers and Infectious Diseases. | Anwer EKE, Ajagbe M, Sherif M, Musaibah AS, Mahmoud S, ElBanbi A, Abdelnaser A. | Biomedicines | 10.3390/biomedicines13010100 | 2025 | | |
| Fecal microbiota transplantation significantly improved respiratory failure of amyotrophic lateral sclerosis. | Yan J, Chen H, Zhang Y, Peng L, Wang Z, Lan X, Yu S, Yang Y. | Gut Microbes | 10.1080/19490976.2024.2353396 | 2024 | | |
| Pathogenicity | Modulating inflammation and oxidative stress in rheumatoid arthritis: a systematic review of nutraceutical interventions. | Leiva-Castro C, Munera-Rodriguez AM, Torres-Joya G, Palomares-Jerez F, Lopez-Enriquez S. | Inflammopharmacology | 10.1007/s10787-025-01976-8 | 2025 | |
| Charting cancer's course: revealing the role of diet, exercise, and the microbiome in cancer evolution and immunotherapy response. | Martin-Quesada AI, Hennessy MA, Gutierrez AC. | Clin Transl Oncol | 10.1007/s12094-024-03595-1 | 2025 | | |
| Causal relationship between gut microbiota and ankylosing spondylitis and potential mediating role of inflammatory cytokines: A mendelian randomization study. | Du X, Li H, Zhao H, Cui S, Sun X, Tan X. | PLoS One | 10.1371/journal.pone.0306792 | 2024 | | |
| Lymphocyte and neutrophil count combined with intestinal bacteria abundance predict the severity of COVID-19. | Chen L, Yin Z, Zhou D, Li X, Yu C, Luo C, Jin Y, Zhang L, Song J, Rasche L, Einsele H, Tu L, Zhou X, Bai T, Hou X. | Microbiol Spectr | 10.1128/spectrum.03027-23 | 2024 | | |
| Metabolism | Gut Microbiota Alterations and Their Functional Differences in Depression According to Enterotypes in Asian Individuals. | Park S, Li C, Wu X, Zhang T. | Int J Mol Sci | 10.3390/ijms241713329 | 2023 | |
| Phylogeny | The influence of blood on the human gut microbiome. | Chenard T, Malick M, Dube J, Masse E. | BMC Microbiol | 10.1186/s12866-020-01724-8 | 2020 | |
| Fecal and Tissue Microbiota Are Associated with Tumor T-Cell Infiltration and Mesenteric Lymph Node Involvement in Colorectal Cancer. | Luu K, Ye JY, Lagishetty V, Liang F, Hauer M, Sedighian F, Kwaan MR, Kazanjian KK, Hecht JR, Lin AY, Jacobs JP. | Nutrients | 10.3390/nu15020316 | 2023 | | |
| A low-cost, easy-to-use prototype bioreactor model for the investigation of human gut microbiota: validation using a prebiotic treatment. | Agrinier AL, Pilon G, Marette A. | Front Microbiol | 10.3389/fmicb.2024.1250366 | 2024 | | |
| Diagnostic, Prognostic, and Therapeutic Roles of Gut Microbiota in COVID-19: A Comprehensive Systematic Review. | Farsi Y, Tahvildari A, Arbabi M, Vazife F, Sechi LA, Shahidi Bonjar AH, Jamshidi P, Nasiri MJ, Mirsaeidi M. | Front Cell Infect Microbiol | 10.3389/fcimb.2022.804644 | 2022 | | |
| Intestinal microbiota composition of children with infection with severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) and multisystem inflammatory syndrome (MIS-C). | Suskun C, Kilic O, Yilmaz Ciftdogan D, Guven S, Karbuz A, Ozkaya Parlakay A, Kara Y, Kacmaz E, Sahin A, Boga A, Kizmaz Isancli D, Gulhan B, Kanik-Yuksek S, Kiral E, Bozan G, Arslanoglu MO, Kizil MC, Dinleyici M, Us T, Varis A, Kaya M, Vandenplas Y, Dinleyici EC. | Eur J Pediatr | 10.1007/s00431-022-04494-9 | 2022 | | |
| Fecal Microbiota Transplant in Two Ulcerative Colitis Pediatric Cases: Gut Microbiota and Clinical Course Correlations. | Quagliariello A, Del Chierico F, Reddel S, Russo A, Onetti Muda A, D'Argenio P, Angelino G, Romeo EF, Dall'Oglio L, De Angelis P, Putignani L, All The Other Fmt Opbg Committee Collaborators. | Microorganisms | 10.3390/microorganisms8101486 | 2020 | | |
| Genetics | Acinetobacter baumannii and Klebsiella pneumoniae Isolates Obtained from Intensive Care Unit Patients in 2024: General Characterization, Prophages, Depolymerases and Esterases of Phage Origin. | Kolupaeva NV, Kolupaeva LV, Evseev PV, Skryabin YP, Lazareva EB, Chernenkaya TV, Volozhantsev NV, Popova AV. | Viruses | 10.3390/v17050623 | 2025 | |
| Associations of Plastic Bottle Exposure with Infant Growth, Fecal Microbiota, and Short-Chain Fatty Acids. | Tilves C, Zhao HJ, Differding MK, Zhang M, Liu T, Hoyo C, Ostbye T, Benjamin-Neelon SE, Mueller NT. | Microorganisms | 10.3390/microorganisms11122924 | 2023 | | |
| Nivolumab Hypersensitivity Reactions a Myth or Reality in Solid Tumors-A Systematic Review of the Literature. | Pirlog CF, Parosanu AI, Slavu CO, Olaru M, Popa AM, Iaciu C, Nita I, Motatu P, Horia C, Manolescu LSC, Nitipir C. | Curr Oncol | 10.3390/curroncol29120741 | 2022 | | |
| Genetics | Microbiome-based therapeutics towards healthier aging and longevity. | Kadyan S, Park G, Singh TP, Patoine C, Singar S, Heise T, Domeier C, Ray C, Kumar M, Behare PV, Chakrabarty P, Efron P, Sheffler J, Nagpal R. | Genome Med | 10.1186/s13073-025-01493-x | 2025 | |
| Vaginal Microbiome and Pregnancy Complications: A Review | Gerede A, Nikolettos K, Vavoulidis E, Margioula-Siarkou C, Petousis S, Giourga M, Fotinopoulos P, Salagianni M, Stavros S, Dinas K, Nikolettos N, Domali E. | J Clin Med | 2024 | | ||
| Pathogenicity | Lactobacilli in COVID-19: A Systematic Review Based on Next-Generation Sequencing Studies. | Taufer CR, Rampelotto PH. | Microorganisms | 10.3390/microorganisms12020284 | 2024 | |
| Tomato seed extract promotes health of the gut microbiota and demonstrates a potential new way to valorize tomato waste. | Firrman J, Narrowe A, Liu L, Mahalak K, Lemons J, Van den Abbeele P, Baudot A, Deyaert S, Li Y, Yao Y, Yu L. | PLoS One | 10.1371/journal.pone.0301381 | 2024 | | |
| Enzymology | Structural and biochemical insights into 7beta-hydroxysteroid dehydrogenase stereoselectivity. | Savino S, Ferrandi EE, Forneris F, Rovida S, Riva S, Monti D, Mattevi A. | Proteins | 10.1002/prot.25036 | 2016 | |
| Co-enrichment of cancer-associated bacterial taxa is correlated with immune cell infiltrates in esophageal tumor tissue. | Greathouse KL, Stone JK, Vargas AJ, Choudhury A, Padgett RN, White JR, Jung A, Harris CC. | Sci Rep | 10.1038/s41598-023-48862-3 | 2024 | | |
| The microbiome compositional and functional differences between rectal mucosa and feces. | Yin X-F, Ye T, Chen H-L, Liu J, Mu X-F, Li H, Wang J, Hu Y-J, Cao H, Kang W-Q. | Microbiol Spectr | 10.1128/spectrum.03549-23 | 2024 | | |
| The Use of Fecal Microbiota Transplant in Overcoming and Modulating Resistance to Anti-PD-1 Therapy in Patients with Skin Cancer. | Vongsavath T, Rahmani R, Tun KM, Manne V. | Cancers (Basel) | 10.3390/cancers16030499 | 2024 | | |
| DNA reference reagents isolate biases in microbiome profiling: a global multi-lab study. | Anwar S, Lamaudiere M, Hassall J, Dehinsilu J, Bhuller RK, Hold GL, Vazquez-Campos X, Mahnert A, Moissl-Eichinger C, Galle B, Kainz G, Pjevac P, Hausmann B, Schwarz J, Kohl G, Berry D, Vancuren SJ, Allen-Vercoe E, Nielsen N, Sorensen N, Eklund A, Nielsen HB, Riedel R, Krause JL, Chang H-D, Park S, Song H-Y, Seo H, Ul-Haq A, Kim S, Kwon Y, Park S, Soberon X, Silva-Herzog E, Verlouw JAM, Arp P, Jhamai M, Kraaij R, Geelen AR, Ducarmon QR, Smits WK, Kuijper EJ, Zwittink RD, van Best N, Penders J, Le G, Driessen C, Kool J, Shetty SA, Fuentes S, Demirci M, Yigin A, Whalley C, Beggs AD, Quince C, James R, Raguideau S, Gordon M, Mate R, Fritzsche M, Danckert NP, Blanco JM, Marchesi JR, Rauch M, Williamson RA, Van't Wout AB, Kritz A, Rosecker S, Stevens R, Laws L, Sayavedra L, Romano S, Telatin A, Baker D, Narbad A, Servetas SL, Kralj JG, Forry SP, Hunter ME, Dootz JN, Jackson SA, Mason CE, Butler DJ, Mozsary C, Foox J, Damle N, Resh A, Busswitz A, Lenz P, Sontag S, Cross A, Sanchez C, Guo M, Olson K, Smith EA, La Reau AJ, Ward T, Kuersten S, Hyde F, Khrebtukova I, Schroth G, Rijpkema S, Amos GCA, Sergaki C. | mSystems | 10.1128/msystems.00466-25 | 2025 | | |
| Genetics | Gut Microbiota Has a Widespread and Modifiable Effect on Host Gene Regulation. | Richards AL, Muehlbauer AL, Alazizi A, Burns MB, Findley A, Messina F, Gould TJ, Cascardo C, Pique-Regi R, Blekhman R, Luca F. | mSystems | 10.1128/msystems.00323-18 | 2019 | |
| Exclusive breastfeeding is associated with the gut microbiome maturation in infants according to delivery mode. | Naspolini NF, Schuroff PA, Vanzele PAR, Pereira-Santos D, Valim TA, Bonham KS, Fujita A, Passos-Bueno MR, Beltrao-Braga PCB, Carvalho ACPLF, Klepac-Ceraj V, Polanczyk GV, Campos AC, Taddei CR. | Gut Microbes | 10.1080/19490976.2025.2493900 | 2025 | | |
| Pathogenicity | Alterations in Gut Microbiome-Host Relationships After Immune Perturbation in Patients With Multiple Sclerosis. | Gupta VK, Janda GS, Pump HK, Lele N, Cruz I, Cohen I, Ruff WE, Hafler DA, Sung J, Longbrake EE. | Neurol Neuroimmunol Neuroinflamm | 10.1212/nxi.0000000000200355 | 2025 | |
| Unraveling Metabolic Syndrome in Youth: The Obesity Epidemic's Hidden Complication. | Anton-Paduraru DT, Mindru DE, Stanescu RS, Trofin F, Cobuz C, Cobuz M, Sur LM, Petroaie A, Slanina AM, Manole M, Bocec AS, Cosmescu A. | Children (Basel) | 10.3390/children12040482 | 2025 | | |
| Effect of Gardeniae Fructus Powder on Growth Performance, Antioxidant Capacity, Intestinal Barrier Function, and Colonic Microbiota of Weaned Piglets. | Liu S, Tian M, Ma M, Qiu Y, Tang J, Hou J, Lu Q, Tian C, Ye G, Wang L, Gao K, Guo S, Jiang Z, Yang X. | Animals (Basel) | 10.3390/ani15020221 | 2025 | | |
| A Mini Literature Review of Probiotics: Transforming Gastrointestinal Health Through Evidence-Based Insights. | Mohammed C, Fuego JP, Garcia KV, Jamil H, Rajesh RY, Escobar AS, Hassan MJ, Rai M. | Cureus | 10.7759/cureus.57055 | 2024 | | |
| Microbiomic Analysis of Intra-Abdominal Infections by Using Denaturing High-Performance Liquid Chromatography: A Prospective Observational Study. | Koch C, Amati AL, Hecker A, Hoxter M, Hirschburger M, Matejec R, Padberg W, Weigand MA, Lichtenstern C, Domann E. | Surg Infect (Larchmt) | 10.1089/sur.2017.008 | 2017 | | |
| Gut bacteriobiota and mycobiota are both associated with Day-28 mortality among critically ill patients. | Prevel R, Enaud R, Orieux A, Camino A, Berger P, Boyer A, Delhaes L, Gruson D. | Crit Care | 10.1186/s13054-022-03980-8 | 2022 | | |
| The effects of probiotic administration on patients with prediabetes: a meta-analysis and systematic review. | Li Y, Wu Y, Wu L, Qin L, Liu T. | J Transl Med | 10.1186/s12967-022-03695-y | 2022 | | |
| Genetics | Commercial farmed swine harbour a variety of pathogenic bacteria and antimicrobial resistance genes. | Eiamsam-Ang T, Tadee P, Buddhasiri S, Chuammitri P, Kittiwan N, Pascoe B, Patchanee P. | J Med Microbiol | 10.1099/jmm.0.001787 | 2024 | |
| Genetics | Gut microbiota and interstitial cystitis: exploring the gut-bladder axis through mendelian randomization, biological annotation and bulk RNA sequencing. | Fu C, Zhao Y, Zhou X, Lv J, Jin S, Zhou Y, Liu F, Feng N. | Front Immunol | 10.3389/fimmu.2024.1395580 | 2024 | |
| Phylogeny | Diaphorobacter nitroreducens synergize with oxaliplatin to reduce tumor burden in mice with lung adenocarcinoma. | Ni Y, Li R, Shen X, Yi D, Ren Y, Wang F, Geng Y, You Q. | mSystems | 10.1128/msystems.01323-23 | 2024 | |
| Metabolism | Synthetic Microbiomes on the Rise-Application in Deciphering the Role of Microbes in Host Health and Disease. | Bolsega S, Bleich A, Basic M. | Nutrients | 10.3390/nu13114173 | 2021 | |
| Prognostic Factors in Colorectal Liver Metastases: An Exhaustive Review of the Literature and Future Prospectives | Conticchio M, Uldry E, Hubner M, Digklia A, Fraga M, Sempoux C, Raisaro J, Fuks D. | Cancers (Basel) | 2025 | | ||
| The Gut Microbiome, Microsatellite Status and the Response to Immunotherapy in Colorectal Cancer. | Sillo TO, Beggs AD, Middleton G, Akingboye A. | Int J Mol Sci | 10.3390/ijms24065767 | 2023 | | |
| The Predictive Value of Gut Microbiota Composition for Sustained Immunogenicity following Two Doses of CoronaVac. | Ng HY, Liao Y, Zhang R, Chan KH, To WP, Hui CH, Seto WK, Leung WK, Hung IFN, Lam TTY, Cheung KS. | Int J Mol Sci | 10.3390/ijms25052583 | 2024 | | |
| Phylogeny | In Search of Healthy Ageing: A Microbiome-Based Precision Nutrition Approach for Type 2 Diabetes Prevention. | Gonzalez A, Fullaondo A, Odriozola A. | Nutrients | 10.3390/nu17111877 | 2025 | |
| Pathogenicity | Nutraceutical Capsules LL1 and Silymarin Supplementation Act on Mood and Sleep Quality Perception by Microbiota-Gut-Brain Axis: A Pilot Clinical Study. | Santamarina AB, Nehmi Filho V, Freitas JA, Franco LAM, Fonseca JV, Martins RC, Turri JAO, Silva BFRBD, Gusmao AF, Olivieri EHR, Otoch JP, Pessoa AFM. | Nutrients | 10.3390/nu16183049 | 2024 | |
| Phylogeny | Associations of Neonatal Dairy Calf Faecal Microbiota with Inflammatory Markers and Future Performance. | Loch M, Dorbek-Sundstrom E, Husso A, Pessa-Morikawa T, Niine T, Kaart T, Motus K, Niku M, Orro T. | Animals (Basel) | 10.3390/ani14172533 | 2024 | |
| Current and Novel Approaches to Mitigate Cardiometabolic Adverse Effects of Second-Generation Antipsychotics. | Skonieczna-Zydecka K, Loniewski I, Stachowska E, Marlicz W, Correll CU. | Int J Neuropsychopharmacol | 10.1093/ijnp/pyaa026 | 2020 | | |
| Phylogeny | Composition of the Gut Microbiota Associated with the Response to Immunotherapy in Advanced Cancer Patients: A Chinese Real-World Pilot Study. | Cheng X, Wang J, Gong L, Dong Y, Shou J, Pan H, Yu Z, Fang Y. | J Clin Med | 10.3390/jcm11185479 | 2022 | |
| Enzymology | Engineering of a hydroxysteroid dehydrogenase with simultaneous enhancement in activity and thermostability for efficient biosynthesis of ursodeoxycholic acid. | Li Y, Li S-F, Zhang L, Xue Y-P, Zheng Y-G. | Appl Environ Microbiol | 10.1128/aem.01237-24 | 2024 | |
| Carrot RG-I Reduces Interindividual Differences between 24 Adults through Consistent Effects on Gut Microbiota Composition and Function Ex Vivo. | Van den Abbeele P, Deyaert S, Albers R, Baudot A, Mercenier A. | Nutrients | 10.3390/nu15092090 | 2023 | | |
| Intestinal microbiology and urinary tract infection associated risk in long-term aged care residents. | Miller SJ, Carpenter L, Taylor SL, Wesselingh SL, Choo JM, Shoubridge AP, Papanicolas LE, Rogers GB, GRACE Investigator Group. | Commun Med (Lond) | 10.1038/s43856-024-00583-y | 2024 | | |
| Metabolism | Rapid analysis of bile acids in different biological matrices using LC-ESI-MS/MS for the investigation of bile acid transformation by mammalian gut bacteria. | Wegner K, Just S, Gau L, Mueller H, Gerard P, Lepage P, Clavel T, Rohn S. | Anal Bioanal Chem | 10.1007/s00216-016-0048-1 | 2017 | |
| Impact of the gut microbiome on immune checkpoint inhibitor efficacy-a systematic review. | Pierrard J, Seront E. | Curr Oncol | 10.3747/co.26.5177 | 2019 | | |
| Genetics | Shotgun metagenomics reveals interkingdom association between intestinal bacteria and fungi involving competition for nutrients. | Xie Z, Canalda-Baltrons A, d'Enfert C, Manichanh C. | Microbiome | 10.1186/s40168-023-01693-w | 2023 | |
| Pathogenicity | Depicting SARS-CoV-2 faecal viral activity in association with gut microbiota composition in patients with COVID-19. | Zuo T, Liu Q, Zhang F, Lui GC, Tso EY, Yeoh YK, Chen Z, Boon SS, Chan FK, Chan PK, Ng SC. | Gut | 10.1136/gutjnl-2020-322294 | 2021 | |
| The Role of the Microbiome in Gastroentero-Pancreatic Neuroendocrine Neoplasms (GEP-NENs). | Mohamed A, Asa SL, McCormick T, Al-Shakhshir H, Dasari A, Mauricio R, Salem I, Ocuin LM, Bajor D, Lee RT, Selfridge JE, Kardan A, Lee Z, Avril N, Kopp S, Winter JM, Hardacre JM, Ammori JB, Ghannoum MA. | Curr Issues Mol Biol | 10.3390/cimb44050136 | 2022 | | |
| Integrative multiomics analysis reveals association of gut microbiota and its metabolites with susceptibility to keloids. | Li D, Li M, Gao H, Hu K, Xie R, Fan J, Huang M, Liao C, Han C, Guo Z, Chen X, Li M. | Front Microbiol | 10.3389/fmicb.2024.1475984 | 2024 | | |
| Pathogenicity | Bridging two worlds: Host Microbiota crosstalk in health and dysregulation. | Sanam M, Hossain CFTZ, Hyder TB, Tarannum R, Oishi JF, Rahman KMM, Islam SBU, Bulbul N, Sultana Jime J, Shishir MA, Safa A, Fakruddin M. | Innate Immun | 10.1177/17534259251392993 | 2025 | |
| Enzymology | Dynamics and diversity of the 'Atopobium cluster' in the human faecal microbiota, and phenotypic characterization of 'Atopobium cluster' isolates. | Thorasin T, Hoyles L, McCartney AL. | Microbiology (Reading) | 10.1099/mic.0.000016 | 2015 | |
| The gastrointestinal antibiotic resistome in pediatric leukemia and lymphoma patients. | MacDonald T, Dunn KA, MacDonald J, Langille MGI, Van Limbergen JE, Bielawski JP, Kulkarni K. | Front Cell Infect Microbiol | 10.3389/fcimb.2023.1102501 | 2023 | | |
| Microbial Community of Healthy Thai Vegetarians and Non-Vegetarians, Their Core Gut Microbiota, and Pathogen Risk. | Ruengsomwong S, La-Ongkham O, Jiang J, Wannissorn B, Nakayama J, Nitisinprasert S. | J Microbiol Biotechnol | 10.4014/jmb.1603.03057 | 2016 | | |
| Compliance with Nutritional Recommendations and Gut Microbiota Profile in Galician Overweight/Obese and Normal-Weight Individuals. | Sinisterra-Loaiza L, Alonso-Lovera P, Cardelle-Cobas A, Miranda JM, Vazquez BI, Cepeda A. | Nutrients | 10.3390/nu15153418 | 2023 | | |
| Importance of Microbiome of Fecal Samples Obtained from Adolescents with Different Weight Conditions on Resistance Gene Transfer. | Navarro A, Rodea GE, Castelan-Sanchez HG, Saucedo-Pastrana HA, Licona-Moreno D, Eslava-Campos C, Tirado-Gomez LL, Vilchis-Reyes A, Garcia de la Torre G, Cruz-Licea V. | Microorganisms | 10.3390/microorganisms10101995 | 2022 | | |
| Genetics | Gut microbiota influences Plasmodium falciparum malaria susceptibility. | Kodio A, Coulibaly D, Doumbo S, Konate S, Kone AK, Dama S, Niangaly A, Tall ML, Konate AM, L'Ollivier C, Levasseur A, Bittar F, Djimde A, Doumbo OK, Raoult D, Thera MA, Ranque S. | New Microbes New Infect | 10.1016/j.nmni.2025.101586 | 2025 | |
| Pathogenicity | Signature changes in gut microbiome are associated with increased susceptibility to HIV-1 infection in MSM. | Chen Y, Lin H, Cole M, Morris A, Martinson J, Mckay H, Mimiaga M, Margolick J, Fitch A, Methe B, Srinivas VR, Peddada S, Rinaldo CR. | Microbiome | 10.1186/s40168-021-01168-w | 2021 | |
| Effect of a Fructose-Rich Diet on Gut Microbiota and Immunomodulation: Potential Factors for Multiple Sclerosis. | Peterson SR, Ali S, Shrode RL, Mangalam AK. | Immunohorizons | 10.4049/immunohorizons.2300008 | 2023 | | |
| Advances in understanding the role of gut microbiota in fat deposition and lipid metabolism. | Zhong Y, Lei Y, Jiang S, Chen D, Wang X, Wang K, Liao T, Liao R, Gan M, Niu L, Zhao Y, Chen L, Zhou X, Wang Y, Zhu L, Shen L. | J Anim Sci Biotechnol | 10.1186/s40104-025-01284-9 | 2025 | | |
| Proton-pump inhibitors increase C. difficile infection risk by altering pH rather than by affecting the gut microbiome based on a bioreactor model. | Schumacher J, Muller P, Sulzer J, Faber F, Molitor B, Maier L. | Gut Microbes | 10.1080/19490976.2025.2519697 | 2025 | | |
| Genetics | Alteration of Gut Microbiome in Patients With Schizophrenia Indicates Links Between Bacterial Tyrosine Biosynthesis and Cognitive Dysfunction. | Thirion F, Speyer H, Hansen TH, Nielsen T, Fan Y, Le Chatelier E, Fromentin S, Berland M, Plaza Onate F, Pons N, Galleron N, Levenez F, Marko L, Birkner T, Jorgensen T, Forslund SK, Vestergaard H, Hansen T, Nordentoft M, Mors O, Benros ME, Pedersen O, Ehrlich SD. | Biol Psychiatry Glob Open Sci | 10.1016/j.bpsgos.2022.01.009 | 2023 | |
| Six months of different exercise type in sedentary primary schoolchildren: impact on physical fitness and saliva microbiota composition. | Mancini A, Vitucci D, Lasorsa VA, Lupo C, Brustio PR, Capasso M, Orru S, Rainoldi A, Schena F, Buono P. | Front Nutr | 10.3389/fnut.2024.1465707 | 2024 | | |
| The Role of Nutritional Factors and Intestinal Microbiota in Rheumatoid Arthritis Development. | Alpizar-Rodriguez D, Finckh A, Gilbert B. | Nutrients | 10.3390/nu13010096 | 2020 | | |
| Phylogeny | Gut Microbiota Patterns in Patients with Non-Alcoholic Fatty Liver Disease: A Comprehensive Assessment Using Three Analysis Methods. | Korobeinikova AV, Zlobovskaya OA, Sheptulina AF, Ashniev GA, Bobrova MM, Yafarova AA, Akasheva DU, Kabieva SS, Bakoev SY, Zagaynova AV, Lukashina MV, Abramov IA, Pokrovskaya MS, Doludin YV, Tolkacheva LR, Kurnosov AS, Zyatenkova EV, Lavrenova EA, Efimova IA, Glazunova EV, Kiselev AR, Shipulin GA, Kontsevaya AV, Keskinov AA, Yudin VS, Makarov VV, Drapkina OM, Yudin SM. | Int J Mol Sci | 10.3390/ijms242015272 | 2023 | |
| Gut microbiota and COVID-19: A systematic review. | SeyedAlinaghi S, Afzalian A, Pashaei Z, Varshochi S, Karimi A, Mojdeganlou H, Mojdeganlou P, Razi A, Ghanadinezhad F, Shojaei A, Amiri A, Dashti M, Ghasemzadeh A, Dadras O, Mehraeen E, Afsahi AM. | Health Sci Rep | 10.1002/hsr2.1080 | 2023 | | |
| Investigating the Efficacy of Kidney-Protective Lactobacillus Mixture-Containing Pet Treats in Feline Chronic Kidney Disease and Its Possible Mechanism. | Tsai CW, Huang HW, Lee YJ, Chen MJ. | Animals (Basel) | 10.3390/ani14040630 | 2024 | | |
| Pathogenicity | Association of gut microbiota and inflammatory markers in obese patients with type 2 diabetes mellitus: post hoc analysis of a synbiotic interventional study. | Sugawara Y, Kanazawa A, Aida M, Yoshida Y, Yamashiro Y, Watada H. | Biosci Microbiota Food Health | 10.12938/bmfh.2021-081 | 2022 | |
| Microbiome alteration via fecal microbiota transplantation is effective for refractory immune checkpoint inhibitor-induced colitis. | Halsey TM, Thomas AS, Hayase T, Ma W, Abu-Sbeih H, Sun B, Parra ER, Jiang ZD, DuPont HL, Sanchez C, El-Himri R, Brown A, Flores I, McDaniel L, Ortega Turrubiates M, Hensel M, Pham D, Watowich SS, Hayase E, Chang CC, Jenq RR, Wang Y. | Sci Transl Med | 10.1126/scitranslmed.abq4006 | 2023 | | |
| Genetics | Antibiotic resistance genes and human bacterial pathogens: Co-occurrence, removal, and enrichment in municipal sewage sludge digesters. | Ju F, Li B, Ma L, Wang Y, Huang D, Zhang T. | Water Res | 10.1016/j.watres.2015.11.071 | 2016 | |
| Immunotherapy and Microbiota for Targeting of Liver Tumor-Initiating Stem-like Cells. | Machida K, Tahara SM. | Cancers (Basel) | 10.3390/cancers14102381 | 2022 | | |
| Microbially-produced folate forms support the growth of Roseburia intestinalis but not its competitive fitness in fecal batch fermentations. | Kundra P, Geirnaert A, Pugin B, Pluss S, Kariluoto S, Lacroix C, Greppi A. | BMC Microbiol | 10.1186/s12866-024-03528-6 | 2024 | | |
| Phylogeny | Absolute quantification of viable bacteria abundances in food by next-generation sequencing: Quantitative NGS of viable microbes. | Kallastu A, Malv E, Aro V, Meikas A, Vendelin M, Kattel A, Nahku R, Kazantseva J. | Curr Res Food Sci | 10.1016/j.crfs.2023.100443 | 2023 | |
| Pediococcus acidilactici Strain Alleviates Gluten-Induced Food Allergy and Regulates Gut Microbiota in Mice. | Fu W, Chen C, Xie Q, Gu S, Tao S, Xue W. | Front Cell Infect Microbiol | 10.3389/fcimb.2022.845142 | 2022 | | |
| Metabolism | The Interplay between Gut Microbiota and Oral Medications and Its Impact on Advancing Precision Medicine. | Mousa S, Sarfraz M, Mousa WK. | Metabolites | 10.3390/metabo13050674 | 2023 | |
| The gut microbiota in persistent post-operative pain following breast cancer surgery. | Masaud K, Collins JM, Rubio RC, Corrigan M, Cotter PD, O'Brien N, Bluett R, Jimenez CK, O'Mahony SM, Shorten GD. | Sci Rep | 10.1038/s41598-024-62397-1 | 2024 | | |
| Diet, Microbiome, and Cancer Immunotherapy-A Comprehensive Review. | Szczyrek M, Bitkowska P, Chunowski P, Czuchryta P, Krawczyk P, Milanowski J. | Nutrients | 10.3390/nu13072217 | 2021 | | |
| Causal role of the gut microbiome in certain human diseases: a narrative review. | Prosty C, Katergi K, Papenburg J, Lawandi A, Lee TC, Shi H, Burnham P, Swem L, Routy B, Yansouni CP, Cheng MP. | eGastroenterology | 10.1136/egastro-2024-100086 | 2024 | | |
| Phylogeny | Consistent Alterations of Human Fecal Microbes After Transplantation into Germ-free Mice. | Li Y, Cao W, Gao NL, Zhao XM, Chen WH. | Genomics Proteomics Bioinformatics | 10.1016/j.gpb.2020.06.024 | 2022 | |
| Metabolism | Gut microbiota dysbiosis in Chinese children with type 1 diabetes mellitus: An observational study. | Liu X, Cheng YW, Shao L, Sun SH, Wu J, Song QH, Zou HS, Ling ZX. | World J Gastroenterol | 10.3748/wjg.v27.i19.2394 | 2021 | |
| Vitamin C improves gut Bifidobacteria in humans. | Hazan S, Dave S, Papoutsis AJ, Deshpande N, Howell MC, Martin LM. | Future Microbiol | 10.2217/fmb-2022-0209 | 2025 | | |
| Beyond Tumor Borders: Intratumoral Microbiome Effects on Tumor Behavior and Therapeutic Responses. | Harmak Z, Kone AS, Ghouzlani A, Ghazi B, Badou A. | Immune Netw | 10.4110/in.2024.24.e40 | 2024 | | |
| Fast quantification of gut bacterial species in cocultures using flow cytometry and supervised classification. | van de Velde CC, Joseph C, Biclot A, Huys GRB, Pinheiro VB, Bernaerts K, Raes J, Faust K. | ISME Commun | 10.1038/s43705-022-00123-6 | 2022 | | |
| Vitamin C Supplementation in Healthy Individuals Leads to Shifts of Bacterial Populations in the Gut-A Pilot Study. | Otten AT, Bourgonje AR, Peters V, Alizadeh BZ, Dijkstra G, Harmsen HJM. | Antioxidants (Basel) | 10.3390/antiox10081278 | 2021 | | |
| Sociobiome - Individual and neighborhood socioeconomic status influence the gut microbiome in a multi-ethnic population in the US. | Kwak S, Usyk M, Beggs D, Choi H, Ahdoot D, Wu F, Maceda L, Li H, Im EO, Han HR, Lee E, Wu AH, Hayes RB, Ahn J. | NPJ Biofilms Microbiomes | 10.1038/s41522-024-00491-y | 2024 | | |
| The gut microbiome in pancreatogenic diabetes differs from that of Type 1 and Type 2 diabetes. | Talukdar R, Sarkar P, Jakkampudi A, Sarkar S, Aslam M, Jandhyala M, Deepika G, Unnisa M, Reddy DN. | Sci Rep | 10.1038/s41598-021-90024-w | 2021 | | |
| Bifidobacterium animalis Probio-M8 improves sarcopenia physical performance by mitigating creatine restrictions imposed by microbial metabolites. | Zhang Z, Fang Y, He Y, Farag MA, Zeng M, Sun Y, Peng S, Jiang S, Zhang X, Chen K, Xu M, Han Z, Zhang J. | NPJ Biofilms Microbiomes | 10.1038/s41522-024-00618-1 | 2024 | | |
| Exploring the Immunological Role of the Microbial Composition of the Appendix and the Associated Risks of Appendectomies. | Islam T, Sagor MS, Tamanna NT, Bappy MKI, Danishuddin, Haque MA, Lackner M. | J Pers Med | 10.3390/jpm15030112 | 2025 | | |
| Validation of method for faecal sampling in cats and dogs for faecal microbiome analysis. | Langon X. | BMC Vet Res | 10.1186/s12917-023-03842-7 | 2023 | | |
| The impact of antibiotics on the gut microbiota of children recovering from watery diarrhoea. | Le SH, Nguyen Ngoc Minh C, de Sessions PF, Jie S, Tran Thi Hong C, Thwaites GE, Baker S, Pham DT, Chung The H. | NPJ Antimicrob Resist | 10.1038/s44259-024-00030-x | 2024 | | |
| Gut microbiome predictors of Escherichia coli sequence type 131 colonization and loss. | Park DE, Aziz M, Koch BJ, Roach K, Clabots C, Johnson JR, Price LB, Liu CM. | EBioMedicine | 10.1016/j.ebiom.2023.104909 | 2024 | | |
| OSA Is Associated With the Human Gut Microbiota Composition and Functional Potential in the Population-Based Swedish CardioPulmonary bioImage Study. | Baldanzi G, Sayols-Baixeras S, Theorell-Haglow J, Dekkers KF, Hammar U, Nguyen D, Lin YT, Ahmad S, Holm JB, Nielsen HB, Brunkwall L, Benedict C, Cedernaes J, Koskiniemi S, Phillipson M, Lind L, Sundstrom J, Bergstrom G, Engstrom G, Smith JG, Orho-Melander M, Arnlov J, Kennedy B, Lindberg E, Fall T. | Chest | 10.1016/j.chest.2023.03.010 | 2023 | | |
| The gut microbiota and aging: interactions, implications, and interventions. | Gyriki D, Nikolaidis CG, Bezirtzoglou E, Voidarou C, Stavropoulou E, Tsigalou C. | Front Aging | 10.3389/fragi.2025.1452917 | 2025 | | |
| Microbial signature of plaque and gut in acute coronary syndrome. | Pisano E, Bugli F, Severino A, Pedicino D, Paroni Sterbini F, Martini C, De Maio F, Vinci R, Sacconi A, Canonico F, D'Aiello A, Bonanni A, Proto L, Ciampi P, Ponzo M, Grimaldi MC, Urbani A, Primiano A, Gervasoni J, Montone R, Crea F, Sanguinetti M, Liuzzo G. | Sci Rep | 10.1038/s41598-023-41867-y | 2023 | | |
| Pathogenicity | Fecal microbiota transplantation to prevent acute graft-versus-host disease: pre-planned interim analysis of donor effect. | Reddi S, Senyshyn L, Ebadi M, Podlesny D, Minot SS, Gooley T, Kabage AJ, Hill GR, Lee SJ, Khoruts A, Rashidi A. | Nat Commun | 10.1038/s41467-025-56375-y | 2025 | |
| Oxidative stress bridges the gut microbiota and the occurrence of frailty syndrome. | Chen SY, Wang TY, Zhao C, Wang HJ. | World J Gastroenterol | 10.3748/wjg.v28.i38.5547 | 2022 | | |
| Bacteriophages targeting Enterococcus faecalis enhance the therapeutic efficacy of levodopa in an MPTP-induced Parkinson's disease mouse model with E. faecalis gut colonization. | Hong JP, Shin S, Chung SH, Song MC, Shim JG, Kim Y, Lee B, Yeom M, Park HJ, Jung KH, Hong J, Hahm DH. | Sci Rep | 10.1038/s41598-024-77038-w | 2024 | | |
| Pathogenicity | Effects of Bifidobacterium animalis ssp. lactis 420 on gastrointestinal inflammation induced by a nonsteroidal anti-inflammatory drug: A randomized, placebo-controlled, double-blind clinical trial. | Makela SM, Forssten SD, Kailajarvi M, Langen VL, Scheinin M, Tiihonen K, Ouwehand AC. | Br J Clin Pharmacol | 10.1111/bcp.14880 | 2021 | |
| Interactions of Obstructive Sleep Apnea With the Pathophysiology of Cardiovascular Disease, Part 1: JACC State-of-the-Art Review. | Javaheri S, Javaheri S, Somers VK, Gozal D, Mokhlesi B, Mehra R, McNicholas WT, Zee PC, Campos-Rodriguez F, Martinez-Garcia MA, Cistulli P, Malhotra A. | J Am Coll Cardiol | 10.1016/j.jacc.2024.02.059 | 2024 | | |
| Metabolism | Bile Acid Metabolic Profiles and Their Correlation with Intestinal Epithelial Cell Proliferation and Barrier Integrity in Suckling Piglets. | Zhu M, Lin C, Niu K, Liu Y, Zeng W, Wang R, Guo X, Zhai Z. | Animals (Basel) | 10.3390/ani14020287 | 2024 | |
| Pathogenicity | Dietary Isomers of Sialyllactose Increase Ganglioside Sialic Acid Concentrations in the Corpus Callosum and Cerebellum and Modulate the Colonic Microbiota of Formula-Fed Piglets. | Jacobi SK, Yatsunenko T, Li D, Dasgupta S, Yu RK, Berg BM, Chichlowski M, Odle J. | J Nutr | 10.3945/jn.115.220152 | 2016 | |
| A New 4-Thiazolidinone Derivative (Les-6490) as a Gut Microbiota Modulator: Antimicrobial and Prebiotic Perspectives. | Konechnyi Y, Rumynska T, Yushyn I, Holota S, Turkina V, Ryviuk Rydel M, Sekowska A, Salyha Y, Korniychuk O, Lesyk R. | Antibiotics (Basel) | 10.3390/antibiotics13040291 | 2024 | | |
| Genetics | The fecal microbiome and rotavirus vaccine immunogenicity in rural Zimbabwean infants. | Robertson RC, Church JA, Edens TJ, Mutasa K, Min Geum H, Baharmand I, Gill SK, Ntozini R, Chasekwa B, Carr L, Majo FD, Kirkpatrick BD, Lee B, Moulton LH, Humphrey JH, Prendergast AJ, Manges AR, SHINE Trial Team. | Vaccine | 10.1016/j.vaccine.2021.07.076 | 2021 | |
| Quantitative Analysis and Visualization of the Interaction Between Intestinal Microbiota and Type 1 Diabetes in Children Based on Multi-Databases. | Zhao M, Xu S, Cavagnaro MJ, Zhang W, Shi J. | Front Pediatr | 10.3389/fped.2021.752250 | 2021 | | |
| Intestinal microbiome characterization of adult Brazilian men with psoriasis compared to omnivore and vegetarian controls. | Polo TCF, Lai MRR, Miot LDB, Bento GFC, Silva MGD, Marques SA, Miot HA. | An Bras Dermatol | 10.1016/j.abd.2022.08.008 | 2023 | | |
| Probiotics as Adjunctive Treatment for Patients Contracted COVID-19: Current Understanding and Future Needs. | Peng J, Zhang M, Yao G, Kwok LY, Zhang W. | Front Nutr | 10.3389/fnut.2021.669808 | 2021 | | |
| Effects of Lactobacillus curvatus HY7601 and Lactobacillus plantarum KY1032 on Overweight and the Gut Microbiota in Humans: Randomized, Double-Blinded, Placebo-Controlled Clinical Trial. | Mo SJ, Lee K, Hong HJ, Hong DK, Jung SH, Park SD, Shim JJ, Lee JL. | Nutrients | 10.3390/nu14122484 | 2022 | | |
| Colonic in vitro fermentation of mycoprotein promotes shifts in gut microbiota, with enrichment of Bacteroides species. | Colosimo R, Harris HC, Ahn-Jarvis J, Troncoso-Rey P, Finnigan TJA, Wilde PJ, Warren FJ. | Commun Biol | 10.1038/s42003-024-05893-4 | 2024 | | |
| Enzymology | Fecal microbiome profiles of neonatal dairy calves with varying severities of gastrointestinal disease. | Slanzon GS, Ridenhour BJ, Moore DA, Sischo WM, Parrish LM, Trombetta SC, McConnel CS. | PLoS One | 10.1371/journal.pone.0262317 | 2022 | |
| Pathogenicity | Multi-omics analysis reveals the efficacy of two probiotic strains in managing feline chronic kidney disease through gut microbiome and host metabolome | Huang H, Kuo T, Lee Y, Chen M. | Front Vet Sci | 2025 | | |
| Multiomics Revealed the Multi-Dimensional Effects of Late Sleep on Gut Microbiota and Metabolites in Children in Northwest China. | Xiang X, Chen J, Zhu M, Gao H, Liu X, Wang Q, Wang Q. | Nutrients | 10.3390/nu15204315 | 2023 | | |
| Landscape of the gut archaeome in association with geography, ethnicity, urbanization, and diet in the Chinese population. | Bai X, Sun Y, Li Y, Li M, Cao Z, Huang Z, Zhang F, Yan P, Wang L, Luo J, Wu J, Fan D, Chen H, Zhi M, Lan P, Zeng Z, Wu X, Miao Y, Zuo T. | Microbiome | 10.1186/s40168-022-01335-7 | 2022 | | |
| Genetics | Investigation of the Ecological Link between Recurrent Microbial Human Gut Communities and Physical Activity. | Tarracchini C, Fontana F, Lugli GA, Mancabelli L, Alessandri G, Turroni F, Ventura M, Milani C. | Microbiol Spectr | 10.1128/spectrum.00420-22 | 2022 | |
| Probiotics in Adolescent Prediabetes: A Pilot RCT on Glycemic Control and Intestinal Bacteriome. | Stefanaki C, Michos A, Mastorakos G, Mantzou A, Landis G, Zosi P, Bacopoulou F. | J Clin Med | 10.3390/jcm8101743 | 2019 | | |
| Human gut bifidobacteria inhibit the growth of the opportunistic fungal pathogen Candida albicans. | Ricci L, Mackie J, Donachie GE, Chapuis A, Mezerova K, Lenardon MD, Brown AJP, Duncan SH, Walker AW. | FEMS Microbiol Ecol | 10.1093/femsec/fiac095 | 2022 | | |
| Phylogeny | Composition of gastrointestinal microbiota in association with treatment response in individuals with metastatic castrate resistant prostate cancer progressing on enzalutamide and initiating treatment with anti-PD-1 (pembrolizumab). | Peiffer LB, White JR, Jones CB, Slottke RE, Ernst SE, Moran AE, Graff JN, Sfanos KS. | Neoplasia | 10.1016/j.neo.2022.100822 | 2022 | |
| Genetics | Dysbiotic gut microbiota in pancreatic cancer patients form correlation networks with the oral microbiota and prognostic factors. | Matsukawa H, Iida N, Kitamura K, Terashima T, Seishima J, Makino I, Kannon T, Hosomichi K, Yamashita T, Sakai Y, Honda M, Yamashita T, Mizukoshi E, Kaneko S. | Am J Cancer Res | 2021 | | |
| The Gut Microbiome and Cancer Immunotherapy: Can We Use the Gut Microbiome as a Predictive Biomarker for Clinical Response in Cancer Immunotherapy? | Oh B, Boyle F, Pavlakis N, Clarke S, Eade T, Hruby G, Lamoury G, Carroll S, Morgia M, Kneebone A, Stevens M, Liu W, Corless B, Molloy M, Kong B, Libermann T, Rosenthal D, Back M. | Cancers (Basel) | 10.3390/cancers13194824 | 2021 | | |
| Seasonal changes of circulating 25-hydroxyvitamin D correlate with the lower gut microbiome composition in inflammatory bowel disease patients. | Soltys K, Stuchlikova M, Hlavaty T, Gaalova B, Budis J, Gazdarica J, Krajcovicova A, Zelinkova Z, Szemes T, Kuba D, Drahovska H, Turna J, Stuchlik S. | Sci Rep | 10.1038/s41598-020-62811-4 | 2020 | | |
| The inconsistent pathogenesis of endometriosis and adenomyosis: insights from endometrial metabolome and microbiome. | Li C, Xu X, Zhao X, Du B. | mSystems | 10.1128/msystems.00202-25 | 2025 | | |
| Genetics | Consistent Stool Metagenomic Biomarkers Associated with the Response To Melanoma Immunotherapy. | Olekhnovich EI, Ivanov AB, Babkina AA, Sokolov AA, Ulyantsev VI, Fedorov DE, Ilina EN. | mSystems | 10.1128/msystems.01023-22 | 2023 | |
| Phylogeny | Characterization of bacterial community structure during in-vessel composting of agricultural waste by 16S rRNA sequencing. | Varma VS, Dhamodharan K, Kalamdhad AS. | 3 Biotech | 10.1007/s13205-018-1319-7 | 2018 | |
| Hypertension Programmed by Perinatal High-Fat Diet: Effect of Maternal Gut Microbiota-Targeted Therapy. | Hsu CN, Hou CY, Chan JYH, Lee CT, Tain YL. | Nutrients | 10.3390/nu11122908 | 2019 | | |
| Genetics | SAMPL-seq reveals micron-scale spatial hubs in the human gut microbiome. | Richardson M, Zhao S, Lin L, Sheth RU, Qu Y, Lee J, Moody T, Ricaurte D, Huang Y, Velez-Cortes F, Urtecho G, Wang HH. | Nat Microbiol | 10.1038/s41564-024-01914-4 | 2025 | |
| A Single Faecal Microbiota Transplantation Altered the Microbiota of Weaned Pigs. | Nowland TL, Torok VA, Low WY, Plush KJ, Barton MD, Kirkwood RN. | Life (Basel) | 10.3390/life10090203 | 2020 | | |
| Survival of Probiotic Bacterial Cells in the Upper Gastrointestinal Tract and the Effect of the Surviving Population on the Colonic Microbial Community Activity and Composition. | Govaert M, Rotsaert C, Vannieuwenhuyse C, Duysburgh C, Medlin S, Marzorati M, Jarrett H. | Nutrients | 10.3390/nu16162791 | 2024 | | |
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| Phylogeny | Metatranscriptomic analysis to define the Secrebiome, and 16S rRNA profiling of the gut microbiome in obesity and metabolic syndrome of Mexican children. | Gallardo-Becerra L, Cornejo-Granados F, Garcia-Lopez R, Valdez-Lara A, Bikel S, Canizales-Quinteros S, Lopez-Contreras BE, Mendoza-Vargas A, Nielsen H, Ochoa-Leyva A. | Microb Cell Fact | 10.1186/s12934-020-01319-y | 2020 | |
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| Beneficial Effects of Probiotic Lactobacillus paraplantarum BGCG11 on Pancreatic and Duodenum Function in Diabetic Rats. | Mihailovic M, Sokovic Bajic S, Arambasic Jovanovic J, Brdaric E, Dinic S, Grdovic N, Uskokovic A, Rajic J, Dordevic M, Tolinacki M, Golic N, Zivkovic M, Vidakovic M. | Int J Mol Sci | 10.3390/ijms25147697 | 2024 | | |
| Carbon dioxide enhances Akkermansia muciniphila fitness and anti-obesity efficacy in high-fat diet mice. | Wang X, Yang Q, Shi C, Wang Y, Guo D, Wan X, Dong P, Zhang Q, Hu Y, Zhang R, Yang H, Chen W, Liu Z. | ISME J | 10.1093/ismejo/wraf034 | 2025 | | |
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| Intermittent fasting positively modulates human gut microbial diversity and ameliorates blood lipid profile. | Khan MN, Khan SI, Rana MI, Ayyaz A, Khan MY, Imran M. | Front Microbiol | 10.3389/fmicb.2022.922727 | 2022 | | |
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| Fecal short-chain fatty acids in non-constipated irritable bowel syndrome: a potential clinically relevant stratification factor based on catabotyping analysis. | Gargari G, Mantegazza G, Taverniti V, Gardana C, Valenza A, Rossignoli F, Barbaro MR, Marasco G, Cremon C, Barbara G, Guglielmetti S. | Gut Microbes | 10.1080/19490976.2023.2274128 | 2023 | | |
| Influence of grape consumption on the human microbiome. | Dave A, Beyoglu D, Park EJ, Idle JR, Pezzuto JM. | Sci Rep | 10.1038/s41598-023-34813-5 | 2023 | | |
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| Social demographics determinants for resistome and microbiome variation of a multiethnic community in Southern Malaysia. | Dwiyanto J, Huet MAL, Hussain MH, Su TT, Tan JBL, Toh KY, Lee JWJ, Rahman S, Chong CW. | NPJ Biofilms Microbiomes | 10.1038/s41522-023-00425-0 | 2023 | | |
| Signatures of disease outcome severity in the intestinal fungal and bacterial microbiome of COVID-19 patients. | Rizzello F, Viciani E, Gionchetti P, Filippone E, Imbesi V, Melotti L, Dussias NK, Salice M, Santacroce B, Padella A, Velichevskaya A, Marcante A, Castagnetti A. | Front Cell Infect Microbiol | 10.3389/fcimb.2024.1352202 | 2024 | | |
| Examining the immunoepigenetic-gut microbiome axis in the context of self-esteem among Native Hawaiians and other Pacific Islanders. | Becerra CY, Wells RK, Kunihiro BP, Lee RH, Umeda L, Allan NP, Rubas NC, McCracken TA, Nunokawa CKL, Lee MH, Pidlaoan FGS, Phankitnirondorn K, Dye CK, Yamamoto BY, Peres R, Juarez R, Maunakea AK. | Front Genet | 10.3389/fgene.2023.1125217 | 2023 | | |
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| Gut butyrate-producers confer post-infarction cardiac protection. | Chen HC, Liu YW, Chang KC, Wu YW, Chen YM, Chao YK, You MY, Lundy DJ, Lin CJ, Hsieh ML, Cheng YC, Prajnamitra RP, Lin PJ, Ruan SC, Chen DH, Shih ESC, Chen KW, Chang SS, Chang CMC, Puntney R, Moy AW, Cheng YY, Chien HY, Lee JJ, Wu DC, Hwang MJ, Coonen J, Hacker TA, Yen CE, Rey FE, Kamp TJ, Hsieh PCH. | Nat Commun | 10.1038/s41467-023-43167-5 | 2023 | | |
| Precision Nutrition Unveiled: Gene-Nutrient Interactions, Microbiota Dynamics, and Lifestyle Factors in Obesity Management. | Mansour S, Alkhaaldi SMI, Sammanasunathan AF, Ibrahim S, Farhat J, Al-Omari B. | Nutrients | 10.3390/nu16050581 | 2024 | | |
| Rice bran oil supplementation protects swine weanlings against diarrhea and lipopolysaccharide challenge. | Huang J, Qin W, Xu B, Sun H, Jing F, Xu Y, Zhao J, Chen Y, Ma L, Yan X. | J Zhejiang Univ Sci B | 10.1631/jzus.b2200565 | 2023 | | |
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| Gut microbiota diversity and specific composition during immunotherapy in responders with non-small cell lung cancer. | Shoji F, Yamaguchi M, Okamoto M, Takamori S, Yamazaki K, Okamoto T, Maehara Y. | Front Mol Biosci | 10.3389/fmolb.2022.1040424 | 2022 | | |
| MiRNAs and Microbiota in Non-Small Cell Lung Cancer (NSCLC): Implications in Pathogenesis and Potential Role in Predicting Response to ICI Treatment | Nucera F, Ruggeri P, Spagnolo C, Santarpia M, Ieni A, Monaco F, Tuccari G, Pioggia G, Gangemi S. | Int J Mol Sci | 2024 | | ||
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| Genetics | Metagenomic Characterization of Gut Microbiota of Carriers of Extended-Spectrum Beta-Lactamase or Carbapenemase-Producing Enterobacteriaceae Following Treatment with Oral Antibiotics and Fecal Microbiota Transplantation: Results from a Multicenter Randomized Trial. | Leo S, Lazarevic V, Girard M, Gaia N, Schrenzel J, de Lastours V, Fantin B, Bonten M, Carmeli Y, Rondinaud E, Harbarth S, Huttner BD. | Microorganisms | 10.3390/microorganisms8060941 | 2020 | |
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| Th17 cells in primary Sjögren's syndrome negatively correlate with increased Roseburia and Coprococcus. | Xin X, Wang Q, Qing J, Song W, Gui Y, Li X, Li Y. | Front Immunol | 10.3389/fimmu.2022.974648 | 2022 | | |
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| Vaginal Microbiome Composition in Early Pregnancy and Risk of Spontaneous Preterm and Early Term Birth Among African American Women. | Dunlop AL, Satten GA, Hu YJ, Knight AK, Hill CC, Wright ML, Smith AK, Read TD, Pearce BD, Corwin EJ. | Front Cell Infect Microbiol | 10.3389/fcimb.2021.641005 | 2021 | | |
| The Evolving Landscape of Biomarkers for Anti-PD-1 or Anti-PD-L1 Therapy. | Tunger A, Sommer U, Wehner R, Kubasch AS, Grimm MO, Bachmann MP, Platzbecker U, Bornhauser M, Baretton G, Schmitz M. | J Clin Med | 10.3390/jcm8101534 | 2019 | | |
| Metabolism | Multi-enzymatic one-pot reduction of dehydrocholic acid to 12-keto-ursodeoxycholic acid with whole-cell biocatalysts. | Sun B, Kantzow C, Bresch S, Castiglione K, Weuster-Botz D. | Biotechnol Bioeng | 10.1002/bit.24606 | 2013 | |
| Blautia coccoides and its metabolic products enhance the efficacy of bladder cancer immunotherapy by promoting CD8+ T cell infiltration. | Wang B, Shangguan W, Li W, Xie M, Yu Y, Yang Q, Sun Q, Xue J, Zhu Z, Zhu Y, Wu P. | J Transl Med | 10.1186/s12967-024-05762-y | 2024 | | |
| Metaproteomics reveals diet-induced changes in gut microbiome function according to Crohn's disease location. | Levi Mortera S, Marzano V, Rapisarda F, Marangelo C, Pirona I, Vernocchi P, Di Michele M, Del Chierico F, Quintero MA, Fernandez I, Hazime H, Killian RM, Solis N, Ortega M, Damas OM, Proksell S, Kerman DH, Deshpande AR, Garces L, Scaldaferri F, Gasbarrini A, Abreu MT, Putignani L. | Microbiome | 10.1186/s40168-024-01927-5 | 2024 | | |
| Genetics | Fecal Microbiota Composition, Their Interactions, and Metagenome Function in US Adults with Type 2 Diabetes According to Enterotypes. | Park S, Zhang T, Kang S. | Int J Mol Sci | 10.3390/ijms24119533 | 2023 | |
| The effect of intestinal flora on immune checkpoint inhibitors in tumor treatment: a narrative review. | Wang D, Hao H, Li X, Wang Z. | Ann Transl Med | 10.21037/atm-20-4535 | 2020 | | |
| Probiotic Bifidobacterium lactis V9 Regulates the Secretion of Sex Hormones in Polycystic Ovary Syndrome Patients through the Gut-Brain Axis. | Zhang J, Sun Z, Jiang S, Bai X, Ma C, Peng Q, Chen K, Chang H, Fang T, Zhang H. | mSystems | 10.1128/msystems.00017-19 | 2019 | | |
| Metabolism | The association of appendectomy with prognosis and tumor-associated macrophages in patients with colorectal cancer. | Liu G, Hu C, Wei J, Li Q, Zhang J, Zhang Z, Qu P, Cao Z, Wang R, Ji G, She J, Shi F. | iScience | 10.1016/j.isci.2024.110578 | 2024 | |
| Effects of removing in-feed antibiotics and zinc oxide on the taxonomy and functionality of the microbiota in post weaning pigs. | Ortiz Sanjuan JM, Arguello H, Cabrera-Rubio R, Crispie F, Cotter PD, Garrido JJ, Ekhlas D, Burgess CM, Manzanilla EG. | Anim Microbiome | 10.1186/s42523-024-00306-7 | 2024 | | |
| Antibiotic and antifungal use in pediatric leukemia and lymphoma patients are associated with increasing opportunistic pathogens and decreasing bacteria responsible for activities that enhance colonic defense. | Dunn KA, MacDonald T, Rodrigues GJ, Forbrigger Z, Bielawski JP, Langille MGI, Van Limbergen J, Kulkarni K. | Front Cell Infect Microbiol | 10.3389/fcimb.2022.924707 | 2022 | | |
| Fecal microbiota transplantation and its repercussions in patients with melanoma refractory to anti-PD-1 therapy: scope review. | Barbosa EC, Bucar EEC, Jube GR, Silveira LB, Silva NCD, Faria PCC, Ramos PLC, Moraes VRY, Barros JOB. | Rev Col Bras Cir | 10.1590/0100-6991e-20233490-en | 2023 | | |
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| Exploring the Potential of Humoral Immune Response to Commensal Bifidobacterium as a Biomarker for Human Health, including Both Malignant and Non-Malignant Diseases: A Perspective on Detection Strategies and Future Directions. | Itoh K, Matsueda S. | Biomedicines | 10.3390/biomedicines12040803 | 2024 | | |
| The human microbiome and COVID-19: A systematic review. | Yamamoto S, Saito M, Tamura A, Prawisuda D, Mizutani T, Yotsuyanagi H. | PLoS One | 10.1371/journal.pone.0253293 | 2021 | | |
| Disentangling the age-related manner in the associations between gut microbiome and women's health: a multi-cohort microbiome study. | Dong C, Guan Q, Xu W, Zhang X, Jin B, Yu S, Xu X, Xia Y. | Gut Microbes | 10.1080/19490976.2023.2290320 | 2023 | | |
| Genetics | Altered Gut Microbiome Profile in Patients With Pulmonary Arterial Hypertension. | Kim S, Rigatto K, Gazzana MB, Knorst MM, Richards EM, Pepine CJ, Raizada MK. | Hypertension | 10.1161/hypertensionaha.119.14294 | 2020 | |
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| Dietary intervention with functional foods modulating gut microbiota for improving the efficacy of COVID-19 vaccines. | Oh S, Seo H. | Heliyon | 10.1016/j.heliyon.2023.e15668 | 2023 | | |
| Metabolism | Novel whole-cell biocatalysts with recombinant hydroxysteroid dehydrogenases for the asymmetric reduction of dehydrocholic acid. | Braun M, Sun B, Anselment B, Weuster-Botz D. | Appl Microbiol Biotechnol | 10.1007/s00253-012-4072-6 | 2012 | |
| The Local Microbiome in Esophageal Cancer and Treatment Response: A Review of Emerging Data and Future Directions. | Pandey A, Lieu CH, Kim SS. | Cancers (Basel) | 10.3390/cancers15143562 | 2023 | | |
| Pathogenicity | Protein Intake, Metabolic Status and the Gut Microbiota in Different Ethnicities: Results from Two Independent Cohorts. | Bel Lassen P, Attaye I, Adriouch S, Nicolaou M, Aron-Wisnewsky J, Nielsen T, Chakaroun R, Le Chatelier E, Forslund S, Belda E, Bork P, Backhed F, Stumvoll M, Pedersen O, Herrema H, Groen AK, Pinto-Sietsma SJ, Zwinderman AH, Nieuwdorp M, Clement K, On Behalf Of Metacardis Consortium. | Nutrients | 10.3390/nu13093159 | 2021 | |
| Pathogenicity | Alteration of pro-carcinogenic gut microbiota is associated with clear cell renal cell carcinoma tumorigenesis. | Yang BY, Zhao FZ, Li XH, Zhao MS, Lv JC, Shi MJ, Li J, Zhou ZY, Wang JJ, Song J. | Front Microbiol | 10.3389/fmicb.2023.1133782 | 2023 | |
| Phylogeny | Effect of Bifidobacterium bifidum on Clinical Characteristics and Gut Microbiota in Attention-Deficit/Hyperactivity Disorder. | Wang LJ, Yang CY, Kuo HC, Chou WJ, Tsai CS, Lee SY. | J Pers Med | 10.3390/jpm12020227 | 2022 | |
| 2'-Fucosyllactose Increases the Abundance of Blautia in the Presence of Extracellular Fucosidase-Possessing Bacteria. | Horigome A, Hashikura N, Yoshida K, Xiao JZ, Odamaki T. | Front Microbiol | 10.3389/fmicb.2022.913624 | 2022 | | |
| The Effect of Human Milk Oligosaccharides and Bifidobacterium longum subspecies infantis Bi-26 on Simulated Infant Gut Microbiome and Metabolites. | Salli K, Hirvonen J, Anglenius H, Hibberd AA, Ahonen I, Saarinen MT, Maukonen J, Ouwehand AC. | Microorganisms | 10.3390/microorganisms11061553 | 2023 | | |
| Enzymology | A double-blind, 377-subject randomized study identifies Ruminococcus, Coprococcus, Christensenella, and Collinsella as long-term potential key players in the modulation of the gut microbiome of lactose intolerant individuals by galacto-oligosaccharides. | Azcarate-Peril MA, Roach J, Marsh A, Chey WD, Sandborn WJ, Ritter AJ, Savaiano DA, Klaenhammer TR. | Gut Microbes | 10.1080/19490976.2021.1957536 | 2021 | |
| Impact of cryoprotective agents on human gut microbes and in vitro stabilized artificial gut microbiota communities. | Alessandri G, Rizzo SM, Mancabelli L, Fontana F, Longhi G, Turroni F, van Sinderen D, Ventura M. | Microb Biotechnol | 10.1111/1751-7915.14509 | 2024 | | |
| The gut microbiome regulates the clinical efficacy of sulfasalazine therapy for IBD-associated spondyloarthritis. | Lima SF, Pires S, Rupert A, Oguntunmibi S, Jin WB, Marderstein A, Funez-dePagnier G, Maldarelli G, Viladomiu M, Putzel G, Yang W, Tran N, Xiang G, Grier A, Guo CJ, Lukin D, Mandl LA, Scherl EJ, Longman RS. | Cell Rep Med | 10.1016/j.xcrm.2024.101431 | 2024 | | |
| Alterations of the Skin and Gut Microbiome in Psoriasis and Psoriatic Arthritis. | Olejniczak-Staruch I, Ciazynska M, Sobolewska-Sztychny D, Narbutt J, Skibinska M, Lesiak A. | Int J Mol Sci | 10.3390/ijms22083998 | 2021 | | |
| Multiple Sclerosis-Associated Gut Microbiome in the Israeli Diverse Populations: Associations with Ethnicity, Gender, Disability Status, Vitamin D Levels, and Mediterranean Diet. | Nitzan Z, Staun-Ram E, Volkowich A, Miller A. | Int J Mol Sci | 10.3390/ijms241915024 | 2023 | | |
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| Microbial bile salt hydrolases mediate the efficacy of faecal microbiota transplant in the treatment of recurrent Clostridioides difficile infection. | Mullish BH, McDonald JAK, Pechlivanis A, Allegretti JR, Kao D, Barker GF, Kapila D, Petrof EO, Joyce SA, Gahan CGM, Glegola-Madejska I, Williams HRT, Holmes E, Clarke TB, Thursz MR, Marchesi JR. | Gut | 10.1136/gutjnl-2018-317842 | 2019 | | |
| Gut dsDNA virome shows diversity and richness alterations associated with childhood obesity and metabolic syndrome. | Bikel S, Lopez-Leal G, Cornejo-Granados F, Gallardo-Becerra L, Garcia-Lopez R, Sanchez F, Equihua-Medina E, Ochoa-Romo JP, Lopez-Contreras BE, Canizales-Quinteros S, Hernandez-Reyna A, Mendoza-Vargas A, Ochoa-Leyva A. | iScience | 10.1016/j.isci.2021.102900 | 2021 | | |
| Systemic iron reduction by venesection alters the gut microbiome in patients with haemochromatosis. | Parmanand B, Watson M, Boland KJ, Ramamurthy N, Wharton V, Morovat A, Lund EK, Collier J, Le Gall G, Kellingray L, Fairweather-Tait S, Cobbold JF, Narbad A, Ryan JD. | JHEP Rep | 10.1016/j.jhepr.2020.100154 | 2020 | | |
| Resistome and microbial profiling of pediatric patient's gut infected with multidrug-resistant diarrhoeagenic Enterobacteriaceae using next-generation sequencing; the first study from Pakistan. | Afridi OK, Ali J, Chang JH. | Libyan J Med | 10.1080/19932820.2021.1915615 | 2021 | | |
| Faecal microbiome-based machine learning for multi-class disease diagnosis. | Su Q, Liu Q, Lau RI, Zhang J, Xu Z, Yeoh YK, Leung TWH, Tang W, Zhang L, Liang JQY, Yau YK, Zheng J, Liu C, Zhang M, Cheung CP, Ching JYL, Tun HM, Yu J, Chan FKL, Ng SC. | Nat Commun | 10.1038/s41467-022-34405-3 | 2022 | | |
| A new technique for tongue brushing and halitosis reduction: the X technique. | Goncalves ACS, Martins MCN, Paula BL, Weckwerth PH, Franzolin SOB, Silveira EMV. | J Appl Oral Sci | 10.1590/1678-7757-2018-0331 | 2019 | | |
| Simvastatin induces human gut bacterial cell surface genes. | Escalante V, Nayak RR, Noecker C, Babdor J, Spitzer M, Deutschbauer AM, Turnbaugh PJ. | Mol Microbiol | 10.1111/mmi.15151 | 2024 | | |
| Sex Differences in Association Between Gut Microbiome and Essential Hypertension Based on Ambulatory Blood Pressure Monitoring. | Virwani PD, Qian G, Hsu MSS, Pijarnvanit TKKTS, Cheung CN, Chow YH, Tang LK, Tse YH, Xian JW, Lam SS, Lee CPI, Lo CCW, Liu RKC, Ho TL, Chow BY, Leung KS, Tsang HW, Lo EKK, Tung KTS, Chung SK, Yuen MF, Leung SY, Ip P, Hung IF, Louie JCY, El-Nezami H, Ho JWK, Lau KK. | Hypertension | 10.1161/hypertensionaha.122.20752 | 2023 | | |
| A blood-based metabolomic signature predictive of risk for pancreatic cancer. | Irajizad E, Kenney A, Tang T, Vykoukal J, Wu R, Murage E, Dennison JB, Sans M, Long JP, Loftus M, Chabot JA, Kluger MD, Kastrinos F, Brais L, Babic A, Jajoo K, Lee LS, Clancy TE, Ng K, Bullock A, Genkinger JM, Maitra A, Do KA, Yu B, Wolpin BM, Hanash S, Fahrmann JF. | Cell Rep Med | 10.1016/j.xcrm.2023.101194 | 2023 | | |
| The commensal microbiome is associated with anti-PD-1 efficacy in metastatic melanoma patients. | Matson V, Fessler J, Bao R, Chongsuwat T, Zha Y, Alegre ML, Luke JJ, Gajewski TF. | Science | 10.1126/science.aao3290 | 2018 | | |
| Selection of fast and slow growing bacteria from fecal microbiota using continuous culture with changing dilution rate. | Adamberg K, Adamberg S. | Microb Ecol Health Dis | 10.1080/16512235.2018.1549922 | 2018 | | |
| Introducing untargeted data-independent acquisition for metaproteomics of complex microbial samples. | Pietila S, Suomi T, Elo LL. | ISME Commun | 10.1038/s43705-022-00137-0 | 2022 | | |
| Long-term chemically protected sodium butyrate supplementation in broilers as an antibiotic alternative to dynamically modulate gut microbiota. | Wan F, Deng FL, Chen L, Zhong RQ, Wang MY, Yi B, Liu L, Zhao HB, Zhang HF. | Poult Sci | 10.1016/j.psj.2022.102221 | 2022 | | |
| Modulation of the intestinal microbiota impacts the efficacy of immunotherapy in cancer patients - A recent literature survey. | Ziegler S, Bereswill S, Heimesaat MM. | Eur J Microbiol Immunol (Bp) | 10.1556/1886.2022.00017 | 2022 | | |
| Temporal changes in fecal microbiota of patients infected with COVID-19: a longitudinal cohort. | Galperine T, Choi Y, Pagani JL, Kritikos A, Papadimitriou-Olivgeris M, Mean M, Scherz V, Opota O, Greub G, Guery B, Bertelli C, RegCOVID Study Group. | BMC Infect Dis | 10.1186/s12879-023-08511-6 | 2023 | | |
| Potential Application of Tea Polyphenols to the Prevention of COVID-19 Infection: Based on the Gut-Lung Axis. | Xu L, Ho CT, Liu Y, Wu Z, Zhang X. | Front Nutr | 10.3389/fnut.2022.899842 | 2022 | | |
| Metabolism | Impacts of Cigarette Smoking Status on Metabolomic and Gut Microbiota Profile in Male Patients With Coronary Artery Disease: A Multi-Omics Study. | Hu X, Fan Y, Li H, Zhou R, Zhao X, Sun Y, Zhang S. | Front Cardiovasc Med | 10.3389/fcvm.2021.766739 | 2021 | |
| Phylogeny | Microbiome Profiling from Fecal Immunochemical Test Reveals Microbial Signatures with Potential for Colorectal Cancer Screening. | Khannous-Lleiffe O, Willis JR, Saus E, Moreno V, Castellvi-Bel S, Gabaldon T, On Behalf Of The Criprev Consortium. | Cancers (Basel) | 10.3390/cancers15010120 | 2022 | |
| Single-Arm, Non-randomized, Time Series, Single-Subject Study of Fecal Microbiota Transplantation in Multiple Sclerosis. | Engen PA, Zaferiou A, Rasmussen H, Naqib A, Green SJ, Fogg LF, Forsyth CB, Raeisi S, Hamaker B, Keshavarzian A. | Front Neurol | 10.3389/fneur.2020.00978 | 2020 | | |
| The Role of Gut Microbiota in Modulating Tumor Growth and Anticancer Agent Efficacy. | Kim J, Lee HK. | Mol Cells | 10.14348/molcells.2021.0032 | 2021 | | |
| Tumor bacterial markers diagnose the initiation and four stages of colorectal cancer. | Cai P, Xiong J, Sha H, Dai X, Lu J. | Front Cell Infect Microbiol | 10.3389/fcimb.2023.1123544 | 2023 | | |
| Depicting the landscape of gut microbial-metabolic interaction and microbial-host immune heterogeneity in deficient and proficient DNA mismatch repair colorectal cancers. | Li J, Guo Y, Liu J, Guo F, Du L, Yang Y, Li X, Ma Y. | J Immunother Cancer | 10.1136/jitc-2023-007420 | 2023 | | |
| Promotion of Deoxycholic Acid Effect on Colonic Cancer Cell Lines In Vitro by Altering the Mucosal Microbiota. | Ma Y, Zhang Y, Qu R, Zhou X, Sun L, Wang K, Jiang C, Zhang Z, Fu W. | Microorganisms | 10.3390/microorganisms10122486 | 2022 | | |
| Evaluation of Microbiological Performance and the Potential Clinical Impact of the ePlex® Blood Culture Identification Panels for the Rapid Diagnosis of Bacteremia and Fungemia. | Bryant S, Almahmoud I, Pierre I, Bardet J, Touati S, Maubon D, Cornet M, Richarme C, Maurin M, Pavese P, Caspar Y. | Front Cell Infect Microbiol | 10.3389/fcimb.2020.594951 | 2020 | | |
| Microbial metabolite butyrate promotes anti-PD-1 antitumor efficacy by modulating T cell receptor signaling of cytotoxic CD8 T cell. | Zhu X, Li K, Liu G, Wu R, Zhang Y, Wang S, Xu M, Lu L, Li P. | Gut Microbes | 10.1080/19490976.2023.2249143 | 2023 | | |
| Pathogenicity | Investigation of the relationship between inflammation and microbiota in the intestinal tissue of female and male rats fed with fructose: Modulatory role of metformin. | Yalcin Bugdayci A, Akarca Dizakar SO, Demirel MA, Omeroglu S, Akar F, Uludag MO. | Daru | 10.1007/s40199-024-00521-2 | 2024 | |
| Pathogenicity | Novel human microbe-disease associations inference based on network consistency projection. | Zou S, Zhang J, Zhang Z. | Sci Rep | 10.1038/s41598-018-26448-8 | 2018 | |
| Genetics | A maternal higher-complex carbohydrate diet increases bifidobacteria and alters early life acquisition of the infant microbiome in women with gestational diabetes mellitus. | Sugino KY, Hernandez TL, Barbour LA, Kofonow JM, Frank DN, Friedman JE. | Front Endocrinol (Lausanne) | 10.3389/fendo.2022.921464 | 2022 | |
| Detection of Intestinal Dysbiosis in Post-COVID-19 Patients One to Eight Months after Acute Disease Resolution. | Ferreira-Junior AS, Borgonovi TF, De Salis LVV, Leite AZ, Dantas AS, De Salis GVV, Cruz GNF, De Oliveira LFV, Gomes E, Penna ALB, De Oliveira GLV. | Int J Environ Res Public Health | 10.3390/ijerph191610189 | 2022 | | |
| Pathogenicity | A Uniform Computational Approach Improved on Existing Pipelines to Reveal Microbiome Biomarkers of Nonresponse to Immune Checkpoint Inhibitors. | Shaikh FY, White JR, Gills JJ, Hakozaki T, Richard C, Routy B, Okuma Y, Usyk M, Pandey A, Weber JS, Ahn J, Lipson EJ, Naidoo J, Pardoll DM, Sears CL. | Clin Cancer Res | 10.1158/1078-0432.ccr-20-4834 | 2021 | |
| Cytokine-specific autoantibodies shape the gut microbiome in autoimmune polyendocrine syndrome type 1. | Petersen AO, Jokinen M, Plichta DR, Liebisch G, Gronwald W, Dettmer K, Oefner PJ, Vlamakis H, Chung DC, Ranki A, Xavier RJ. | J Allergy Clin Immunol | 10.1016/j.jaci.2021.03.025 | 2021 | | |
| Role of intestinal flora in primary sclerosing cholangitis and its potential therapeutic value. | Li ZJ, Gou HZ, Zhang YL, Song XJ, Zhang L. | World J Gastroenterol | 10.3748/wjg.v28.i44.6213 | 2022 | | |
| Genetics | Host adaptation in gut Firmicutes is associated with sporulation loss and altered transmission cycle. | Browne HP, Almeida A, Kumar N, Vervier K, Adoum AT, Viciani E, Dawson NJR, Forster SC, Cormie C, Goulding D, Lawley TD. | Genome Biol | 10.1186/s13059-021-02428-6 | 2021 | |
| Pathogenicity | Analysis of Gut Microbiota in Rheumatoid Arthritis Patients: Disease-Related Dysbiosis and Modifications Induced by Etanercept. | Picchianti-Diamanti A, Panebianco C, Salemi S, Sorgi ML, Di Rosa R, Tropea A, Sgrulletti M, Salerno G, Terracciano F, D'Amelio R, Lagana B, Pazienza V. | Int J Mol Sci | 10.3390/ijms19102938 | 2018 | |
| Study of Correlation between Intestinal Microbiota and Traditional Chinese Medicine Syndrome of Patients with Colon Cancer. | Tuo LY, Zhang ZR, Xin H, Chu X, Xu W. | Evid Based Complement Alternat Med | 10.1155/2022/2989456 | 2022 | | |
| Enzymology | Dysbiosis of the faecal microbiota in patients with Crohn's disease and their unaffected relatives. | Joossens M, Huys G, Huys G, Cnockaert M, De Preter V, Verbeke K, Rutgeerts P, Vandamme P, Vermeire S. | Gut | 10.1136/gut.2010.223263 | 2011 | |
| Genetics | A Metagenome-Wide Association Study of the Gut Microbiome and Metabolic Syndrome. | Qin Q, Yan S, Yang Y, Chen J, Li T, Gao X, Yan H, Wang Y, Wang J, Wang S, Ding S. | Front Microbiol | 10.3389/fmicb.2021.682721 | 2021 | |
| Pathogenicity | Disease severity and proton pump inhibitor use impact strongest on faecal microbiome composition in liver cirrhosis. | Stadlbauer V, Komarova I, Klymiuk I, Durdevic M, Reisinger A, Blesl A, Rainer F, Horvath A. | Liver Int | 10.1111/liv.14382 | 2020 | |
| Key bacterial taxa determine longitudinal dynamics of aromatic amino acid catabolism in infants' gut. | Laursen MF, Sinha AK, Sinha AK, Pedersen M, Roager HM. | Gut Microbes | 10.1080/19490976.2023.2221426 | 2023 | | |
| Impact of cystic fibrosis disease on archaea and bacteria composition of gut microbiota. | Miragoli F, Federici S, Ferrari S, Minuti A, Rebecchi A, Bruzzese E, Buccigrossi V, Guarino A, Callegari ML. | FEMS Microbiol Ecol | 10.1093/femsec/fiw230 | 2017 | | |
| Enzymology | Latest development in the synthesis of ursodeoxycholic acid (UDCA): a critical review. | Tonin F, Arends IWCE. | Beilstein J Org Chem | 10.3762/bjoc.14.33 | 2018 | |
| Genetics | Alterations in the gut virome are associated with type 2 diabetes and diabetic nephropathy. | Fan G, Cao F, Kuang T, Yi H, Zhao C, Wang L, Peng J, Zhuang Z, Xu T, Luo Y, Xie Y, Li H, Zhang K, Zeng Y, Zhang X, Peng S, Qiu X, Zhou D, Liang H, Yang B, Kang J, Liu Y, Zhang Y. | Gut Microbes | 10.1080/19490976.2023.2226925 | 2023 | |
| Unveiling the intratumoral microbiota within cancer landscapes. | Che S, Yan Z, Feng Y, Zhao H. | iScience | 10.1016/j.isci.2024.109893 | 2024 | | |
| Human gut microbiome changes during a 10 week Randomised Control Trial for micronutrient supplementation in children with attention deficit hyperactivity disorder. | Stevens AJ, Purcell RV, Darling KA, Eggleston MJF, Kennedy MA, Rucklidge JJ. | Sci Rep | 10.1038/s41598-019-46146-3 | 2019 | | |
| Scalable and cost-effective ribonuclease-based rRNA depletion for transcriptomics. | Huang Y, Sheth RU, Kaufman A, Wang HH. | Nucleic Acids Res | 10.1093/nar/gkz1169 | 2020 | | |
| Modulation of the gut microbiome with nisin. | O'Reilly C, Grimaud GM, Coakley M, O'Connor PM, Mathur H, Peterson VL, O'Donovan CM, Lawlor PG, Cotter PD, Stanton C, Rea MC, Hill C, Ross RP. | Sci Rep | 10.1038/s41598-023-34586-x | 2023 | | |
| Dysbiosis: An Indicator of COVID-19 Severity in Critically Ill Patients. | Cuenca S, Soler Z, Serrano-Gomez G, Xie Z, Barquinero J, Roca J, Sirvent JM, Manichanh C. | Int J Mol Sci | 10.3390/ijms232415808 | 2022 | | |
| Phylogeny | Dysbiosis in the Gut Bacterial Microbiome of Patients with Uveitis, an Inflammatory Disease of the Eye. | Kalyana Chakravarthy S, Jayasudha R, Sai Prashanthi G, Ali MH, Sharma S, Tyagi M, Shivaji S. | Indian J Microbiol | 10.1007/s12088-018-0746-9 | 2018 | |
| Mining the capacity of human-associated microorganisms to trigger rheumatoid arthritis-A systematic immunoinformatics analysis of T cell epitopes. | Repac J, Mandic M, Lunic T, Bozic B, Bozic Nedeljkovic B. | PLoS One | 10.1371/journal.pone.0253918 | 2021 | | |
| Alteration of the Gut Microbiota in Pigs Infected with African Swine Fever Virus. | Ko YS, Tark D, Moon SH, Kim DM, Lee TG, Bae DY, Sunwoo SY, Oh Y, Cho HS. | Vet Sci | 10.3390/vetsci10050360 | 2023 | | |
| Insight into gut dysbiosis of patients with inflammatory bowel disease and ischemic colitis. | Dahal RH, Kim S, Kim YK, Kim ES, Kim J. | Front Microbiol | 10.3389/fmicb.2023.1174832 | 2023 | | |
| Fulfilled Mind, Healthy Gut? Relationships of Eudaimonic Psychological Well-Being With the Gut Microbiome in Postmenopausal Women. | Guimond AJ, Ke S, Tworoger SS, Huang T, Chan AT, Kubzansky LD, Liu YY. | Psychosom Med | 10.1097/psy.0000000000001278 | 2024 | | |
| Synbiotic Effect of Bifidobacterium lactis CNCM I-3446 and Bovine Milk-Derived Oligosaccharides on Infant Gut Microbiota. | Marsaux B, Van den Abbeele P, Ghyselinck J, Prioult G, Marzorati M, Bogicevic B. | Nutrients | 10.3390/nu12082268 | 2020 | | |
| BiGAMi: Bi-Objective Genetic Algorithm Fitness Function for Feature Selection on Microbiome Datasets. | Leske M, Bottacini F, Afli H, Andrade BGN. | Methods Protoc | 10.3390/mps5030042 | 2022 | | |
| The systemic anti-microbiota IgG repertoire can identify gut bacteria that translocate across gut barrier surfaces. | Vujkovic-Cvijin I, Welles HC, Ha CWY, Huq L, Mistry S, Brenchley JM, Trinchieri G, Devkota S, Belkaid Y. | Sci Transl Med | 10.1126/scitranslmed.abl3927 | 2022 | | |
| The human microbiome links to prostate cancer risk and treatment (Review). | Xia B, Wang J, Zhang D, Hu X. | Oncol Rep | 10.3892/or.2023.8560 | 2023 | | |
| Pathogenicity | Systematic Evaluation of the Viable Microbiome in the Human Oral and Gut Samples with Spike-in Gram+/- Bacteria. | Liu F, Lu H, Dong B, Huang X, Cheng H, Qu R, Hu Y, Zhong L, Guo Z, You Y, Xu ZZ. | mSystems | 10.1128/msystems.00738-22 | 2023 | |
| Metabolism | Gut Microbiota Dysbiosis in Human Hypertension: A Systematic Review of Observational Studies. | Guo Y, Li X, Wang Z, Yu B. | Front Cardiovasc Med | 10.3389/fcvm.2021.650227 | 2021 | |
| Lingguizhugan Decoction Targets Intestinal Microbiota and Metabolites to Reduce Insulin Resistance in High-Fat Diet Rats. | Ning Y, Gong Y, Zheng T, Xie Y, Yuan S, Ding W. | Diabetes Metab Syndr Obes | 10.2147/dmso.s370492 | 2022 | | |
| Stage-specific roles of microbial dysbiosis and metabolic disorders in rheumatoid arthritis. | Cheng M, Zhao Y, Cui Y, Zhong C, Zha Y, Li S, Cao G, Li M, Zhang L, Ning K, Han J. | Ann Rheum Dis | 10.1136/ard-2022-222871 | 2022 | | |
| The metaproteome of the gut microbiota in pediatric patients affected by COVID-19. | Marzano V, Mortera SL, Marangelo C, Piazzesi A, Rapisarda F, Pane S, Del Chierico F, Vernocchi P, Romani L, Campana A, Palma P, Putignani L, CACTUS Study Team. | Front Cell Infect Microbiol | 10.3389/fcimb.2023.1327889 | 2023 | | |
| Genetics | Human reference gut microbiome catalog including newly assembled genomes from under-represented Asian metagenomes. | Kim CY, Lee M, Yang S, Kim K, Yong D, Kim HR, Lee I. | Genome Med | 10.1186/s13073-021-00950-7 | 2021 | |
| Local Breast Microbiota: A "New" Player on the Block. | Vitorino M, Alpuim Costa D, Vicente R, Caleca T, Santos C. | Cancers (Basel) | 10.3390/cancers14153811 | 2022 | | |
| Reproducible changes in the anorexia nervosa gut microbiota following inpatient therapy remain distinct from non-eating disorder controls. | Fouladi F, Bulik-Sullivan EC, Glenny EM, Thornton LM, Reed KK, Thomas S, Kleiman S, Watters A, Oakes J, Huh EY, Tang Q, Liu J, Djukic Z, Harper L, Trillo-Ordonez Y, Sun S, Blakely I, Mehler PS, Fodor AA, Tarantino LM, Bulik CM, Carroll IM. | Gut Microbes | 10.1080/19490976.2022.2143217 | 2022 | | |
| Tumor Microenvironment in Melanoma-Characteristic and Clinical Implications. | Sikorski H, Zmijewski MA, Piotrowska A. | Int J Mol Sci | 10.3390/ijms26146778 | 2025 | | |
| Integrative metagenomic and metabolomic analyses reveal the potential of gut microbiota to exacerbate acute pancreatitis. | Liu J, Yan Q, Li S, Jiao J, Hao Y, Zhang G, Zhang Q, Luo F, Zhang Y, Lv Q, Zhang W, Zhang A, Song H, Xin Y, Ma Y, Owusu L, Ma X, Yin P, Shang D. | NPJ Biofilms Microbiomes | 10.1038/s41522-024-00499-4 | 2024 | | |
| Ethnic variations in metabolic syndrome components and their associations with the gut microbiota: the HELIUS study. | Balvers M, de Goffau M, van Riel N, van den Born BJ, Galenkamp H, Zwinderman K, Nieuwdorp M, Levin E. | Genome Med | 10.1186/s13073-024-01295-7 | 2024 | | |
| Identification of robust and generalizable biomarkers for microbiome-based stratification in lifestyle interventions. | Chen J, Siliceo SL, Ni Y, Nielsen HB, Xu A, Panagiotou G. | Microbiome | 10.1186/s40168-023-01604-z | 2023 | | |
| Metabolism | NAD+ -Dependent Enzymatic Route for the Epimerization of Hydroxysteroids. | Tonin F, Otten LG, Arends IWCE. | ChemSusChem | 10.1002/cssc.201801862 | 2019 | |
| Phocaeicola vulgatus shapes the long-term growth dynamics and evolutionary adaptations of Clostridioides difficile. | Sulaiman JE, Thompson J, Cheung PLK, Qian Y, Mill J, James I, Im H, Vivas EI, Simcox J, Venturelli OS. | Cell Host Microbe | 10.1016/j.chom.2024.12.001 | 2025 | | |
| Microbial short-chain fatty acids: a strategy to tune adoptive T cell therapy. | Rangan P, Mondino A. | J Immunother Cancer | 10.1136/jitc-2021-004147 | 2022 | | |
| Metabolism | Intestinal microbiota as a tetrahydrobiopterin exogenous source in hph-1 mice. | Belik J, Shifrin Y, Arning E, Bottiglieri T, Pan J, Daigneault MC, Allen-Vercoe E. | Sci Rep | 10.1038/srep39854 | 2017 | |
| Pathogenicity | SARS-CoV-2-Indigenous Microbiota Nexus: Does Gut Microbiota Contribute to Inflammation and Disease Severity in COVID-19? | Chattopadhyay I, Shankar EM. | Front Cell Infect Microbiol | 10.3389/fcimb.2021.590874 | 2021 | |
| Metabolism | Correlation Analysis between GDM and Gut Microbial Composition in Late Pregnancy. | Li G, Yin P, Chu S, Gao W, Cui S, Guo S, Xu Y, Yuan E, Zhu T, You J, Zhang J, Yang M. | J Diabetes Res | 10.1155/2021/8892849 | 2021 | |
| Phylogeny | Fecal microbiota in patients with a stoma decreases anaerobic bacteria and alters taxonomic and functional diversities. | Sakai SA, Aoshima M, Sawada K, Horasawa S, Yoshikawa A, Fujisawa T, Kadowaki S, Denda T, Matsuhashi N, Yasui H, Goto M, Yamazaki K, Komatsu Y, Nakanishi R, Nakamura Y, Bando H, Hamaya Y, Kageyama SI, Yoshino T, Tsuchihara K, Yamashita R. | Front Cell Infect Microbiol | 10.3389/fcimb.2022.925444 | 2022 | |
| COVID-19 and Gut Microbiota: A Potential Connection. | Rajput S, Paliwal D, Naithani M, Kothari A, Meena K, Rana S. | Indian J Clin Biochem | 10.1007/s12291-020-00948-9 | 2021 | | |
| Clinical Features and Gut Microbiome of Asymptomatic Entamoeba histolytica Infection. | Yanagawa Y, Nagata N, Yagita K, Watanabe K, Okubo H, Kikuchi Y, Gatanaga H, Oka S, Watanabe K. | Clin Infect Dis | 10.1093/cid/ciaa820 | 2021 | | |
| Immunomodulatory Effects of Probiotics on COVID-19 Infection by Targeting the Gut-Lung Axis Microbial Cross-Talk. | Synodinou KD, Nikolaki MD, Triantafyllou K, Kasti AN. | Microorganisms | 10.3390/microorganisms10091764 | 2022 | | |
| The Influence of Probiotics Consumption on Management of Prediabetic State: A Systematic Review of Clinical Trials. | Zeighamy Alamdary S, Afifirad R, Asgharzadeh S, Asadollahi P, Mahdizade Ari M, Dashtibin S, Sabaghan M, Shokouhamiri MR, Ghanavati R, Darbandi A. | Int J Clin Pract | 10.1155/2022/5963679 | 2022 | | |
| Genetics | Metagenomic, metabolomic, and lipidomic shifts associated with fecal microbiota transplantation for recurrent Clostridioides difficile infection. | McMillan AS, Zhang G, Dougherty MK, McGill SK, Gulati AS, Baker ES, Theriot CM. | mSphere | 10.1128/msphere.00706-24 | 2024 | |
| Gut microbiota-mediated associations of green tea and catechin intakes with glucose metabolism in individuals without type 2 diabetes mellitus: a four-season observational study with mediation analysis. | Ito A, Matsui Y, Takeshita M, Katashima M, Goto C, Kuriki K. | Arch Microbiol | 10.1007/s00203-023-03522-y | 2023 | | |
| Bile Acid Changes Associated With Liver Fibrosis and Steatosis in the Mexican-American Population of South Texas. | Kwan SY, Jiao J, Qi J, Wang Y, Wei P, McCormick JB, Fisher-Hoch SP, Beretta L. | Hepatol Commun | 10.1002/hep4.1490 | 2020 | | |
| Genetics | Early life exposure of infants to benzylpenicillin and gentamicin is associated with a persistent amplification of the gut resistome. | Patangia DV, Grimaud G, O'Shea CA, Ryan CA, Dempsey E, Stanton C, Ross RP. | Microbiome | 10.1186/s40168-023-01732-6 | 2024 | |
| Dietary fibers boost gut microbiota-produced B vitamin pool and alter host immune landscape. | Grant ET, Parrish A, Boudaud M, Hunewald O, Hirayama A, Ollert M, Fukuda S, Desai MS. | Microbiome | 10.1186/s40168-024-01898-7 | 2024 | | |
| Genetics | Traditional Human Populations and Nonhuman Primates Show Parallel Gut Microbiome Adaptations to Analogous Ecological Conditions. | Sharma AK, Petrzelkova K, Pafco B, Jost Robinson CA, Fuh T, Wilson BA, Stumpf RM, Torralba MG, Blekhman R, White B, Nelson KE, Leigh SR, Gomez A. | mSystems | 10.1128/msystems.00815-20 | 2020 | |
| Pathogenicity | Regulation of dietary fiber on intestinal microorganisms and its effects on animal health. | Han X, Ma Y, Ding S, Fang J, Liu G. | Anim Nutr | 10.1016/j.aninu.2023.06.004 | 2023 | |
| Meta-analysis reveals obesity associated gut microbial alteration patterns and reproducible contributors of functional shift. | Chanda D, De D. | Gut Microbes | 10.1080/19490976.2024.2304900 | 2024 | | |
| Genetics | Using Shotgun Sequencing to Describe the Changes Induced by In-Feed Zinc Oxide and Apramycin in the Microbiomes of Pigs One Week Postweaning. | Ortiz Sanjuan JM, Manzanilla EG, Cabrera-Rubio R, Crispie F, Cotter PD, Garrido JJ, Arguello H. | Microbiol Spectr | 10.1128/spectrum.01597-22 | 2022 | |
| Comparative study of different liquid diets for dairy calves and the impact on performance and the bacterial community during diarrhea. | Coelho MG, Virginio Junior GF, Tomaluski CR, de Toledo AF, Reis ME, Donde SC, Mendes LW, Coutinho LL, Bittar CMM. | Sci Rep | 10.1038/s41598-022-17613-1 | 2022 | | |
| Genetics | Comparison of the composition and function of the gut microbiome in herdsmen from two pasture regions, Hongyuan and Xilingol. | Yang C, Peng C, Jin H, You L, Wang J, Xu H, Sun Z. | Food Sci Nutr | 10.1002/fsn3.2290 | 2021 | |
| Mobile genetic elements from the maternal microbiome shape infant gut microbial assembly and metabolism. | Vatanen T, Jabbar KS, Ruohtula T, Honkanen J, Avila-Pacheco J, Siljander H, Strazar M, Oikarinen S, Hyoty H, Ilonen J, Mitchell CM, Yassour M, Virtanen SM, Clish CB, Plichta DR, Vlamakis H, Knip M, Xavier RJ. | Cell | 10.1016/j.cell.2022.11.023 | 2022 | | |
| Curing piglets from diarrhea and preparation of a healthy microbiome with Bacillus treatment for industrial animal breeding. | Yue S, Li Z, Hu F, Picimbon JF. | Sci Rep | 10.1038/s41598-020-75207-1 | 2020 | | |
| Gut microbiome of multiple sclerosis patients and paired household healthy controls reveal associations with disease risk and course. | iMSMS Consortium. Electronic address: sergio.baranzini@ucsf.edu, iMSMS Consortium. | Cell | 10.1016/j.cell.2022.08.021 | 2022 | | |
| Dietary Vitamin B6 Deficiency Impairs Gut Microbiota and Host and Microbial Metabolites in Rats. | Mayengbam S, Chleilat F, Reimer RA. | Biomedicines | 10.3390/biomedicines8110469 | 2020 | | |
| Pathobionts in the tumour microbiota predict survival following resection for colorectal cancer. | Alexander JL, Posma JM, Scott A, Poynter L, Mason SE, Doria ML, Herendi L, Roberts L, McDonald JAK, Cameron S, Hughes DJ, Liska V, Susova S, Soucek P, der Sluis VH, Gomez-Romero M, Lewis MR, Hoyles L, Woolston A, Cunningham D, Darzi A, Gerlinger M, Goldin R, Takats Z, Marchesi JR, Teare J, Kinross J. | Microbiome | 10.1186/s40168-023-01518-w | 2023 | | |
| Enzymology | Structural and Functional Alterations of Gut Microbiota in Males With Hyperuricemia and High Levels of Liver Enzymes. | Sheng S, Chen J, Zhang Y, Qin Q, Li W, Yan S, Wang Y, Li T, Gao X, Tang L, Li A, Ding S. | Front Med (Lausanne) | 10.3389/fmed.2021.779994 | 2021 | |
| Gut microbiota, chemotherapy and the host: the influence of the gut microbiota on cancer treatment. | Pouncey AL, Scott AJ, Alexander JL, Marchesi J, Kinross J. | Ecancermedicalscience | 10.3332/ecancer.2018.868 | 2018 | | |
| Antibiotics are associated with decreased progression-free survival of advanced melanoma patients treated with immune checkpoint inhibitors. | Elkrief A, El Raichani L, Richard C, Messaoudene M, Belkaid W, Malo J, Belanger K, Miller W, Jamal R, Letarte N, Wong P, Routy B. | Oncoimmunology | 10.1080/2162402x.2019.1568812 | 2019 | | |
| Genetics | Exploring high-quality microbial genomes by assembling short-reads with long-range connectivity. | Zhang Z, Xiao J, Wang H, Yang C, Huang Y, Yue Z, Chen Y, Han L, Yin K, Lyu A, Fang X, Zhang L. | Nat Commun | 10.1038/s41467-024-49060-z | 2024 | |
| The DNA Sensor AIM2 Protects against Streptozotocin-Induced Type 1 Diabetes by Regulating Intestinal Homeostasis via the IL-18 Pathway. | Leite JA, Pessenda G, Guerra-Gomes IC, de Santana AKM, Andre Pereira C, Ribeiro Campos Costa F, Ramos SG, Simoes Zamboni D, Caetano Faria AM, Candido de Almeida D, Olsen Saraiva Camara N, Tostes RC, Santana Silva J, Carlos D. | Cells | 10.3390/cells9040959 | 2020 | | |
| Gut microbiota profile of COVID-19 patients: Prognosis and risk stratification (MicroCOVID-19 study). | Nobre JG, Delgadinho M, Silva C, Mendes J, Mateus V, Ribeiro E, Costa DA, Lopes M, Pedroso AI, Trigueiros F, Rodrigues MI, de Sousa CL, Brito M. | Front Microbiol | 10.3389/fmicb.2022.1035422 | 2022 | | |
| Enzymology | The role of a sequencing-based clinical intestinal screening test in patients at high-risk for Clostridium difficile and other pathogens: a case report. | Hitschfeld M, Tovar E, Gupta S, Bik EM, Palmer C, Hoaglin MC, Almonacid DE, Richman J, Apte ZS. | J Med Case Rep | 10.1186/s13256-018-1919-1 | 2019 | |
| Noninvasive, microbiome-based diagnosis of inflammatory bowel disease. | Zheng J, Sun Q, Zhang M, Liu C, Su Q, Zhang L, Xu Z, Lu W, Ching J, Tang W, Cheung CP, Hamilton AL, Wilson O'Brien AL, Wei SC, Bernstein CN, Rubin DT, Chang EB, Morrison M, Kamm MA, Chan FKL, Zhang J, Ng SC. | Nat Med | 10.1038/s41591-024-03280-4 | 2024 | | |
| Gut Microbiome: A Promising Biomarker for Immunotherapy in Colorectal Cancer. | Temraz S, Nassar F, Nasr R, Charafeddine M, Mukherji D, Shamseddine A. | Int J Mol Sci | 10.3390/ijms20174155 | 2019 | | |
| Networks of gut bacteria relate to cardiovascular disease in a multi-ethnic population: the HELIUS study. | Warmbrunn MV, Boulund U, Aron-Wisnewsky J, de Goffau MC, Abeka RE, Davids M, Bresser LRF, Levin E, Clement K, Galenkamp H, Ferwerda B, van den Born BJH, Kurilshikov A, Fu J, Zwinderman AH, Soeters MR, van Raalte DH, Herrema H, Groen AK, Nieuwdorp M. | Cardiovasc Res | 10.1093/cvr/cvae018 | 2024 | | |
| Maternal vaginal microbiome composition does not affect development of the infant gut microbiome in early life. | Dos Santos SJ, Pakzad Z, Albert AYK, Elwood CN, Grabowska K, Links MG, Hutcheon JA, Maan EJ, Manges AR, Dumonceaux TJ, Hodgson ZG, Lyons J, Mitchell-Foster SM, Gantt S, Joseph KS, Van Schalkwyk JE, Hill JE, Money DM. | Front Cell Infect Microbiol | 10.3389/fcimb.2023.1144254 | 2023 | | |
| Gut microbiota: a new player in regulating immune- and chemo-therapy efficacy. | Anfossi S, Calin GA. | Cancer Drug Resist | 10.20517/cdr.2020.04 | 2020 | | |
| Dysbiosis in the Gut Microbiota in Patients with Inflammatory Bowel Disease during Remission. | Pisani A, Rausch P, Bang C, Ellul S, Tabone T, Marantidis Cordina C, Zahra G, Franke A, Ellul P. | Microbiol Spectr | 10.1128/spectrum.00616-22 | 2022 | | |
| Pathogenicity | Immunomodulation by the Commensal Microbiome During Immune-Targeted Interventions: Focus on Cancer Immune Checkpoint Inhibitor Therapy and Vaccination. | Reens AL, Cabral DJ, Liang X, Norton JE, Therien AG, Hazuda DJ, Swaminathan G. | Front Immunol | 10.3389/fimmu.2021.643255 | 2021 | |
| Unique Features of Ethnic Mongolian Gut Microbiome revealed by metagenomic analysis. | Liu W, Zhang J, Wu C, Cai S, Huang W, Chen J, Xi X, Liang Z, Hou Q, Zhou B, Qin N, Zhang H. | Sci Rep | 10.1038/srep34826 | 2016 | | |
| Exploring the food-gut axis in immunotherapy response of cancer patients. | Russo E, Nannini G, Dinu M, Pagliai G, Sofi F, Amedei A. | World J Gastroenterol | 10.3748/wjg.v26.i33.4919 | 2020 | | |
| Low Molecular Weight Barley beta-Glucan Affects Glucose and Lipid Metabolism by Prebiotic Effects. | Aoe S, Mio K, Yamanaka C, Kuge T. | Nutrients | 10.3390/nu13010130 | 2020 | | |
| Pathogenicity | In vitro inhibition activity of nisin A, nisin Z, pediocin PA-1 and antibiotics against common intestinal bacteria. | Le Blay G, Lacroix C, Zihler A, Fliss I. | Lett Appl Microbiol | 10.1111/j.1472-765x.2007.02178.x | 2007 | |
| Metabolism | Plasmalogen Biosynthesis by Anaerobic Bacteria: Identification of a Two-Gene Operon Responsible for Plasmalogen Production in Clostridium perfringens. | Jackson DR, Cassilly CD, Plichta DR, Vlamakis H, Liu H, Melville SB, Xavier RJ, Clardy J. | ACS Chem Biol | 10.1021/acschembio.0c00673 | 2021 | |
| Integrative multiomics analysis reveals host-microbe-metabolite interplays associated with the aging process in Singaporeans. | Chen L, Zheng T, Yang Y, Chaudhary PP, Teh JPY, Cheon BK, Moses D, Schuster SC, Schlundt J, Li J, Conway PL. | Gut Microbes | 10.1080/19490976.2022.2070392 | 2022 | | |
| Pathogenicity | Mediterranean diet intervention alters the gut microbiome in older people reducing frailty and improving health status: the NU-AGE 1-year dietary intervention across five European countries. | Ghosh TS, Rampelli S, Jeffery IB, Santoro A, Neto M, Capri M, Giampieri E, Jennings A, Candela M, Turroni S, Zoetendal EG, Hermes GDA, Elodie C, Meunier N, Brugere CM, Pujos-Guillot E, Berendsen AM, De Groot LCPGM, Feskins EJM, Kaluza J, Pietruszka B, Bielak MJ, Comte B, Maijo-Ferre M, Nicoletti C, De Vos WM, Fairweather-Tait S, Cassidy A, Brigidi P, Franceschi C, O'Toole PW. | Gut | 10.1136/gutjnl-2019-319654 | 2020 | |
| Phylogeny | The microbial composition of pancreatic ductal adenocarcinoma: a systematic review of 16S rRNA gene sequencing. | Merali N, Chouari T, Sweeney C, Halle-Smith J, Jessel MD, Wang B, O' Brien J, Suyama S, Jimenez JI, Roberts KJ, Velliou E, Sivakumar S, Rockall TA, Demirkan A, Pedicord V, Deng D, Giovannetti E, Annels NE, Frampton AE. | Int J Surg | 10.1097/js9.0000000000001762 | 2024 | |
| Pathogenicity | Interactions among the mycobiome, bacteriome, inflammation, and diet in people living with HIV. | Gosalbes MJ, Jimenez-Hernandez N, Moreno E, Artacho A, Pons X, Ruiz-Perez S, Navia B, Estrada V, Manzano M, Talavera-Rodriguez A, Madrid N, Vallejo A, Luna L, Perez-Molina JA, Moreno S, Serrano-Villar S. | Gut Microbes | 10.1080/19490976.2022.2089002 | 2022 | |
| Transcriptome | The Colorectal Cancer Gut Environment Regulates Activity of the Microbiome and Promotes the Multidrug Resistant Phenotype of ESKAPE and Other Pathogens. | Lamaudiere MTF, Arasaradnam R, Weedall GD, Morozov IY. | mSphere | 10.1128/msphere.00626-22 | 2023 | |
| Phylogeny | Health-associated changes of the fecal microbiota in dairy heifer calves during the pre-weaning period. | Scully S, Earley B, Smith PE, McAloon C, Waters SM. | Front Microbiol | 10.3389/fmicb.2024.1359611 | 2024 | |
| Targeting the gut microbiota by Asian and Western dietary constituents: a new avenue for diabetes. | Conteh AR, Huang R. | Toxicol Res (Camb) | 10.1093/toxres/tfaa065 | 2020 | | |
| Cultivation of gastrointestinal microbiota in a new growth system revealed dysbiosis and metabolic disruptions in carcinoma-bearing rats. | Pena-Ocana BA, Hoshiko Y, Silva-Flores M, Maeda T, Perez-Torres I, Garcia-Contreras R, Gutierrez-Sarmiento W, Hernandez-Esquivel L, Marin-Hernandez A, Sanchez-Thomas R, Saavedra E, Rodriguez-Zavala JS, Jasso-Chavez R. | Front Microbiol | 10.3389/fmicb.2022.949272 | 2022 | | |
| Pathogenicity | Impact of Enterobius vermicularis infection and mebendazole treatment on intestinal microbiota and host immune response. | Yang CA, Liang C, Lin CL, Hsiao CT, Peng CT, Lin HC, Chang JG. | PLoS Negl Trop Dis | 10.1371/journal.pntd.0005963 | 2017 | |
| Changes in the gut microbiota of Nigerian infants within the first year of life. | Oyedemi OT, Shaw S, Martin JC, Ayeni FA, Scott KP. | PLoS One | 10.1371/journal.pone.0265123 | 2022 | | |
| Gut microbiota, circulating inflammatory markers and metabolites, and carotid artery atherosclerosis in HIV infection. | Wang Z, Peters BA, Bryant M, Hanna DB, Schwartz T, Wang T, Sollecito CC, Usyk M, Grassi E, Wiek F, Peter LS, Post WS, Landay AL, Hodis HN, Weber KM, French A, Golub ET, Lazar J, Gustafson D, Sharma A, Anastos K, Clish CB, Burk RD, Kaplan RC, Knight R, Qi Q. | Microbiome | 10.1186/s40168-023-01566-2 | 2023 | | |
| The gut microbiome and antibiotic resistome of chronic diarrhea rhesus macaques (Macaca mulatta) and its similarity to the human gut microbiome. | Yang S, Liu Y, Yang N, Lan Y, Lan W, Feng J, Yue B, He M, Zhang L, Zhang A, Price M, Li J, Fan Z. | Microbiome | 10.1186/s40168-021-01218-3 | 2022 | | |
| Pathogenicity | Role of the intestinal microbiome and microbial-derived metabolites in immune checkpoint blockade immunotherapy of cancer. | Hayase E, Jenq RR. | Genome Med | 10.1186/s13073-021-00923-w | 2021 | |
| Selective induction of human gut-associated acetogenic/butyrogenic microbiota based on specific microbial colonization of indigestible starch granules. | Nagara Y, Fujii D, Takada T, Sato-Yamazaki M, Odani T, Oishi K. | ISME J | 10.1038/s41396-022-01196-w | 2022 | | |
| Genetics | Insights into breast cancer phenotying through molecular omics approaches and therapy response. | Belizario JE, Loggulo AF. | Cancer Drug Resist | 10.20517/cdr.2018.009 | 2019 | |
| Evaluation of the Prebiotic Potential of a Commercial Synbiotic Food Ingredient on Gut Microbiota in an Ex Vivo Model of the Human Colon. | Mottawea W, Sultan S, Landau K, Bordenave N, Hammami R. | Nutrients | 10.3390/nu12092669 | 2020 | | |
| Pathogenicity | Interspecies Competition Impacts Targeted Manipulation of Human Gut Bacteria by Fiber-Derived Glycans. | Patnode ML, Beller ZW, Han ND, Cheng J, Peters SL, Terrapon N, Henrissat B, Le Gall S, Saulnier L, Hayashi DK, Meynier A, Vinoy S, Giannone RJ, Hettich RL, Gordon JI. | Cell | 10.1016/j.cell.2019.08.011 | 2019 | |
| The immunomodulatory effects of Qushi Jianpi Hewei Decoction (QJHD) for patients with COVID-19 by metagenomics and transcriptomic sequencing | Li J, Yang Y, Xiong B, Lu J, Zhou Y, Li C, Hu X. | Pharmacological Research - Modern Chinese Medicine | 2022 | | ||
| Metabolism | Psoriasis and Gut Microbiome-Current State of Art. | Polak K, Bergler-Czop B, Szczepanek M, Wojciechowska K, Fratczak A, Kiss N. | Int J Mol Sci | 10.3390/ijms22094529 | 2021 | |
| Phylogeny | The Tissue-Associated Microbiota in Colorectal Cancer: A Systematic Review. | Costa CPD, Vieira P, Mendes-Rocha M, Pereira-Marques J, Ferreira RM, Figueiredo C. | Cancers (Basel) | 10.3390/cancers14143385 | 2022 | |
| Genetics | Rifaximin Modulates the Gut Microbiota to Prevent Hepatic Encephalopathy in Liver Cirrhosis Without Impacting the Resistome. | Yu X, Jin Y, Zhou W, Xiao T, Wu Z, Su J, Gao H, Shen P, Zheng B, Luo Q, Li L, Xiao Y. | Front Cell Infect Microbiol | 10.3389/fcimb.2021.761192 | 2021 | |
| Vertical Transmission of Gut Microbiome and Antimicrobial Resistance Genes in Infants Exposed to Antibiotics at Birth. | Li W, Tapiainen T, Brinkac L, Lorenzi HA, Moncera K, Tejesvi MV, Salo J, Nelson KE. | J Infect Dis | 10.1093/infdis/jiaa155 | 2021 | | |
| Effect of castration timing and weaning strategy on the taxonomic and functional profile of ruminal bacteria and archaea of beef calves. | Diaz GR, Gaire TN, Ferm P, Case L, Caixeta LS, Goldsmith TJ, Armstrong J, Noyes NR. | Anim Microbiome | 10.1186/s42523-023-00284-2 | 2023 | | |
| Genetics | Incongruence between dominant commensal donor microbes in recipient feces post fecal transplant and response to anti-PD-1 immunotherapy. | Koo H, Morrow CD. | BMC Microbiol | 10.1186/s12866-021-02312-0 | 2021 | |
| Abundance and prevalence of ESBL coding genes in patients undergoing first line eradication therapy for Helicobacter pylori. | Gudra D, Silamikelis I, Pjalkovskis J, Danenberga I, Pupola D, Skenders G, Ustinova M, Megnis K, Leja M, Vangravs R, Fridmanis D. | PLoS One | 10.1371/journal.pone.0289879 | 2023 | | |
| Pathogenicity | Effect of Selected Stilbenoids on Human Fecal Microbiota. | Jaimes JD, Jarosova V, Vesely O, Mekadim C, Mrazek J, Marsik P, Killer J, Smejkal K, Kloucek P, Havlik J. | Molecules | 10.3390/molecules24040744 | 2019 | |
| Cofactors of wheat-dependent exercise-induced anaphylaxis do not increase highly individual gliadin absorption in healthy volunteers. | Scherf KA, Lindenau AC, Valentini L, Collado MC, Garcia-Mantrana I, Christensen M, Tomsitz D, Kugler C, Biedermann T, Brockow K. | Clin Transl Allergy | 10.1186/s13601-019-0260-0 | 2019 | | |
| Anaerobic bacteria cultured from the tongue dorsum of subjects with oral malodor. | Tyrrell KL, Citron DM, Warren YA, Nachnani S, Goldstein EJ. | Anaerobe | 10.1016/s1075-9964(03)00109-4 | 2003 | | |
| Microbiome and metabolome features in inflammatory bowel disease via multi-omics integration analyses across cohorts. | Ning L, Zhou YL, Sun H, Zhang Y, Shen C, Wang Z, Xuan B, Zhao Y, Ma Y, Yan Y, Tong T, Huang X, Hu M, Zhu X, Ding J, Zhang Y, Cui Z, Fang JY, Chen H, Hong J. | Nat Commun | 10.1038/s41467-023-42788-0 | 2023 | | |
| Genetics | Host genetic regulation of human gut microbial structural variation. | Zhernakova DV, Wang D, Liu L, Andreu-Sanchez S, Zhang Y, Ruiz-Moreno AJ, Peng H, Plomp N, Del Castillo-Izquierdo A, Gacesa R, Lopera-Maya EA, Temba GS, Kullaya VI, van Leeuwen SS, Lifelines Cohort Study, Xavier RJ, de Mast Q, Joosten LAB, Riksen NP, Rutten JHW, Netea MG, Sanna S, Wijmenga C, Weersma RK, Zhernakova A, Harmsen HJM, Fu J. | Nature | 10.1038/s41586-023-06893-w | 2024 | |
| Oral and anal microbiome from HIV-exposed individuals: role of host-associated factors in taxa composition and metabolic pathways. | Lacunza E, Fink V, Salas ME, Canzoneri R, Naipauer J, Williams S, Coso O, Sued O, Cahn P, Mesri EA, Abba MC. | NPJ Biofilms Microbiomes | 10.1038/s41522-023-00413-4 | 2023 | | |
| Membrane filter method to study the effects of Lactobacillus acidophilus and Bifidobacterium longum on fecal microbiota. | Shimizu H, Benno Y. | Microbiol Immunol | 10.1111/1348-0421.12332 | 2015 | | |
| Enzymology | Comparison of bacterial quantities in left and right colon biopsies and faeces. | Lyra A, Forssten S, Rolny P, Wettergren Y, Lahtinen SJ, Salli K, Cedgard L, Odin E, Gustavsson B, Ouwehand AC. | World J Gastroenterol | 10.3748/wjg.v18.i32.4404 | 2012 | |
| Human gut bacteria bioaccumulate per- and polyfluoroalkyl substances. | Lindell AE, Griesshammer A, Michaelis L, Papagiannidis D, Ochner H, Kamrad S, Guan R, Blasche S, Ventimiglia LN, Ramachandran B, Ozgur H, Zelezniak A, Beristain-Covarrubias N, Yam-Puc JC, Roux I, Barron LP, Richardson AK, Martin MG, Benes V, Morone N, Thaventhiran JED, Bharat TAM, Savitski MM, Maier L, Patil KR. | Nat Microbiol | 10.1038/s41564-025-02032-5 | 2025 | | |
| mEnrich-seq: methylation-guided enrichment sequencing of bacterial taxa of interest from microbiome. | Cao L, Kong Y, Fan Y, Ni M, Tourancheau A, Ksiezarek M, Mead EA, Koo T, Gitman M, Zhang XS, Fang G. | Nat Methods | 10.1038/s41592-023-02125-1 | 2024 | | |
| Relationship between gut microbiota and rheumatoid arthritis: A bibliometric analysis. | Dong Y, Yao J, Deng Q, Li X, He Y, Ren X, Zheng Y, Song R, Zhong X, Ma J, Shan D, Lv F, Wang X, Yuan R, She G. | Front Immunol | 10.3389/fimmu.2023.1131933 | 2023 | | |
| Immune Checkpoint Blockade for Advanced NSCLC: A New Landscape for Elderly Patients. | Perrotta F, Rocco D, Vitiello F, De Palma R, Guerra G, De Luca A, Navani N, Bianco A. | Int J Mol Sci | 10.3390/ijms20092258 | 2019 | | |
| The influence of whole grain products and red meat on intestinal microbiota composition in normal weight adults: a randomized crossover intervention trial. | Foerster J, Maskarinec G, Reichardt N, Tett A, Narbad A, Blaut M, Boeing H. | PLoS One | 10.1371/journal.pone.0109606 | 2014 | | |
| Nutrition, Physical Activity and Supplementation in Irritable Bowel Syndrome. | Radziszewska M, Smarkusz-Zarzecka J, Ostrowska L. | Nutrients | 10.3390/nu15163662 | 2023 | | |
| Phylogeny | Commensal microbiota contributes to predicting the response to immune checkpoint inhibitors in non-small-cell lung cancer patients. | Zhang C, Wang J, Sun Z, Cao Y, Mu Z, Ji X. | Cancer Sci | 10.1111/cas.14979 | 2021 | |
| The Dietary Intervention of Transgenic Low-Gliadin Wheat Bread in Patients with Non-Celiac Gluten Sensitivity (NCGS) Showed No Differences with Gluten Free Diet (GFD) but Provides Better Gut Microbiota Profile. | Haro C, Villatoro M, Vaquero L, Pastor J, Gimenez MJ, Ozuna CV, Sanchez-Leon S, Garcia-Molina MD, Segura V, Comino I, Sousa C, Vivas S, Landa BB, Barro F. | Nutrients | 10.3390/nu10121964 | 2018 | | |
| A combination of fecal calprotectin and human beta-defensin 2 facilitates diagnosis and monitoring of inflammatory bowel disease. | Gacesa R, Vich Vila A, Collij V, Mujagic Z, Kurilshikov A, Voskuil MD, Festen EAM, Wijmenga C, Jonkers DMAE, Dijkstra G, Fu J, Zhernakova A, Imhann F, Weersma RK. | Gut Microbes | 10.1080/19490976.2021.1943288 | 2021 | | |
| Pathogenicity | Tracing the evolving dynamics and research hotspots of microbiota and immune microenvironment from the past to the new era. | Huang R, Yao Y, Tong X, Wang L, Qian W, Lu J, Zhang W, Liu Y, Wang S, Xian S, Zhu Y, Huang J, Guo X, Gu M, Lv H, Bi W, Meng C, Chang Z, Zhang J, Xu D, Ji S. | Microbiol Spectr | 10.1128/spectrum.00135-23 | 2023 | |
| Genetics | Association of symptoms with gastrointestinal microbiota in irritable bowel syndrome. | Malinen E, Krogius-Kurikka L, Lyra A, Nikkila J, Jaaskelainen A, Rinttila T, Vilpponen-Salmela T, von Wright AJ, Palva A. | World J Gastroenterol | 10.3748/wjg.v16.i36.4532 | 2010 | |
| Iron Supplementation at the Crossroads of Nutrition and Gut Microbiota: The State of the Art. | Puga AM, Samaniego-Vaesken ML, Montero-Bravo A, Ruperto M, Partearroyo T, Varela-Moreiras G. | Nutrients | 10.3390/nu14091926 | 2022 | | |
| Relationship between intestinal flora structure and metabolite analysis and immunotherapy efficacy in Chinese NSCLC patients. | Song P, Yang D, Wang H, Cui X, Si X, Zhang X, Zhang L. | Thorac Cancer | 10.1111/1759-7714.13442 | 2020 | | |
| Genetics | Successful Fecal Microbiota Transplantation in a Patient Suffering From Irritable Bowel Syndrome and Recurrent Urinary Tract Infections. | Hocquart M, Pham T, Kuete E, Tomei E, Lagier JC, Raoult D. | Open Forum Infect Dis | 10.1093/ofid/ofz398 | 2019 | |
| Patient Nutrition and Probiotic Therapy in COVID-19: What Do We Know in 2021? | Hawrylkowicz V, Lietz-Kijak D, Kazmierczak-Siedlecka K, Solek-Pastuszka J, Stachowska L, Folwarski M, Parczewski M, Stachowska E. | Nutrients | 10.3390/nu13103385 | 2021 | | |
| Roles of Secretory Immunoglobulin A in Host-Microbiota Interactions in the Gut Ecosystem. | Leon ED, Francino MP. | Front Microbiol | 10.3389/fmicb.2022.880484 | 2022 | | |
| Gut Microbiota Markers in Obese Adolescent and Adult Patients: Age-Dependent Differential Patterns. | Del Chierico F, Abbatini F, Russo A, Quagliariello A, Reddel S, Capoccia D, Caccamo R, Ginanni Corradini S, Nobili V, De Peppo F, Dallapiccola B, Leonetti F, Silecchia G, Putignani L. | Front Microbiol | 10.3389/fmicb.2018.01210 | 2018 | | |
| Lost microbes of COVID-19: Bifidobacterium, Faecalibacterium depletion and decreased microbiome diversity associated with SARS-CoV-2 infection severity. | Hazan S, Stollman N, Bozkurt HS, Dave S, Papoutsis AJ, Daniels J, Barrows BD, Quigley EM, Borody TJ. | BMJ Open Gastroenterol | 10.1136/bmjgast-2022-000871 | 2022 | | |
| Serum trimethylamine-N-oxide and gut microbiome alterations are associated with cholesterol deposition in the liver of laying hens fed with rapeseed meal. | Zhu L, Wang J, Ding X, Bai S, Zeng Q, Xuan Y, Fraley GS, Zhang K. | Anim Nutr | 10.1016/j.aninu.2021.02.008 | 2021 | | |
| Measuring the Antimicrobial Activity of Lauric Acid against Various Bacteria in Human Gut Microbiota Using a New Method. | Matsue M, Mori Y, Nagase S, Sugiyama Y, Hirano R, Ogai K, Ogura K, Kurihara S, Okamoto S. | Cell Transplant | 10.1177/0963689719881366 | 2019 | | |
| Genetics | Non-small cell lung cancer patients treated with Anti-PD1 immunotherapy show distinct microbial signatures and metabolic pathways according to progression-free survival and PD-L1 status. | Dora D, Ligeti B, Kovacs T, Revisnyei P, Galffy G, Dulka E, Krizsan D, Kalcsevszki R, Megyesfalvi Z, Dome B, Weiss GJ, Lohinai Z. | Oncoimmunology | 10.1080/2162402x.2023.2204746 | 2023 | |
| COVID-19 severity is associated with population-level gut microbiome variations. | Lymberopoulos E, Gentili GI, Budhdeo S, Sharma N. | Front Cell Infect Microbiol | 10.3389/fcimb.2022.963338 | 2022 | | |
| Drastic Effects on the Microbiome of a Young Rower Engaged in High-Endurance Exercise After a Month Usage of a Dietary Fiber Supplement. | Jaago M, Timmusk US, Timmusk T, Palm K. | Front Nutr | 10.3389/fnut.2021.654008 | 2021 | | |
| Gut Microbiome of Healthy and Arthritic Dogs. | Cintio M, Scarsella E, Sgorlon S, Sandri M, Stefanon B. | Vet Sci | 10.3390/vetsci7030092 | 2020 | | |
| The early life microbiota mediates maternal effects on offspring growth in a nonhuman primate. | Petrullo L, Baniel A, Jorgensen MJ, Sams S, Snyder-Mackler N, Lu A. | iScience | 10.1016/j.isci.2022.103948 | 2022 | | |
| Elucidating human gut microbiota interactions that robustly inhibit diverse Clostridioides difficile strains across different nutrient landscapes. | Sulaiman JE, Thompson J, Qian Y, Vivas EI, Diener C, Gibbons SM, Safdar N, Venturelli OS. | Nat Commun | 10.1038/s41467-024-51062-w | 2024 | | |
| The Gut Microbiome Modifies the Association Between a Mediterranean Diet and Diabetes in USA Hispanic/ Latino Population. | Wang DD, Qi Q, Wang Z, Usyk M, Sotres-Alvarez D, Mattei J, Tamez M, Gellman MD, Daviglus M, Hu FB, Stampfer MJ, Huttenhower C, Knight R, Burk RD, Kaplan RC. | J Clin Endocrinol Metab | 10.1210/clinem/dgab815 | 2022 | | |
| Oral Vaccination Reduces the Effects of Lawsonia intracellularis Challenge on the Swine Small and Large Intestine Microbiome. | Leite FL, Winfield B, Miller EA, Weber BP, Johnson TJ, Sylvia F, Vasquez E, Vannucci F, Beckler D, Isaacson RE. | Front Vet Sci | 10.3389/fvets.2021.692521 | 2021 | | |
| Gut microbiota composition is associated with SARS-CoV-2 vaccine immunogenicity and adverse events. | Ng SC, Peng Y, Zhang L, Mok CK, Zhao S, Li A, Ching JY, Liu Y, Yan S, Chan DLS, Zhu J, Chen C, Fung AC, Wong KK, Hui DS, Chan FK, Tun HM. | Gut | 10.1136/gutjnl-2021-326563 | 2022 | | |
| Metagenome and metabolome insights into the energy compensation and exogenous toxin degradation of gut microbiota in high-altitude rhesus macaques (Macaca mulatta). | Zhao J, Yao Y, Li D, Zhu W, Xiao H, Xie M, Xiong Y, Wu J, Ni Q, Zhang M, Xu H. | NPJ Biofilms Microbiomes | 10.1038/s41522-023-00387-3 | 2023 | | |
| Metabolism | MMinte: an application for predicting metabolic interactions among the microbial species in a community. | Mendes-Soares H, Mundy M, Soares LM, Chia N. | BMC Bioinformatics | 10.1186/s12859-016-1230-3 | 2016 | |
| Pathogenicity | Probiotic-directed modulation of gut microbiota is basal microbiome dependent. | Hou Q, Zhao F, Liu W, Lv R, Khine WWT, Han J, Sun Z, Lee YK, Zhang H. | Gut Microbes | 10.1080/19490976.2020.1736974 | 2020 | |
| Genetics | Whole-Genome Metagenomic Analysis of the Gut Microbiome in HIV-1-Infected Individuals on Antiretroviral Therapy. | Bai X, Narayanan A, Nowak P, Ray S, Neogi U, Sonnerborg A. | Front Microbiol | 10.3389/fmicb.2021.667718 | 2021 | |
| Measuring and mitigating PCR bias in microbiota datasets. | Silverman JD, Bloom RJ, Jiang S, Durand HK, Dallow E, Mukherjee S, David LA. | PLoS Comput Biol | 10.1371/journal.pcbi.1009113 | 2021 | | |
| Phylogeny | Rapid identification and quantification of Collinsella aerofaciens using PCR. | Kageyama A, Sakamoto M, Benno Y. | FEMS Microbiol Lett | 10.1111/j.1574-6968.2000.tb08931.x | 2000 | |
| Phylogeny | Microbial communities present in the lower respiratory tract of clinically healthy birds in Pakistan. | Shabbir MZ, Malys T, Ivanov YV, Park J, Shabbir MA, Rabbani M, Yaqub T, Harvill ET. | Poult Sci | 10.3382/ps/pev010 | 2015 | |
| The diagnostic and prognostic potential of gut bacteria in inflammatory bowel disease. | Wiredu Ocansey DK, Hang S, Yuan X, Qian H, Zhou M, Valerie Olovo C, Zhang X, Mao F. | Gut Microbes | 10.1080/19490976.2023.2176118 | 2023 | | |
| Diagnosis of Human Leptospirosis in a Clinical Setting: Real-Time PCR High Resolution Melting Analysis for Detection of Leptospira at the Onset of Disease. | Esteves LM, Bulhoes SM, Branco CC, Carreira T, Vieira ML, Gomes-Solecki M, Mota-Vieira L. | Sci Rep | 10.1038/s41598-018-27555-2 | 2018 | | |
| Genetic strategies for sex-biased persistence of gut microbes across human life. | Tarracchini C, Alessandri G, Fontana F, Rizzo SM, Lugli GA, Bianchi MG, Mancabelli L, Longhi G, Argentini C, Vergna LM, Anzalone R, Viappiani A, Turroni F, Taurino G, Chiu M, Arboleya S, Gueimonde M, Bussolati O, van Sinderen D, Milani C, Ventura M. | Nat Commun | 10.1038/s41467-023-39931-2 | 2023 | | |
| Male-Biased Gut Microbiome and Metabolites Aggravate Colorectal Cancer Development. | Wang L, Tu YX, Chen L, Zhang Y, Pan XL, Yang SQ, Zhang SJ, Li SH, Yu KC, Song S, Xu HL, Yin ZC, Yue JQ, Ni QL, Tang T, Zhang JL, Guo M, Zhang S, Yao F, Liang XJ, Chen ZX. | Adv Sci (Weinh) | 10.1002/advs.202206238 | 2023 | | |
| Phylogeny | Phylogenetic evidence for the transfer of Eubacterium lentum to the genus Eggerthella as Eggerthella lenta gen. nov., comb. nov. | Kageyama A, Benno Y, Nakase T. | Int J Syst Bacteriol | 10.1099/00207713-49-4-1725 | 1999 | |
| Pleiotropic Effects of Metformin on the Antitumor Efficiency of Immune Checkpoint Inhibitors. | Liu W, Wang Y, Luo J, Liu M, Luo Z. | Front Immunol | 10.3389/fimmu.2020.586760 | 2020 | | |
| Gut microbiota aggravates neutrophil extracellular traps-induced pancreatic injury in hypertriglyceridemic pancreatitis. | Li G, Liu L, Lu T, Sui Y, Zhang C, Wang Y, Zhang T, Xie Y, Xiao P, Zhao Z, Cheng C, Hu J, Chen H, Xue D, Chen H, Wang G, Kong R, Tan H, Bai X, Li Z, McAllister F, Li L, Sun B. | Nat Commun | 10.1038/s41467-023-41950-y | 2023 | | |
| Immunotherapy and brain metastasis in lung cancer: connecting bench side science to the clinic. | Rios-Hoyo A, Arriola E. | Front Immunol | 10.3389/fimmu.2023.1221097 | 2023 | | |
| Phylogeny | Low-carbohydrate high-fat weight reduction diet induces changes in human gut microbiota. | Jaagura M, Viiard E, Karu-Lavits K, Adamberg K. | Microbiologyopen | 10.1002/mbo3.1194 | 2021 | |
| Characterization of the consensus mucosal microbiome of colorectal cancer. | Zhao L, Grimes SM, Greer SU, Kubit M, Lee H, Nadauld LD, Ji HP. | NAR Cancer | 10.1093/narcan/zcab049 | 2021 | | |
| A review of cancer immunotherapy: from the past, to the present, to the future. | Esfahani K, Roudaia L, Buhlaiga N, Del Rincon SV, Papneja N, Miller WH. | Curr Oncol | 10.3747/co.27.5223 | 2020 | | |
| Genetics | A Machine Learning Approach to Study Glycosidase Activities from Bifidobacterium. | Sabater C, Ruiz L, Margolles A. | Microorganisms | 10.3390/microorganisms9051034 | 2021 | |
| Gut microbiome is associated with the clinical response to anti-PD-1 based immunotherapy in hepatobiliary cancers. | Mao J, Wang D, Long J, Yang X, Lin J, Song Y, Xie F, Xun Z, Wang Y, Wang Y, Li Y, Sun H, Xue J, Song Y, Zuo B, Zhang J, Bian J, Zhang T, Yang X, Zhang L, Sang X, Zhao H. | J Immunother Cancer | 10.1136/jitc-2021-003334 | 2021 | | |
| Human Stool Metabolome Differs upon 24 h Blood Pressure Levels and Blood Pressure Dipping Status: A Prospective Longitudinal Study. | Huart J, Cirillo A, Taminiau B, Descy J, Saint-Remy A, Daube G, Krzesinski JM, Melin P, de Tullio P, Jouret F. | Metabolites | 10.3390/metabo11050282 | 2021 | | |
| Pathogenicity | Association of Short-Chain Fatty Acids in the Gut Microbiome With Clinical Response to Treatment With Nivolumab or Pembrolizumab in Patients With Solid Cancer Tumors. | Nomura M, Nagatomo R, Doi K, Shimizu J, Baba K, Saito T, Matsumoto S, Inoue K, Muto M. | JAMA Netw Open | 10.1001/jamanetworkopen.2020.2895 | 2020 | |
| Metabolism | Microbiota-derived short-chain fatty acids do not interfere with SARS-CoV-2 infection of human colonic samples. | Pascoal LB, Rodrigues PB, Genaro LM, Gomes ABDSP, Toledo-Teixeira DA, Parise PL, Bispo-Dos-Santos K, Simeoni CL, Guimaraes PV, Buscaratti LI, Elston JGA, Marques-Souza H, Martins-de-Souza D, Ayrizono MLS, Velloso LA, Proenca-Modena JL, Moraes-Vieira PMM, Mori MAS, Farias AS, Vinolo MAR, Leal RF. | Gut Microbes | 10.1080/19490976.2021.1874740 | 2021 | |
| Water as a Source of Antimicrobial Resistance and Healthcare-Associated Infections. | Hayward C, Ross KE, Brown MH, Whiley H. | Pathogens | 10.3390/pathogens9080667 | 2020 | | |
| Enzymology | Presence and Persistence of Putative Lytic and Temperate Bacteriophages in Vaginal Metagenomes from South African Adolescents. | Happel AU, Balle C, Maust BS, Konstantinus IN, Gill K, Bekker LG, Froissart R, Passmore JA, Karaoz U, Varsani A, Jaspan H. | Viruses | 10.3390/v13122341 | 2021 | |
| Antibiotic use and the efficacy of immune checkpoint inhibitors in cancer patients: a pooled analysis of 2740 cancer patients. | Huang XZ, Gao P, Song YX, Xu Y, Sun JX, Chen XW, Zhao JH, Wang ZN. | Oncoimmunology | 10.1080/2162402x.2019.1665973 | 2019 | | |
| Pathogenicity | Vaccination Against Lawsonia intracellularis Decreases Shedding of Salmonella enterica serovar Typhimurium in Co-Infected Pigs and Alters the Gut Microbiome. | Leite FLL, Singer RS, Ward T, Gebhart CJ, Isaacson RE. | Sci Rep | 10.1038/s41598-018-21255-7 | 2018 | |
| Utilization Efficiency of Human Milk Oligosaccharides by Human-Associated Akkermansia Is Strain Dependent. | Luna E, Parkar SG, Kirmiz N, Hartel S, Hearn E, Hossine M, Kurdian A, Mendoza C, Orr K, Padilla L, Ramirez K, Salcedo P, Serrano E, Choudhury B, Paulchakrabarti M, Parker CT, Huynh S, Cooper K, Flores GE. | Appl Environ Microbiol | 10.1128/aem.01487-21 | 2022 | | |
| The Role of the Microbiome in Pancreatic Cancer. | Miyabayashi K, Ijichi H, Fujishiro M. | Cancers (Basel) | 10.3390/cancers14184479 | 2022 | | |
| Pathogenicity | Oral versus intravenous iron replacement therapy distinctly alters the gut microbiota and metabolome in patients with IBD. | Lee T, Clavel T, Smirnov K, Schmidt A, Lagkouvardos I, Walker A, Lucio M, Michalke B, Schmitt-Kopplin P, Fedorak R, Haller D. | Gut | 10.1136/gutjnl-2015-309940 | 2017 | |
| Risk Factors for Infections, Antibiotic Therapy, and Its Impact on Cancer Therapy Outcomes for Patients with Solid Tumors. | Kubecek O, Paterova P, Novosadova M. | Life (Basel) | 10.3390/life11121387 | 2021 | | |
| Pathogenicity | Acute and persistent effects of commonly used antibiotics on the gut microbiome and resistome in healthy adults. | Anthony WE, Wang B, Sukhum KV, D'Souza AW, Hink T, Cass C, Seiler S, Reske KA, Coon C, Dubberke ER, Burnham CD, Dantas G, Kwon JH. | Cell Rep | 10.1016/j.celrep.2022.110649 | 2022 | |
| Pathogenicity | A Six-Day, Lifestyle-Based Immersion Program Mitigates Cardiovascular Risk Factors and Induces Shifts in Gut Microbiota, Specifically Lachnospiraceae, Ruminococcaceae, Faecalibacterium prausnitzii: A Pilot Study. | Ahrens AP, Culpepper T, Saldivar B, Anton S, Stoll S, Handberg EM, Xu K, Pepine C, Triplett EW, Aggarwal M. | Nutrients | 10.3390/nu13103459 | 2021 | |
| Pathogenicity | Microbiota changes induced by microencapsulated sodium butyrate in patients with inflammatory bowel disease. | Facchin S, Vitulo N, Calgaro M, Buda A, Romualdi C, Pohl D, Perini B, Lorenzon G, Marinelli C, D'Inca R, Sturniolo GC, Savarino EV. | Neurogastroenterol Motil | 10.1111/nmo.13914 | 2020 | |
| Metabolism | Toll-like receptor 1 as a possible target in non-alcoholic fatty liver disease. | Baumann A, Nier A, Hernandez-Arriaga A, Brandt A, Lorenzo Pisarello MJ, Jin CJ, Pilar E, Camarinha-Silva A, Schattenberg JM, Bergheim I. | Sci Rep | 10.1038/s41598-021-97346-9 | 2021 | |
| Alterations in the gut bacterial microbiome in people with type 2 diabetes mellitus and diabetic retinopathy. | Das T, Jayasudha R, Chakravarthy S, Prashanthi GS, Bhargava A, Tyagi M, Rani PK, Pappuru RR, Sharma S, Shivaji S. | Sci Rep | 10.1038/s41598-021-82538-0 | 2021 | | |
| Genetics | Longitudinal fecal microbiome and metabolite data demonstrate rapid shifts and subsequent stabilization after an abrupt dietary change in healthy adult dogs. | Lin CY, Jha AR, Oba PM, Yotis SM, Shmalberg J, Honaker RW, Swanson KS. | Anim Microbiome | 10.1186/s42523-022-00194-9 | 2022 | |
| Pathogenicity | Mining the human gut microbiome for novel stress resistance genes. | Culligan EP, Marchesi JR, Hill C, Sleator RD. | Gut Microbes | 10.4161/gmic.20984 | 2012 | |
| A Review of the Role of Oral Microbiome in the Development, Detection, and Management of Head and Neck Squamous Cell Cancers. | Burcher KM, Burcher JT, Inscore L, Bloomer CH, Furdui CM, Porosnicu M. | Cancers (Basel) | 10.3390/cancers14174116 | 2022 | | |
| An expansion of rare lineage intestinal microbes characterizes rheumatoid arthritis. | Chen J, Wright K, Davis JM, Jeraldo P, Marietta EV, Murray J, Nelson H, Matteson EL, Taneja V. | Genome Med | 10.1186/s13073-016-0299-7 | 2016 | | |
| Antibiotics and immunotherapy in gastrointestinal tumors: Friend or foe? | Yan C, Tu XX, Wu W, Tong Z, Liu LL, Zheng Y, Jiang WQ, Zhao P, Fang WJ, Zhang HY. | World J Clin Cases | 10.12998/wjcc.v7.i11.1253 | 2019 | | |
| Genetics | Metagenome-wide association study of the alterations in the intestinal microbiome composition of ankylosing spondylitis patients and the effect of traditional and herbal treatment. | Huang R, Li F, Zhou Y, Zeng Z, He X, Fang L, Pan F, Chen Y, Lin J, Li J, Qiu D, Tian Y, Tan X, Song Y, Xu Y, Lai Y, Yi H, Gao Q, Fang X, Shi M, Zhou C, Huang J, He YT. | J Med Microbiol | 10.1099/jmm.0.001107 | 2020 | |
| Pathogenicity | Obesity-associated inflammation countered by a Mediterranean diet: the role of gut-derived metabolites. | Florkowski M, Abiona E, Frank KM, Brichacek AL. | Front Nutr | 10.3389/fnut.2024.1392666 | 2024 | |
| Phylogeny | Imaging the in vivo growth patterns of bacteria in human gut Microbiota. | Lin L, Song J, Li J, Zuo X, Wei H, Yang C, Wang W. | Gut Microbes | 10.1080/19490976.2021.1960134 | 2021 | |
| Microbiome in Cancer Development and Treatment. | Ciernikova S, Sevcikova A, Mladosievicova B, Mego M. | Microorganisms | 10.3390/microorganisms12010024 | 2023 | | |
| Enzymology | Evidence for contamination as the origin for bacteria found in human placenta rather than a microbiota. | Gschwind R, Fournier T, Kennedy S, Tsatsaris V, Cordier AG, Barbut F, Butel MJ, Wydau-Dematteis S. | PLoS One | 10.1371/journal.pone.0237232 | 2020 | |
| An Association of Gut Microbiota with Different Phenotypes in Chinese Patients with Rheumatoid Arthritis. | Chiang HI, Li JR, Liu CC, Liu PY, Chen HH, Chen YM, Lan JL, Chen DY. | J Clin Med | 10.3390/jcm8111770 | 2019 | | |
| Control points for design of taxonomic composition in synthetic human gut communities. | Connors BM, Thompson J, Ertmer S, Clark RL, Pfleger BF, Venturelli OS. | Cell Syst | 10.1016/j.cels.2023.11.007 | 2023 | | |
| Pathogenicity | Unique Pakistani gut microbiota highlights population-specific microbiota signatures of type 2 diabetes mellitus. | Saleem A, Ikram A, Dikareva E, Lahtinen E, Matharu D, Pajari AM, de Vos WM, Hasan F, Salonen A, Jian C. | Gut Microbes | 10.1080/19490976.2022.2142009 | 2022 | |
| Improved gut microbiome recovery following drug therapy is linked to abundance and replication of probiotic strains. | FitzGerald J, Patel S, Eckenberger J, Guillemard E, Veiga P, Schafer F, Walter J, Claesson MJ, Derrien M. | Gut Microbes | 10.1080/19490976.2022.2094664 | 2022 | | |
| Influence of Exercise on the Human Gut Microbiota of Healthy Adults: A Systematic Review. | Ortiz-Alvarez L, Xu H, Martinez-Tellez B. | Clin Transl Gastroenterol | 10.14309/ctg.0000000000000126 | 2020 | | |
| Dominant Bacterial Phyla from the Human Gut Show Widespread Ability To Transform and Conjugate Bile Acids. | Lucas LN, Barrett K, Kerby RL, Zhang Q, Cattaneo LE, Stevenson D, Rey FE, Amador-Noguez D. | mSystems | 10.1128/msystems.00805-21 | 2021 | | |
| Gut microbiota in regulatory T cell generation and function: mechanisms and health implications. | Sharma A, Sharma G, Im SH. | Gut Microbes | 10.1080/19490976.2025.2516702 | 2025 | | |
| Metagenomic Shotgun Sequencing of Endocervical, Vaginal, and Rectal Samples among Fijian Women with and without Chlamydia trachomatis Reveals Disparate Microbial Populations and Function across Anatomic Sites: a Pilot Study. | Bommana S, Richards G, Kama M, Kodimerla R, Jijakli K, Read TD, Dean D. | Microbiol Spectr | 10.1128/spectrum.00105-22 | 2022 | | |
| Enzymology | Microbial liberation of N-methylserotonin from orange fiber in gnotobiotic mice and humans. | Han ND, Cheng J, Delannoy-Bruno O, Webber D, Terrapon N, Henrissat B, Rodionov DA, Arzamasov AA, Osterman AL, Hayashi DK, Meynier A, Vinoy S, Desai C, Marion S, Barratt MJ, Heath AC, Gordon JI. | Cell | 10.1016/j.cell.2022.06.004 | 2022 | |
| Taxonomical and functional changes in COVID-19 faecal microbiome could be related to SARS-CoV-2 faecal load. | Grenga L, Pible O, Miotello G, Culotta K, Ruat S, Roncato MA, Gas F, Bellanger L, Claret PG, Dunyach-Remy C, Laureillard D, Sotto A, Lavigne JP, Armengaud J. | Environ Microbiol | 10.1111/1462-2920.16028 | 2022 | | |
| A Vegetarian Diet Is a Major Determinant of Gut Microbiota Composition in Early Pregnancy. | Barrett HL, Gomez-Arango LF, Wilkinson SA, McIntyre HD, Callaway LK, Morrison M, Dekker Nitert M. | Nutrients | 10.3390/nu10070890 | 2018 | | |
| Enzymology | Therapeutic Potential of a Novel Bifidobacterium Identified Through Microbiome Profiling of RA Patients With Different RF Levels. | Jeong Y, Jhun J, Lee SY, Na HS, Choi J, Cho KH, Lee SY, Lee AR, Park SJ, You HJ, Kim JW, Park MS, Kwon B, Cho ML, Ji GE, Park SH. | Front Immunol | 10.3389/fimmu.2021.736196 | 2021 | |
| Correlation of gut microbiota and metabolic functions with the antibody response to the BBIBP-CorV vaccine. | Tang B, Tang L, He W, Jiang X, Hu C, Li Y, Zhang Y, Pang K, Lei Y, Li S, Liu S, Wang S, Yang M, Li Z, Zhao F, Yang S. | Cell Rep Med | 10.1016/j.xcrm.2022.100752 | 2022 | | |
| The gut microbiome, immune check point inhibition and immune-related adverse events in non-small cell lung cancer. | Bredin P, Naidoo J. | Cancer Metastasis Rev | 10.1007/s10555-022-10039-1 | 2022 | | |
| Fetal and early postnatal lead exposure measured in teeth associates with infant gut microbiota. | Sitarik AR, Arora M, Austin C, Bielak LF, Eggers S, Johnson CC, Lynch SV, Kyun Park S, Hank Wu KH, Yong GJM, Cassidy-Bushrow AE. | Environ Int | 10.1016/j.envint.2020.106062 | 2020 | | |
| Gut microbiome diversity influenced more by the Westernized dietary regime than the body mass index as assessed using effect size statistic. | Davis SC, Yadav JS, Barrow SD, Robertson BK. | Microbiologyopen | 10.1002/mbo3.476 | 2017 | | |
| Metabolism | Co-cultivation is a powerful approach to produce a robust functionally designed synthetic consortium as a live biotherapeutic product (LBP). | Kurt F, Leventhal GE, Spalinger MR, Anthamatten L, Rogalla von Bieberstein P, Menzi C, Reichlin M, Meola M, Rosenthal F, Rogler G, Lacroix C, de Wouters T. | Gut Microbes | 10.1080/19490976.2023.2177486 | 2023 | |
| Metabolism | Contribution of the 7beta-hydroxysteroid dehydrogenase from Ruminococcus gnavus N53 to ursodeoxycholic acid formation in the human colon. | Lee JY, Arai H, Nakamura Y, Fukiya S, Wada M, Yokota A. | J Lipid Res | 10.1194/jlr.m039834 | 2013 | |
| The gut microbiome as a modulator of healthy ageing. | Ghosh TS, Shanahan F, O'Toole PW. | Nat Rev Gastroenterol Hepatol | 10.1038/s41575-022-00605-x | 2022 | | |
| Phylogeny | Diet-induced alterations of host cholesterol metabolism are likely to affect the gut microbiota composition in hamsters. | Martinez I, Perdicaro DJ, Brown AW, Hammons S, Carden TJ, Carr TP, Eskridge KM, Walter J. | Appl Environ Microbiol | 10.1128/aem.03046-12 | 2013 | |
| Role of the gut microbiome in three major psychiatric disorders. | Borkent J, Ioannou M, Laman JD, Haarman BCM, Sommer IEC, Sommer IEC. | Psychol Med | 10.1017/s0033291722000897 | 2022 | | |
| The Oral-Gut Axis: Periodontal Diseases and Gastrointestinal Disorders. | Lam GA, Albarrak H, McColl CJ, Pizarro A, Sanaka H, Gomez-Nguyen A, Cominelli F, Paes Batista da Silva A. | Inflamm Bowel Dis | 10.1093/ibd/izac241 | 2023 | | |
| Diversity and community pattern of sulfate-reducing bacteria in piglet gut. | Ran S, Mu C, Zhu W. | J Anim Sci Biotechnol | 10.1186/s40104-019-0346-5 | 2019 | | |
| Pathogenicity | Microbiota Modulation of the Gut-Lung Axis in COVID-19. | de Oliveira GLV, Oliveira CNS, Pinzan CF, de Salis LVV, Cardoso CRB. | Front Immunol | 10.3389/fimmu.2021.635471 | 2021 | |
| Evolving insights into the mechanisms of toxicity associated with immune checkpoint inhibitor therapy. | Mangan BL, McAlister RK, Balko JM, Johnson DB, Moslehi JJ, Gibson A, Phillips EJ. | Br J Clin Pharmacol | 10.1111/bcp.14433 | 2020 | | |
| The Gut-liver Axis in Immune Remodeling: New insight into Liver Diseases. | Yang X, Lu D, Zhuo J, Lin Z, Yang M, Xu X. | Int J Biol Sci | 10.7150/ijbs.46405 | 2020 | | |
| Metabolism | IgA-deficient humans exhibit gut microbiota dysbiosis despite secretion of compensatory IgM. | Catanzaro JR, Strauss JD, Bielecka A, Porto AF, Lobo FM, Urban A, Schofield WB, Palm NW. | Sci Rep | 10.1038/s41598-019-49923-2 | 2019 | |
| Insoluble dietary fiber from soy hulls regulates the gut microbiota in vitro and increases the abundance of bifidobacteriales and lactobacillales. | Yang L, Zhao Y, Huang J, Zhang H, Lin Q, Han L, Liu J, Wang J, Liu H. | J Food Sci Technol | 10.1007/s13197-019-04041-9 | 2020 | | |
| Pharmacomicrobiomics in precision cancer therapy: bench to bedside. | Le Ngoc K, Pham TTH, Nguyen TK, Huong PT. | Front Immunol | 10.3389/fimmu.2024.1428420 | 2024 | | |
| The gut microbiome and early-life growth in a population with high prevalence of stunting. | Robertson RC, Edens TJ, Carr L, Mutasa K, Gough EK, Evans C, Geum HM, Baharmand I, Gill SK, Ntozini R, Smith LE, Chasekwa B, Majo FD, Tavengwa NV, Mutasa B, Francis F, Tome J, Stoltzfus RJ, Humphrey JH, Prendergast AJ, Manges AR. | Nat Commun | 10.1038/s41467-023-36135-6 | 2023 | | |
| Preliminary evaluation of a rapid lateral flow calprotectin test for the diagnosis of prosthetic joint infection. | Trotter AJ, Dean R, Whitehouse CE, Mikalsen J, Hill C, Brunton-Sim R, Kay GL, Shakokani M, Durst AZE, Wain J, McNamara I, O'Grady J. | Bone Joint Res | 10.1302/2046-3758.95.bjr-2019-0213.r1 | 2020 | | |
| Effects of Turmeric and Curcumin Dietary Supplementation on Human Gut Microbiota: A Double-Blind, Randomized, Placebo-Controlled Pilot Study. | Peterson CT, Vaughn AR, Sharma V, Chopra D, Mills PJ, Peterson SN, Sivamani RK. | J Evid Based Integr Med | 10.1177/2515690x18790725 | 2018 | | |
| Gut microbial diversity is associated with lower arterial stiffness in women. | Menni C, Lin C, Cecelja M, Mangino M, Matey-Hernandez ML, Keehn L, Mohney RP, Steves CJ, Spector TD, Kuo CF, Chowienczyk P, Valdes AM. | Eur Heart J | 10.1093/eurheartj/ehy226 | 2018 | | |
| Genetics | An individualized mosaic of maternal microbial strains is transmitted to the infant gut microbial community. | Koo H, McFarland BC, Hakim JA, Crossman DK, Crowley MR, Rodriguez JM, Benveniste EN, Morrow CD. | R Soc Open Sci | 10.1098/rsos.192200 | 2020 | |
| Pathogenicity | Intestinal barrier dysfunction plays an integral role in arthritis pathology and can be targeted to ameliorate disease. | Matei DE, Menon M, Alber DG, Smith AM, Nedjat-Shokouhi B, Fasano A, Magill L, Duhlin A, Bitoun S, Gleizes A, Hacein-Bey-Abina S, Manson JJ, Rosser EC, ABIRISK Consortium, Klein N, Blair PA, Mauri C. | Med | 10.1016/j.medj.2021.04.013 | 2021 | |
| Changes of intestinal bacterial microbiota in coronary heart disease complicated with nonalcoholic fatty liver disease. | Zhang Y, Xu J, Wang X, Ren X, Liu Y. | BMC Genomics | 10.1186/s12864-019-6251-7 | 2019 | | |
| Enzymology | An approach for evaluating the effects of dietary fiber polysaccharides on the human gut microbiome and plasma proteome. | Delannoy-Bruno O, Desai C, Castillo JJ, Couture G, Barve RA, Lombard V, Henrissat B, Cheng J, Han N, Hayashi DK, Meynier A, Vinoy S, Lebrilla CB, Marion S, Heath AC, Barratt MJ, Gordon JI. | Proc Natl Acad Sci U S A | 10.1073/pnas.2123411119 | 2022 | |
| Effect of a multispecies probiotic supplement on quantity of irritable bowel syndrome-related intestinal microbial phylotypes. | Lyra A, Krogius-Kurikka L, Nikkila J, Malinen E, Kajander K, Kurikka K, Korpela R, Palva A. | BMC Gastroenterol | 10.1186/1471-230x-10-110 | 2010 | | |
| Strain engraftment competition and functional augmentation in a multi-donor fecal microbiota transplantation trial for obesity. | Wilson BC, Vatanen T, Jayasinghe TN, Leong KSW, Derraik JGB, Albert BB, Chiavaroli V, Svirskis DM, Beck KL, Conlon CA, Jiang Y, Schierding W, Holland DJ, Cutfield WS, O'Sullivan JM. | Microbiome | 10.1186/s40168-021-01060-7 | 2021 | | |
| The gut microbiome and response to immune checkpoint inhibitors: preclinical and clinical strategies. | Gong J, Chehrazi-Raffle A, Placencio-Hickok V, Guan M, Hendifar A, Salgia R. | Clin Transl Med | 10.1186/s40169-019-0225-x | 2019 | | |
| Microbial signature in IgE-mediated food allergies. | Goldberg MR, Mor H, Magid Neriya D, Magzal F, Muller E, Appel MY, Nachshon L, Borenstein E, Tamir S, Louzoun Y, Youngster I, Elizur A, Koren O. | Genome Med | 10.1186/s13073-020-00789-4 | 2020 | | |
| Use of Changestat for Growth Rate Studies of Gut Microbiota. | Adamberg K, Raba G, Adamberg S. | Front Bioeng Biotechnol | 10.3389/fbioe.2020.00024 | 2020 | | |
| Prebiotic Potential of Herbal Medicines Used in Digestive Health and Disease. | Peterson CT, Sharma V, Uchitel S, Denniston K, Chopra D, Mills PJ, Peterson SN. | J Altern Complement Med | 10.1089/acm.2017.0422 | 2018 | | |
| The relationship between gastrointestinal cancers and the microbiota. | LaCourse KD, Johnston CD, Bullman S. | Lancet Gastroenterol Hepatol | 10.1016/s2468-1253(20)30362-9 | 2021 | | |
| Cumulative Antibiotic Use Significantly Decreases Efficacy of Checkpoint Inhibitors in Patients with Advanced Cancer. | Tinsley N, Zhou C, Tan G, Rack S, Lorigan P, Blackhall F, Krebs M, Carter L, Thistlethwaite F, Graham D, Cook N. | Oncologist | 10.1634/theoncologist.2019-0160 | 2020 | | |
| The impact of microbially modified metabolites associated with obesity and bariatric surgery on antitumor immunity. | Wang M, Huang Y, Xin M, Li T, Wang X, Fang Y, Liang S, Cai T, Xu X, Dong L, Wang C, Xu Z, Song X, Li J, Zheng Y, Sun W, Li L. | Front Immunol | 10.3389/fimmu.2023.1156471 | 2023 | | |
| Relationships of Gut Microbiota Composition, Short-Chain Fatty Acids and Polyamines with the Pathological Response to Neoadjuvant Radiochemotherapy in Colorectal Cancer Patients. | Sanchez-Alcoholado L, Laborda-Illanes A, Otero A, Ordonez R, Gonzalez-Gonzalez A, Plaza-Andrades I, Ramos-Molina B, Gomez-Millan J, Queipo-Ortuno MI. | Int J Mol Sci | 10.3390/ijms22179549 | 2021 | | |
| Genetics | Multiomics Analysis Reveals the Impact of Microbiota on Host Metabolism in Hepatic Steatosis. | Zeybel M, Arif M, Li X, Altay O, Yang H, Shi M, Akyildiz M, Saglam B, Gonenli MG, Yigit B, Ulukan B, Ural D, Shoaie S, Turkez H, Nielsen J, Zhang C, Uhlen M, Boren J, Mardinoglu A. | Adv Sci (Weinh) | 10.1002/advs.202104373 | 2022 | |
| Metabolism | Combining functional metagenomics and glycoanalytics to identify enzymes that facilitate structural characterization of sulfated N-glycans. | Chuzel L, Fossa SL, Boisvert ML, Cajic S, Hennig R, Ganatra MB, Reichl U, Rapp E, Taron CH. | Microb Cell Fact | 10.1186/s12934-021-01652-w | 2021 | |
| Commensal consortia decolonize Enterobacteriaceae via ecological control. | Furuichi M, Kawaguchi T, Pust MM, Yasuma-Mitobe K, Plichta DR, Hasegawa N, Ohya T, Bhattarai SK, Sasajima S, Aoto Y, Tuganbaev T, Yaginuma M, Ueda M, Okahashi N, Amafuji K, Kiridoshi Y, Sugita K, Strazar M, Avila-Pacheco J, Pierce K, Clish CB, Skelly AN, Hattori M, Nakamoto N, Caballero S, Norman JM, Olle B, Tanoue T, Suda W, Arita M, Bucci V, Atarashi K, Xavier RJ, Honda K. | Nature | 10.1038/s41586-024-07960-6 | 2024 | | |
| Pathogenicity | Dietary geraniol ameliorates intestinal dysbiosis and relieves symptoms in irritable bowel syndrome patients: a pilot study. | Rizzello F, Ricci C, Scandella M, Cavazza E, Giovanardi E, Valerii MC, Campieri M, Comparone A, De Fazio L, Candela M, Turroni S, Spisni E. | BMC Complement Altern Med | 10.1186/s12906-018-2403-6 | 2018 | |
| Dominant and diet-responsive groups of bacteria within the human colonic microbiota. | Walker AW, Ince J, Duncan SH, Webster LM, Holtrop G, Ze X, Brown D, Stares MD, Scott P, Bergerat A, Louis P, McIntosh F, Johnstone AM, Lobley GE, Parkhill J, Flint HJ. | ISME J | 10.1038/ismej.2010.118 | 2011 | | |
| Prebiotic Potential of Culinary Spices Used to Support Digestion and Bioabsorption. | Peterson CT, Rodionov DA, Iablokov SN, Pung MA, Chopra D, Mills PJ, Peterson SN. | Evid Based Complement Alternat Med | 10.1155/2019/8973704 | 2019 | | |
| Metabolism | Metabolic niche of a prominent sulfate-reducing human gut bacterium. | Rey FE, Gonzalez MD, Cheng J, Wu M, Ahern PP, Gordon JI. | Proc Natl Acad Sci U S A | 10.1073/pnas.1312524110 | 2013 | |
| Inulin diet uncovers complex diet-microbiota-immune cell interactions remodeling the gut epithelium. | Correa RO, Castro PR, Fachi JL, Nirello VD, El-Sahhar S, Imada S, Pereira GV, Pral LP, Araujo NVP, Fernandes MF, Matheus VA, de Souza Felipe J, Dos Santos Pereira Gomes AB, de Oliveira S, de Rezende Rodovalho V, de Oliveira SRM, de Assis HC, Oliveira SC, Dos Santos Martins F, Martens E, Colonna M, Varga-Weisz P, Vinolo MAR. | Microbiome | 10.1186/s40168-023-01520-2 | 2023 | | |
| Pathogenicity | A Novel Non-Digestible, Carrot-Derived Polysaccharide (cRG-I) Selectively Modulates the Human Gut Microbiota while Promoting Gut Barrier Integrity: An Integrated in Vitro Approach. | Van den Abbeele P, Verstrepen L, Ghyselinck J, Albers R, Marzorati M, Mercenier A. | Nutrients | 10.3390/nu12071917 | 2020 | |
| Pathogenicity | Use of the second-generation antipsychotic, risperidone, and secondary weight gain are associated with an altered gut microbiota in children. | Bahr SM, Tyler BC, Wooldridge N, Butcher BD, Burns TL, Teesch LM, Oltman CL, Azcarate-Peril MA, Kirby JR, Calarge CA. | Transl Psychiatry | 10.1038/tp.2015.135 | 2015 | |
| New Insights Into the Cancer-Microbiome-Immune Axis: Decrypting a Decade of Discoveries. | Jain T, Sharma P, Are AC, Vickers SM, Dudeja V. | Front Immunol | 10.3389/fimmu.2021.622064 | 2021 | | |
| Transcriptome | Relating the gut metagenome and metatranscriptome to immunotherapy responses in melanoma patients. | Peters BA, Wilson M, Moran U, Pavlick A, Izsak A, Wechter T, Weber JS, Osman I, Ahn J. | Genome Med | 10.1186/s13073-019-0672-4 | 2019 | |
| The Macrophages-Microbiota Interplay in Colorectal Cancer (CRC)-Related Inflammation: Prognostic and Therapeutic Significance. | Mola S, Pandolfo C, Sica A, Porta C. | Int J Mol Sci | 10.3390/ijms21186866 | 2020 | | |
| Alteration of the gut microbiota following SARS-CoV-2 infection correlates with disease severity in hamsters. | Sencio V, Machelart A, Robil C, Benech N, Hoffmann E, Galbert C, Deryuter L, Heumel S, Hantute-Ghesquier A, Flourens A, Brodin P, Infanti F, Richard V, Dubuisson J, Grangette C, Sulpice T, Wolowczuk I, Pinet F, Prevot V, Belouzard S, Briand F, Duterque-Coquillaud M, Sokol H, Trottein F. | Gut Microbes | 10.1080/19490976.2021.2018900 | 2022 | | |
| Integrated gut virome and bacteriome dynamics in COVID-19 patients. | Cao J, Wang C, Zhang Y, Lei G, Xu K, Zhao N, Lu J, Meng F, Yu L, Yan J, Bai C, Zhang S, Zhang N, Gong Y, Bi Y, Shi Y, Chen Z, Dai L, Wang J, Yang P. | Gut Microbes | 10.1080/19490976.2021.1887722 | 2021 | | |
| Metagenomic identification, purification and characterisation of the Bifidobacterium adolescentis BgaC beta-galactosidase. | Mulualem DM, Agbavwe C, Ogilvie LA, Jones BV, Kilcoyne M, O'Byrne C, Boyd A. | Appl Microbiol Biotechnol | 10.1007/s00253-020-11084-y | 2021 | | |
| Aging, Gut Microbiota and Metabolic Diseases: Management through Physical Exercise and Nutritional Interventions. | Juarez-Fernandez M, Porras D, Garcia-Mediavilla MV, Roman-Saguillo S, Gonzalez-Gallego J, Nistal E, Sanchez-Campos S. | Nutrients | 10.3390/nu13010016 | 2020 | | |
| Antibiotics promote intestinal growth of carbapenem-resistant Enterobacteriaceae by enriching nutrients and depleting microbial metabolites. | Yip AYG, King OG, Omelchenko O, Kurkimat S, Horrocks V, Mostyn P, Danckert N, Ghani R, Satta G, Jauneikaite E, Davies FJ, Clarke TB, Mullish BH, Marchesi JR, McDonald JAK. | Nat Commun | 10.1038/s41467-023-40872-z | 2023 | | |
| The Emerging Role of Microbiota and Microbiome in Pancreatic Ductal Adenocarcinoma. | Ciernikova S, Novisedlakova M, Cholujova D, Stevurkova V, Mego M. | Biomedicines | 10.3390/biomedicines8120565 | 2020 | | |
| Phylogeny | Microbial dysbiosis in pediatric patients with Crohn's disease. | Kaakoush NO, Day AS, Huinao KD, Leach ST, Lemberg DA, Dowd SE, Mitchell HM. | J Clin Microbiol | 10.1128/jcm.01396-12 | 2012 | |
| Enzymology | Development of 16S rRNA-gene-targeted group-specific primers for the detection and identification of predominant bacteria in human feces. | Matsuki T, Watanabe K, Fujimoto J, Miyamoto Y, Takada T, Matsumoto K, Oyaizu H, Tanaka R. | Appl Environ Microbiol | 10.1128/aem.68.11.5445-5451.2002 | 2002 | |
| Pathogenicity | Provision of Lipid-Based Nutrient Supplements to Mothers During Pregnancy and 6 Months Postpartum and to Their Infants from 6 to 18 Months Promotes Infant Gut Microbiota Diversity at 18 Months of Age but Not Microbiota Maturation in a Rural Malawian Setting: Secondary Outcomes of a Randomized Trial. | Kamng'ona AW, Young R, Arnold CD, Patson N, Jorgensen JM, Kortekangas E, Chaima D, Malamba C, Ashorn U, Cheung YB, Ashorn P, Maleta K, Dewey KG. | J Nutr | 10.1093/jn/nxz298 | 2020 | |
| Pathogenicity | Role of the Microbiome in the Pathogenesis of COVID-19. | De R, Dutta S. | Front Cell Infect Microbiol | 10.3389/fcimb.2022.736397 | 2022 | |
| Gut Microbiota as Potential Biomarker and/or Therapeutic Target to Improve the Management of Cancer: Focus on Colibactin-Producing Escherichia coli in Colorectal Cancer. | Veziant J, Villeger R, Barnich N, Bonnet M. | Cancers (Basel) | 10.3390/cancers13092215 | 2021 | | |
| An untargeted fecal and urine metabolomics analysis of the interplay between the gut microbiome, diet and human metabolism in Indian and Chinese adults. | Jain A, Li XH, Chen WN. | Sci Rep | 10.1038/s41598-019-45640-y | 2019 | | |
| Metabolism | Second-generation antipsychotics and metabolism alterations: a systematic review of the role of the gut microbiome. | Skonieczna-Zydecka K, Loniewski I, Misera A, Stachowska E, Maciejewska D, Marlicz W, Galling B. | Psychopharmacology (Berl) | 10.1007/s00213-018-5102-6 | 2019 | |
| Metabolism | Prebiotic Dietary Fiber and Gut Health: Comparing the in Vitro Fermentations of Beta-Glucan, Inulin and Xylooligosaccharide. | Carlson JL, Erickson JM, Hess JM, Gould TJ, Slavin JL. | Nutrients | 10.3390/nu9121361 | 2017 | |
| Acquisition, transmission and strain diversity of human gut-colonizing crAss-like phages. | Siranosian BA, Tamburini FB, Sherlock G, Bhatt AS. | Nat Commun | 10.1038/s41467-019-14103-3 | 2020 | | |
| Impact of gut microbiome on skin health: gut-skin axis observed through the lenses of therapeutics and skin diseases. | Mahmud MR, Akter S, Tamanna SK, Mazumder L, Esti IZ, Banerjee S, Akter S, Hasan MR, Acharjee M, Hossain MS, Pirttila AM. | Gut Microbes | 10.1080/19490976.2022.2096995 | 2022 | | |
| Fecal Microbiota Transplantation and Other Gut Microbiota Manipulation Strategies. | Quaranta G, Guarnaccia A, Fancello G, Agrillo C, Iannarelli F, Sanguinetti M, Masucci L. | Microorganisms | 10.3390/microorganisms10122424 | 2022 | | |
| Nanomedicine to modulate immunotherapy in cutaneous melanoma (Review). | Volovat SR, Negru S, Stolniceanu CR, Volovat C, Lungulescu C, Scripcariu D, Cobzeanu BM, Stefanescu C, Grigorescu C, Augustin I, Lupascu Ursulescu C, Volovat CC. | Exp Ther Med | 10.3892/etm.2021.9967 | 2021 | | |
| Enzymology | Targeted Synthesis and Characterization of a Gene Cluster Encoding NAD(P)H-Dependent 3alpha-, 3beta-, and 12alpha-Hydroxysteroid Dehydrogenases from Eggerthella CAG:298, a Gut Metagenomic Sequence. | Mythen SM, Devendran S, Mendez-Garcia C, Cann I, Ridlon JM. | Appl Environ Microbiol | 10.1128/aem.02475-17 | 2018 | |
| Insights from Bacteroides Species in Children with Type 1 Diabetes. | Matos J, Matos I, Calha M, Santos P, Duarte I, Cardoso Y, Faleiro ML. | Microorganisms | 10.3390/microorganisms9071436 | 2021 | | |
| Metabolism | Completion of the gut microbial epi-bile acid pathway. | Doden HL, Wolf PG, Gaskins HR, Anantharaman K, Alves JMP, Ridlon JM. | Gut Microbes | 10.1080/19490976.2021.1907271 | 2021 | |
| MALDI-TOF identification of the human Gut microbiome in people with and without diarrhea in Senegal. | Samb-Ba B, Mazenot C, Gassama-Sow A, Dubourg G, Richet H, Hugon P, Lagier JC, Raoult D, Fenollar F. | PLoS One | 10.1371/journal.pone.0087419 | 2014 | | |
| Selective maternal seeding and environment shape the human gut microbiome. | Korpela K, Costea P, Coelho LP, Kandels-Lewis S, Willemsen G, Boomsma DI, Segata N, Bork P. | Genome Res | 10.1101/gr.233940.117 | 2018 | | |
| Intestinal microbiota: a new force in cancer immunotherapy. | Dai Z, Zhang J, Wu Q, Fang H, Shi C, Li Z, Lin C, Tang D, Tang D, Wang D. | Cell Commun Signal | 10.1186/s12964-020-00599-6 | 2020 | | |
| Metabolism | Bacterial metabolism rescues the inhibition of intestinal drug absorption by food and drug additives. | Zou L, Spanogiannopoulos P, Pieper LM, Chien HC, Cai W, Khuri N, Pottel J, Vora B, Ni Z, Tsakalozou E, Zhang W, Shoichet BK, Giacomini KM, Turnbaugh PJ. | Proc Natl Acad Sci U S A | 10.1073/pnas.1920483117 | 2020 | |
| Diversity of Intestinal Clostridium coccoides Group in the Japanese Population, as Demonstrated by Reverse Transcription-Quantitative PCR. | Kurakawa T, Ogata K, Matsuda K, Tsuji H, Kubota H, Takada T, Kado Y, Asahara T, Takahashi T, Nomoto K. | PLoS One | 10.1371/journal.pone.0126226 | 2015 | | |
| Metabolism | TSP-1 Deficiency Alters Ocular Microbiota: Implications for Sjögren's Syndrome Pathogenesis. | Terzulli M, Contreras-Ruiz L, Kugadas A, Masli S, Gadjeva M. | J Ocul Pharmacol Ther | 10.1089/jop.2015.0017 | 2015 | |
| Phylogeny | Application of rrs gene sequencing to elucidate the clinical significance of Eggerthela lenta infection. | Landais C, Doudier B, Imbert G, Fenollar F, Brouqui P. | J Clin Microbiol | 10.1128/jcm.01805-06 | 2007 | |
| Pathogenicity | Intestinal microbiota influences clinical outcome and side effects of early breast cancer treatment. | Terrisse S, Derosa L, Iebba V, Ghiringhelli F, Vaz-Luis I, Kroemer G, Fidelle M, Christodoulidis S, Segata N, Thomas AM, Martin AL, Sirven A, Everhard S, Aprahamian F, Nirmalathasan N, Aarnoutse R, Smidt M, Ziemons J, Caldas C, Loibl S, Denkert C, Durand S, Iglesias C, Pietrantonio F, Routy B, Andre F, Pasolli E, Delaloge S, Zitvogel L. | Cell Death Differ | 10.1038/s41418-021-00784-1 | 2021 | |
| Enzymology | Enhanced Characterization of Drug Metabolism and the Influence of the Intestinal Microbiome: A Pharmacokinetic, Microbiome, and Untargeted Metabolomics Study. | Jarmusch AK, Vrbanac A, Momper JD, Ma JD, Alhaja M, Liyanage M, Knight R, Dorrestein PC, Tsunoda SM. | Clin Transl Sci | 10.1111/cts.12785 | 2020 | |
| Metabolism | Metabolic Network Analysis Reveals Altered Bile Acid Synthesis and Metabolism in Alzheimer's Disease. | Baloni P, Funk CC, Yan J, Yurkovich JT, Kueider-Paisley A, Nho K, Heinken A, Jia W, Mahmoudiandehkordi S, Louie G, Saykin AJ, Arnold M, Kastenmuller G, Griffiths WJ, Thiele I, Alzheimer's Disease Metabolomics Consortium, Kaddurah-Daouk R, Price ND. | Cell Rep Med | 10.1016/j.xcrm.2020.100138 | 2020 | |
| Genetics | Recurrent urinary tract infection and estrogen shape the taxonomic ecology and function of the postmenopausal urogenital microbiome. | Neugent ML, Kumar A, Hulyalkar NV, Lutz KC, Nguyen VH, Fuentes JL, Zhang C, Nguyen A, Sharon BM, Kuprasertkul A, Arute AP, Ebrahimzadeh T, Natesan N, Xing C, Shulaev V, Li Q, Zimmern PE, Palmer KL, De Nisco NJ. | Cell Rep Med | 10.1016/j.xcrm.2022.100753 | 2022 | |
| Faecal microbiota transplantation halts progression of human new-onset type 1 diabetes in a randomised controlled trial. | de Groot P, Nikolic T, Pellegrini S, Sordi V, Imangaliyev S, Rampanelli E, Hanssen N, Attaye I, Bakker G, Duinkerken G, Joosten A, Prodan A, Levin E, Levels H, Potter van Loon B, van Bon A, Brouwer C, van Dam S, Simsek S, van Raalte D, Stam F, Gerdes V, Hoogma R, Diekman M, Gerding M, Rustemeijer C, de Bakker B, Hoekstra J, Zwinderman A, Bergman J, Holleman F, Piemonti L, De Vos W, Roep B, Nieuwdorp M. | Gut | 10.1136/gutjnl-2020-322630 | 2021 | | |
| Alterations of host-gut microbiome interactions in multiple sclerosis. | Cantoni C, Lin Q, Dorsett Y, Ghezzi L, Liu Z, Pan Y, Chen K, Han Y, Li Z, Xiao H, Gormley M, Liu Y, Bokoliya S, Panier H, Suther C, Evans E, Deng L, Locca A, Mikesell R, Obert K, Newland P, Wu Y, Salter A, Cross AH, Tarr PI, Lovett-Racke A, Piccio L, Zhou Y. | EBioMedicine | 10.1016/j.ebiom.2021.103798 | 2022 | | |
| Gut microbial determinants of clinically important improvement in patients with rheumatoid arthritis. | Gupta VK, Cunningham KY, Hur B, Bakshi U, Huang H, Warrington KJ, Taneja V, Myasoedova E, Davis JM, Sung J. | Genome Med | 10.1186/s13073-021-00957-0 | 2021 | | |
| Phylogeny | Gut microbiome of Moroccan colorectal cancer patients. | Allali I, Boukhatem N, Bouguenouch L, Hardi H, Boudouaya HA, Cadenas MB, Ouldim K, Amzazi S, Azcarate-Peril MA, Ghazal H. | Med Microbiol Immunol | 10.1007/s00430-018-0542-5 | 2018 | |
| Influence of Microbiota on Tumor Immunotherapy. | Yu X, Li W, Li Z, Wu Q, Sun S. | Int J Biol Sci | 10.7150/ijbs.91771 | 2024 | | |
| Enzymology | Low dietary fiber intake increases Collinsella abundance in the gut microbiota of overweight and obese pregnant women. | Gomez-Arango LF, Barrett HL, Wilkinson SA, Callaway LK, McIntyre HD, Morrison M, Dekker Nitert M. | Gut Microbes | 10.1080/19490976.2017.1406584 | 2018 | |
| Pathogenicity | Mechanisms by which sialylated milk oligosaccharides impact bone biology in a gnotobiotic mouse model of infant undernutrition. | Cowardin CA, Ahern PP, Kung VL, Hibberd MC, Cheng J, Guruge JL, Sundaresan V, Head RD, Barile D, Mills DA, Barratt MJ, Huq S, Ahmed T, Gordon JI. | Proc Natl Acad Sci U S A | 10.1073/pnas.1821770116 | 2019 | |
| Modulation of cytokine patterns and microbiome during pregnancy in IBD. | van der Giessen J, Binyamin D, Belogolovski A, Frishman S, Tenenbaum-Gavish K, Hadar E, Louzoun Y, Peppelenbosch MP, van der Woude CJ, Koren O, Fuhler GM. | Gut | 10.1136/gutjnl-2019-318263 | 2020 | | |
| Metabolism | Pregnane X receptor exacerbates nonalcoholic fatty liver disease accompanied by obesity- and inflammation-prone gut microbiome signature. | Kim S, Choi S, Dutta M, Asubonteng JO, Polunas M, Goedken M, Gonzalez FJ, Cui JY, Gyamfi MA. | Biochem Pharmacol | 10.1016/j.bcp.2021.114698 | 2021 | |
| Therapeutic implications of SARS-CoV-2 dysregulation of the gut-brain-lung axis. | Johnson SD, Olwenyi OA, Bhyravbhatla N, Thurman M, Pandey K, Klug EA, Johnston M, Dyavar SR, Acharya A, Podany AT, Fletcher CV, Mohan M, Singh K, Byrareddy SN. | World J Gastroenterol | 10.3748/wjg.v27.i29.4763 | 2021 | | |
| Human Microbiota and Breast Cancer-Is There Any Relevant Link?-A Literature Review and New Horizons Toward Personalised Medicine. | Alpuim Costa D, Nobre JG, Batista MV, Ribeiro C, Calle C, Cortes A, Marhold M, Negreiros I, Borralho P, Brito M, Cortes J, Braga SA, Costa L. | Front Microbiol | 10.3389/fmicb.2021.584332 | 2021 | | |
| Phylogeny | Diarrhoea-predominant irritable bowel syndrome distinguishable by 16S rRNA gene phylotype quantification. | Lyra A, Rinttila T, Nikkila J, Krogius-Kurikka L, Kajander K, Malinen E, Matto J, Makela L, Palva A. | World J Gastroenterol | 10.3748/wjg.15.5936 | 2009 | |
| Molecular Mechanisms of Resistance to Immune Checkpoint Inhibitors in Melanoma Treatment: An Update. | Vukadin S, Khaznadar F, Kizivat T, Vcev A, Smolic M. | Biomedicines | 10.3390/biomedicines9070835 | 2021 | | |
| Alteration of microbiota antibody-mediated immune selection contributes to dysbiosis in inflammatory bowel diseases. | Michaud E, Waeckel L, Gayet R, Goguyer-Deschaumes R, Chanut B, Jospin F, Bathany K, Monnoye M, Genet C, Prier A, Tokarski C, Gerard P, Roblin X, Rochereau N, Paul S. | EMBO Mol Med | 10.15252/emmm.202115386 | 2022 | | |
| H. pylori Eradication Treatment Alters Gut Microbiota and GLP-1 Secretion in Humans. | Cornejo-Pareja I, Martin-Nunez GM, Roca-Rodriguez MM, Cardona F, Coin-Araguez L, Sanchez-Alcoholado L, Gutierrez-Repiso C, Munoz-Garach A, Fernandez-Garcia JC, Moreno-Indias I, Tinahones FJ. | J Clin Med | 10.3390/jcm8040451 | 2019 | | |
| SARS-CoV-2 infection in nonhuman primates alters the composition and functional activity of the gut microbiota. | Sokol H, Contreras V, Maisonnasse P, Desmons A, Delache B, Sencio V, Machelart A, Brisebarre A, Humbert L, Deryuter L, Gauliard E, Heumel S, Rainteau D, Dereuddre-Bosquet N, Menu E, Ho Tsong Fang R, Lamaziere A, Brot L, Wahl C, Oeuvray C, Rolhion N, Van Der Werf S, Ferreira S, Le Grand R, Trottein F. | Gut Microbes | 10.1080/19490976.2021.1893113 | 2021 | | |
| Pathogenicity | Eukaryotic and Prokaryotic Microbiota Interactions. | Kodio A, Menu E, Ranque S. | Microorganisms | 10.3390/microorganisms8122018 | 2020 | |
| Pathogenicity | Multi-targeted properties of the probiotic saccharomyces cerevisiae CNCM I-3856 against enterotoxigenic escherichia coli (ETEC) H10407 pathogenesis across human gut models. | Roussel C, De Paepe K, Galia W, de Bodt J, Chalancon S, Denis S, Leriche F, Vandekerkove P, Ballet N, Blanquet-Diot S, Van de Wiele T. | Gut Microbes | 10.1080/19490976.2021.1953246 | 2021 | |
| Bacteroides thetaiotaomicron-derived outer membrane vesicles promote regulatory dendritic cell responses in health but not in inflammatory bowel disease. | Durant L, Stentz R, Noble A, Brooks J, Gicheva N, Reddi D, O'Connor MJ, Hoyles L, McCartney AL, Man R, Pring ET, Dilke S, Hendy P, Segal JP, Lim DNF, Misra R, Hart AL, Arebi N, Carding SR, Knight SC. | Microbiome | 10.1186/s40168-020-00868-z | 2020 | | |
| Enzymology | WMGHMDA: a novel weighted meta-graph-based model for predicting human microbe-disease association on heterogeneous information network. | Long Y, Luo J. | BMC Bioinformatics | 10.1186/s12859-019-3066-0 | 2019 | |
| Metabolism | Sialyllactose and Galactooligosaccharides Promote Epithelial Barrier Functioning and Distinctly Modulate Microbiota Composition and Short Chain Fatty Acid Production In Vitro. | Perdijk O, van Baarlen P, Fernandez-Gutierrez MM, van den Brink E, Schuren FHJ, Brugman S, Savelkoul HFJ, Kleerebezem M, van Neerven RJJ. | Front Immunol | 10.3389/fimmu.2019.00094 | 2019 | |
| Perinatal environment shapes microbiota colonization and infant growth: impact on host response and intestinal function. | Selma-Royo M, Calatayud Arroyo M, Garcia-Mantrana I, Parra-Llorca A, Escuriet R, Martinez-Costa C, Collado MC. | Microbiome | 10.1186/s40168-020-00940-8 | 2020 | | |
| Deficient Resident Memory T Cell and CD8 T Cell Response to Commensals in Inflammatory Bowel Disease. | Noble A, Durant L, Hoyles L, Mccartney AL, Man R, Segal J, Costello SP, Hendy P, Reddi D, Bouri S, Lim DNF, Pring T, O'Connor MJ, Datt P, Wilson A, Arebi N, Akbar A, Hart AL, Carding SR, Knight SC. | J Crohns Colitis | 10.1093/ecco-jcc/jjz175 | 2020 | | |
| Gut microbial beta-glucuronidases regulate host luminal proteases and are depleted in irritable bowel syndrome. | Edwinson AL, Yang L, Peters S, Hanning N, Jeraldo P, Jagtap P, Simpson JB, Yang TY, Kumar P, Mehta S, Nair A, Breen-Lyles M, Chikkamenahalli L, Graham RP, De Winter B, Patel R, Dasari S, Kashyap P, Griffin T, Chen J, Farrugia G, Redinbo MR, Grover M. | Nat Microbiol | 10.1038/s41564-022-01103-1 | 2022 | | |
| Associations between dysbiosis-inducing drugs, overall survival and tumor response in patients treated with immune checkpoint inhibitors. | Gaucher L, Adda L, Sejourne A, Joachim C, Guillaume C, Poulet C, Liabeuf S, Gras-Champel V, Masmoudi K, Houessinon A, Bennis Y, Batteux B. | Ther Adv Med Oncol | 10.1177/17588359211000591 | 2021 | | |
| Metabolism | Microbial composition and in vitro fermentation patterns of human milk oligosaccharides and prebiotics differ between formula-fed and sow-reared piglets. | Li M, Bauer LL, Chen X, Wang M, Kuhlenschmidt TB, Kuhlenschmidt MS, Fahey GC, Donovan SM. | J Nutr | 10.3945/jn.111.154427 | 2012 | |
| The gut microbiome modulates the protective association between a Mediterranean diet and cardiometabolic disease risk. | Wang DD, Nguyen LH, Li Y, Yan Y, Ma W, Rinott E, Ivey KL, Shai I, Willett WC, Hu FB, Rimm EB, Stampfer MJ, Chan AT, Huttenhower C. | Nat Med | 10.1038/s41591-020-01223-3 | 2021 | | |
| Phylogeny | A Combined LC-MS Metabolomics- and 16S rRNA Sequencing Platform to Assess Interactions between Herbal Medicinal Products and Human Gut Bacteria in Vitro: a Pilot Study on Willow Bark Extract. | Pferschy-Wenzig EM, Koskinen K, Moissl-Eichinger C, Bauer R. | Front Pharmacol | 10.3389/fphar.2017.00893 | 2017 | |
| Microbiota assembly, structure, and dynamics among Tsimane horticulturalists of the Bolivian Amazon. | Sprockett DD, Martin M, Costello EK, Burns AR, Holmes SP, Gurven MD, Relman DA. | Nat Commun | 10.1038/s41467-020-17541-6 | 2020 | | |
| Anaerobes and bacterial vaginosis in pregnancy: virulence factors contributing to vaginal colonisation. | Africa CW, Nel J, Stemmet M. | Int J Environ Res Public Health | 10.3390/ijerph110706979 | 2014 | | |
| Pathogenicity | Immune checkpoint blockade reprograms systemic immune landscape and tumor microenvironment in obesity-associated breast cancer. | Pingili AK, Chaib M, Sipe LM, Miller EJ, Teng B, Sharma R, Yarbro JR, Asemota S, Al Abdallah Q, Mims TS, Marion TN, Daria D, Sekhri R, Hamilton AM, Troester MA, Jo H, Choi HY, Hayes DN, Cook KL, Narayanan R, Pierre JF, Makowski L. | Cell Rep | 10.1016/j.celrep.2021.109285 | 2021 | |
| Metabolism | Nucleoid Size Scaling and Intracellular Organization of Translation across Bacteria. | Gray WT, Govers SK, Xiang Y, Parry BR, Campos M, Kim S, Jacobs-Wagner C. | Cell | 10.1016/j.cell.2019.05.017 | 2019 | |
| Genetics | Gut-derived Enterococcus faecium from ulcerative colitis patients promotes colitis in a genetically susceptible mouse host. | Seishima J, Iida N, Kitamura K, Yutani M, Wang Z, Seki A, Yamashita T, Sakai Y, Honda M, Yamashita T, Kagaya T, Shirota Y, Fujinaga Y, Mizukoshi E, Kaneko S. | Genome Biol | 10.1186/s13059-019-1879-9 | 2019 | |
| Pathogenicity | Colonizing multidrug-resistant bacteria and the longitudinal evolution of the intestinal microbiome after liver transplantation. | Annavajhala MK, Gomez-Simmonds A, Macesic N, Sullivan SB, Kress A, Khan SD, Giddins MJ, Stump S, Kim GI, Narain R, Verna EC, Uhlemann AC. | Nat Commun | 10.1038/s41467-019-12633-4 | 2019 | |
| Metabolism | Biomarkers for immunotherapy for treatment of glioblastoma. | Lynes JP, Nwankwo AK, Sur HP, Sanchez VE, Sarpong KA, Ariyo OI, Dominah GA, Nduom EK. | J Immunother Cancer | 10.1136/jitc-2019-000348 | 2020 | |
| Metabolism | Metabolism of Oxo-Bile Acids and Characterization of Recombinant 12alpha-Hydroxysteroid Dehydrogenases from Bile Acid 7alpha-Dehydroxylating Human Gut Bacteria. | Doden H, Sallam LA, Devendran S, Ly L, Doden G, Daniel SL, Alves JMP, Ridlon JM. | Appl Environ Microbiol | 10.1128/aem.00235-18 | 2018 | |
| Metabolism | The mechanism of enterohepatic circulation in the formation of gallstone disease. | Cai JS, Chen JH. | J Membr Biol | 10.1007/s00232-014-9715-3 | 2014 | |
| Pathogenicity | Reduced diversity and altered composition of the gut microbiome in individuals with myalgic encephalomyelitis/chronic fatigue syndrome. | Giloteaux L, Goodrich JK, Walters WA, Levine SM, Ley RE, Hanson MR. | Microbiome | 10.1186/s40168-016-0171-4 | 2016 | |
| Enzymology | Gut mucosal microbiome across stages of colorectal carcinogenesis. | Nakatsu G, Li X, Zhou H, Sheng J, Wong SH, Wu WK, Ng SC, Tsoi H, Dong Y, Zhang N, He Y, Kang Q, Cao L, Wang K, Zhang J, Liang Q, Yu J, Sung JJ. | Nat Commun | 10.1038/ncomms9727 | 2015 | |
| Microbial Community Profiling Distinguishes Left-Sided and Right-Sided Colon Cancer. | Zhong M, Xiong Y, Ye Z, Zhao J, Zhong L, Liu Y, Zhu Y, Tian L, Qiu X, Hong X. | Front Cell Infect Microbiol | 10.3389/fcimb.2020.498502 | 2020 | | |
| Long-term temporal analysis of the human fecal microbiota revealed a stable core of dominant bacterial species. | Martinez I, Muller CE, Walter J. | PLoS One | 10.1371/journal.pone.0069621 | 2013 | | |
| NSCLC Biomarkers to Predict Response to Immunotherapy with Checkpoint Inhibitors (ICI): From the Cells to In Vivo Images. | Liberini V, Mariniello A, Righi L, Capozza M, Delcuratolo MD, Terreno E, Farsad M, Volante M, Novello S, Deandreis D. | Cancers (Basel) | 10.3390/cancers13184543 | 2021 | | |
| A Pleiotropic Missense Variant in SLC39A8 Is Associated With Crohn's Disease and Human Gut Microbiome Composition. | Li D, Achkar JP, Haritunians T, Jacobs JP, Hui KY, D'Amato M, Brand S, Radford-Smith G, Halfvarson J, Niess JH, Kugathasan S, Buning C, Schumm LP, Klei L, Ananthakrishnan A, Aumais G, Baidoo L, Dubinsky M, Fiocchi C, Glas J, Milgrom R, Proctor DD, Regueiro M, Simms LA, Stempak JM, Targan SR, Torkvist L, Sharma Y, Devlin B, Borneman J, Hakonarson H, Xavier RJ, Daly M, Brant SR, Rioux JD, Silverberg MS, Cho JH, Braun J, McGovern DP, Duerr RH. | Gastroenterology | 10.1053/j.gastro.2016.06.051 | 2016 | | |
| Genetics | Baseline human gut microbiota profile in healthy people and standard reporting template. | King CH, Desai H, Sylvetsky AC, LoTempio J, Ayanyan S, Carrie J, Crandall KA, Fochtman BC, Gasparyan L, Gulzar N, Howell P, Issa N, Krampis K, Mishra L, Morizono H, Pisegna JR, Rao S, Ren Y, Simonyan V, Smith K, VedBrat S, Yao MD, Mazumder R. | PLoS One | 10.1371/journal.pone.0206484 | 2019 | |
| The Role of Dysbiosis in Critically Ill Patients With COVID-19 and Acute Respiratory Distress Syndrome. | Battaglini D, Robba C, Fedele A, Tranca S, Sukkar SG, Di Pilato V, Bassetti M, Giacobbe DR, Vena A, Patroniti N, Ball L, Brunetti I, Torres Marti A, Rocco PRM, Pelosi P. | Front Med (Lausanne) | 10.3389/fmed.2021.671714 | 2021 | | |
| Metabolism | Design of synthetic human gut microbiome assembly and butyrate production. | Clark RL, Connors BM, Stevenson DM, Hromada SE, Hamilton JJ, Amador-Noguez D, Venturelli OS. | Nat Commun | 10.1038/s41467-021-22938-y | 2021 | |
| Quantification of Slackia and Eggerthella spp. in Human Feces and Adhesion of Representatives Strains to Caco-2 Cells. | Cho GS, Ritzmann F, Eckstein M, Huch M, Briviba K, Behsnilian D, Neve H, Franz CM. | Front Microbiol | 10.3389/fmicb.2016.00658 | 2016 | | |
| Metabolism | Interactions between Roseburia intestinalis and diet modulate atherogenesis in a murine model. | Kasahara K, Krautkramer KA, Org E, Romano KA, Kerby RL, Vivas EI, Mehrabian M, Denu JM, Backhed F, Lusis AJ, Rey FE. | Nat Microbiol | 10.1038/s41564-018-0272-x | 2018 | |
| Overgrowth of the indigenous gut microbiome and irritable bowel syndrome. | Bye W, Ishaq N, Bolin TD, Duncombe VM, Riordan SM. | World J Gastroenterol | 10.3748/wjg.v20.i10.2449 | 2014 | | |
| Pathogenicity | Alterations of gut microbiome accelerate multiple myeloma progression by increasing the relative abundances of nitrogen-recycling bacteria. | Jian X, Zhu Y, Ouyang J, Wang Y, Lei Q, Xia J, Guan Y, Zhang J, Guo J, He Y, Wang J, Li J, Lin J, Su M, Li G, Wu M, Qiu L, Xiang J, Xie L, Jia W, Zhou W, Zhou W. | Microbiome | 10.1186/s40168-020-00854-5 | 2020 | |
| Phylogeny | Effect of high contents of dietary animal-derived protein or carbohydrates on canine faecal microbiota. | Hang I, Rinttila T, Zentek J, Kettunen A, Alaja S, Apajalahti J, Harmoinen J, de Vos WM, Spillmann T. | BMC Vet Res | 10.1186/1746-6148-8-90 | 2012 | |
| Phylogeny | Evolution of the gut microbiome following acute HIV-1 infection. | Rocafort M, Noguera-Julian M, Rivera J, Pastor L, Guillen Y, Langhorst J, Parera M, Mandomando I, Carrillo J, Urrea V, Rodriguez C, Casadella M, Calle ML, Clotet B, Blanco J, Naniche D, Paredes R. | Microbiome | 10.1186/s40168-019-0687-5 | 2019 | |
| Genetics | Metagenomic analysis of mother-infant gut microbiome reveals global distinct and shared microbial signatures. | Wang S, Zeng S, Egan M, Cherry P, Strain C, Morais E, Boyaval P, Ryan CA, M Dempsey E, Ross RP, Stanton C. | Gut Microbes | 10.1080/19490976.2021.1911571 | 2021 | |
| Pathogenicity | Strategies to Dissect Host-Microbial Immune Interactions That Determine Mucosal Homeostasis vs. Intestinal Inflammation in Gnotobiotic Mice. | Rogala AR, Oka A, Sartor RB. | Front Immunol | 10.3389/fimmu.2020.00214 | 2020 | |
| Basal Diet Determined Long-Term Composition of the Gut Microbiome and Mouse Phenotype to a Greater Extent than Fecal Microbiome Transfer from Lean or Obese Human Donors. | Rodriguez DM, Benninghoff AD, Aardema NDJ, Phatak S, Hintze KJ. | Nutrients | 10.3390/nu11071630 | 2019 | | |
| Enzymology | State of the Art in the Culture of the Human Microbiota: New Interests and Strategies. | Tidjani Alou M, Naud S, Khelaifia S, Bonnet M, Lagier JC, Raoult D. | Clin Microbiol Rev | 10.1128/cmr.00129-19 | 2020 | |
| Metabolism | Alternative spermidine biosynthetic route is critical for growth of Campylobacter jejuni and is the dominant polyamine pathway in human gut microbiota. | Hanfrey CC, Pearson BM, Hazeldine S, Lee J, Gaskin DJ, Woster PM, Phillips MA, Michael AJ. | J Biol Chem | 10.1074/jbc.m111.307835 | 2011 | |
| Pathogenicity | In vitro activities of daptomycin, vancomycin, quinupristin- dalfopristin, linezolid, and five other antimicrobials against 307 gram-positive anaerobic and 31 Corynebacterium clinical isolates. | Goldstein EJ, Citron DM, Merriam CV, Warren YA, Tyrrell KL, Fernandez HT. | Antimicrob Agents Chemother | 10.1128/aac.47.1.337-341.2003 | 2003 | |
| Metabolism | The human gut Firmicute Roseburia intestinalis is a primary degrader of dietary beta-mannans. | La Rosa SL, Leth ML, Michalak L, Hansen ME, Pudlo NA, Glowacki R, Pereira G, Workman CT, Arntzen MO, Pope PB, Martens EC, Hachem MA, Westereng B. | Nat Commun | 10.1038/s41467-019-08812-y | 2019 | |
| Negative interactions determine Clostridioides difficile growth in synthetic human gut communities. | Hromada S, Qian Y, Jacobson TB, Clark RL, Watson L, Safdar N, Amador-Noguez D, Venturelli OS. | Mol Syst Biol | 10.15252/msb.202110355 | 2021 | | |
| Immunoglobulin A coating identifies colitogenic bacteria in inflammatory bowel disease. | Palm NW, de Zoete MR, Cullen TW, Barry NA, Stefanowski J, Hao L, Degnan PH, Hu J, Peter I, Zhang W, Ruggiero E, Cho JH, Goodman AL, Flavell RA. | Cell | 10.1016/j.cell.2014.08.006 | 2014 | | |
| Evaluation of Sialyllactose Supplementation of a Prebiotic-Containing Formula on Growth, Intestinal Development, and Bacterial Colonization in the Neonatal Piglet. | Monaco MH, Wang M, Pan X, Li Q, Richards JD, Chichlowski M, Berg BM, Dilger RN, Donovan SM. | Curr Dev Nutr | 10.1093/cdn/nzy067 | 2018 | | |
| Pathogenicity | Effects of probiotics and antibiotics on the intestinal homeostasis in a computer controlled model of the large intestine. | Rehman A, Heinsen FA, Koenen ME, Venema K, Knecht H, Hellmig S, Schreiber S, Ott SJ. | BMC Microbiol | 10.1186/1471-2180-12-47 | 2012 | |
| Insight into the prebiotic concept: lessons from an exploratory, double blind intervention study with inulin-type fructans in obese women. | Dewulf EM, Cani PD, Claus SP, Fuentes S, Puylaert PG, Neyrinck AM, Bindels LB, de Vos WM, Gibson GR, Thissen JP, Delzenne NM. | Gut | 10.1136/gutjnl-2012-303304 | 2013 | | |
| Extensive set of 16S rRNA-based probes for detection of bacteria in human feces. | Harmsen HJ, Raangs GC, He T, Degener JE, Welling GW. | Appl Environ Microbiol | 10.1128/aem.68.6.2982-2990.2002 | 2002 | | |
| The Association Between Intestinal Bacteria and Allergic Diseases-Cause or Consequence? | Han P, Gu JQ, Li LS, Wang XY, Wang HT, Wang Y, Chang C, Sun JL. | Front Cell Infect Microbiol | 10.3389/fcimb.2021.650893 | 2021 | | |
| Phylogeny | Direct analysis of genes encoding 16S rRNA from complex communities reveals many novel molecular species within the human gut. | Suau A, Bonnet R, Sutren M, Godon JJ, Gibson GR, Collins MD, Dore J. | Appl Environ Microbiol | 10.1128/aem.65.11.4799-4807.1999 | 1999 | |
| Genetics | Micronutrient Requirements and Sharing Capabilities of the Human Gut Microbiome. | Rodionov DA, Arzamasov AA, Khoroshkin MS, Iablokov SN, Leyn SA, Peterson SN, Novichkov PS, Osterman AL. | Front Microbiol | 10.3389/fmicb.2019.01316 | 2019 | |
| Phylogeny | A collection of bacterial isolates from the pig intestine reveals functional and taxonomic diversity. | Wylensek D, Hitch TCA, Riedel T, Afrizal A, Kumar N, Wortmann E, Liu T, Devendran S, Lesker TR, Hernandez SB, Heine V, Buhl EM, M D'Agostino P, Cumbo F, Fischoder T, Wyschkon M, Looft T, Parreira VR, Abt B, Doden HL, Ly L, Alves JMP, Reichlin M, Flisikowski K, Suarez LN, Neumann AP, Suen G, de Wouters T, Rohn S, Lagkouvardos I, Allen-Vercoe E, Sproer C, Bunk B, Taverne-Thiele AJ, Giesbers M, Wells JM, Neuhaus K, Schnieke A, Cava F, Segata N, Elling L, Strowig T, Ridlon JM, Gulder TAM, Overmann J, Clavel T. | Nat Commun | 10.1038/s41467-020-19929-w | 2020 | |
| Metabolism | Microbial exposure during early human development primes fetal immune cells. | Mishra A, Lai GC, Yao LJ, Aung TT, Shental N, Rotter-Maskowitz A, Shepherdson E, Singh GSN, Pai R, Shanti A, Wong RMM, Lee A, Khyriem C, Dutertre CA, Chakarov S, Srinivasan KG, Shadan NB, Zhang XM, Khalilnezhad S, Cottier F, Tan ASM, Low G, Chen P, Fan Y, Hor PX, Lee AKM, Choolani M, Vermijlen D, Sharma A, Fuks G, Straussman R, Pavelka N, Malleret B, McGovern N, Albani S, Chan JKY, Ginhoux F. | Cell | 10.1016/j.cell.2021.04.039 | 2021 | |
| The challenges of checkpoint inhibition in the treatment of multiple myeloma. | Paul B, Kang S, Zheng Z, Kang Y. | Cell Immunol | 10.1016/j.cellimm.2018.10.003 | 2018 | | |
| Pathogenicity | In vitro susceptibility testing of Dientamoeba fragilis. | Nagata N, Marriott D, Harkness J, Ellis JT, Stark D. | Antimicrob Agents Chemother | 10.1128/aac.05125-11 | 2012 | |
| The genome sequence of Bifidobacterium longum subsp. infantis reveals adaptations for milk utilization within the infant microbiome. | Sela DA, Chapman J, Adeuya A, Kim JH, Chen F, Whitehead TR, Lapidus A, Rokhsar DS, Lebrilla CB, German JB, Price NP, Richardson PM, Mills DA. | Proc Natl Acad Sci U S A | 10.1073/pnas.0809584105 | 2008 | | |
| Metabolism | A novel type of peptidoglycan-binding domain highly specific for amidated D-Asp cross-bridge, identified in Lactobacillus casei bacteriophage endolysins. | Regulski K, Courtin P, Kulakauskas S, Chapot-Chartier MP. | J Biol Chem | 10.1074/jbc.m112.446344 | 2013 | |
| Pathogenicity | Barcoded pyrosequencing reveals that consumption of galactooligosaccharides results in a highly specific bifidogenic response in humans. | Davis LM, Martinez I, Walter J, Goin C, Hutkins RW. | PLoS One | 10.1371/journal.pone.0025200 | 2011 | |
| Phylogeny | Microbial community analysis reveals high level phylogenetic alterations in the overall gastrointestinal microbiota of diarrhoea-predominant irritable bowel syndrome sufferers. | Krogius-Kurikka L, Lyra A, Malinen E, Aarnikunnas J, Tuimala J, Paulin L, Makivuokko H, Kajander K, Palva A. | BMC Gastroenterol | 10.1186/1471-230x-9-95 | 2009 | |
| Identifying gut microbe-host phenotype relationships using combinatorial communities in gnotobiotic mice. | Faith JJ, Ahern PP, Ridaura VK, Cheng J, Gordon JI. | Sci Transl Med | 10.1126/scitranslmed.3008051 | 2014 | | |
| Fecal microbiota and metabolome of children with autism and pervasive developmental disorder not otherwise specified. | De Angelis M, Piccolo M, Vannini L, Siragusa S, De Giacomo A, Serrazzanetti DI, Cristofori F, Guerzoni ME, Gobbetti M, Francavilla R. | PLoS One | 10.1371/journal.pone.0076993 | 2013 | | |
| Phylogeny | Microbiome as an Immunological Modifier. | Kumar M, Singh P, Murugesan S, Vetizou M, McCulloch J, Badger JH, Trinchieri G, Al Khodor S. | Methods Mol Biol | 10.1007/978-1-4939-9773-2_27 | 2020 | |
| Early-Life Events, Including Mode of Delivery and Type of Feeding, Siblings and Gender, Shape the Developing Gut Microbiota. | Martin R, Makino H, Cetinyurek Yavuz A, Ben-Amor K, Roelofs M, Ishikawa E, Kubota H, Swinkels S, Sakai T, Oishi K, Kushiro A, Knol J. | PLoS One | 10.1371/journal.pone.0158498 | 2016 | | |
| Study of the viral and microbial communities associated with Crohn's disease: a metagenomic approach. | Perez-Brocal V, Garcia-Lopez R, Vazquez-Castellanos JF, Nos P, Beltran B, Latorre A, Moya A. | Clin Transl Gastroenterol | 10.1038/ctg.2013.9 | 2013 | | |
| The convergence of carbohydrate active gene repertoires in human gut microbes. | Lozupone CA, Hamady M, Cantarel BL, Coutinho PM, Henrissat B, Gordon JI, Knight R. | Proc Natl Acad Sci U S A | 10.1073/pnas.0807339105 | 2008 | | |
| Phylogeny | Sequence analysis of percent G+C fraction libraries of human faecal bacterial DNA reveals a high number of Actinobacteria. | Krogius-Kurikka L, Kassinen A, Paulin L, Corander J, Makivuokko H, Tuimala J, Palva A. | BMC Microbiol | 10.1186/1471-2180-9-68 | 2009 | |
| Mucosa-associated bacterial diversity in relation to human terminal ileum and colonic biopsy samples. | Ahmed S, Macfarlane GT, Fite A, McBain AJ, Gilbert P, Macfarlane S. | Appl Environ Microbiol | 10.1128/aem.01143-07 | 2007 | | |
| Enzymology | Genome analysis and comparative genomics of a Giardia intestinalis assemblage E isolate. | Jerlstrom-Hultqvist J, Franzen O, Ankarklev J, Xu F, Nohynkova E, Andersson JO, Svard SG, Andersson B. | BMC Genomics | 10.1186/1471-2164-11-543 | 2010 | |
| The impact of a consortium of fermented milk strains on the gut microbiome of gnotobiotic mice and monozygotic twins. | McNulty NP, Yatsunenko T, Hsiao A, Faith JJ, Muegge BD, Goodman AL, Henrissat B, Oozeer R, Cools-Portier S, Gobert G, Chervaux C, Knights D, Lozupone CA, Knight R, Duncan AE, Bain JR, Muehlbauer MJ, Newgard CB, Heath AC, Gordon JI. | Sci Transl Med | 10.1126/scitranslmed.3002701 | 2011 | | |
| Genetics | Comparative metagenomic analysis of plasmid encoded functions in the human gut microbiome. | Jones BV, Sun F, Marchesi JR. | BMC Genomics | 10.1186/1471-2164-11-46 | 2010 | |
| Metabolism | Evolution and multiplicity of arginine decarboxylases in polyamine biosynthesis and essential role in Bacillus subtilis biofilm formation. | Burrell M, Hanfrey CC, Murray EJ, Stanley-Wall NR, Michael AJ. | J Biol Chem | 10.1074/jbc.m110.163154 | 2010 | |
| Immuno-Oncology: Emerging Targets and Combination Therapies. | Marshall HT, Djamgoz MBA. | Front Oncol | 10.3389/fonc.2018.00315 | 2018 | | |
| The first 1000 cultured species of the human gastrointestinal microbiota. | Rajilic-Stojanovic M, de Vos WM. | FEMS Microbiol Rev | 10.1111/1574-6976.12075 | 2014 | | |
| Metabolism | Effects of diet on resource utilization by a model human gut microbiota containing Bacteroides cellulosilyticus WH2, a symbiont with an extensive glycobiome. | McNulty NP, Wu M, Erickson AR, Pan C, Erickson BK, Martens EC, Pudlo NA, Muegge BD, Henrissat B, Hettich RL, Gordon JI. | PLoS Biol | 10.1371/journal.pbio.1001637 | 2013 | |
| Application of sequence-dependent electrophoresis fingerprinting in exploring biodiversity and population dynamics of human intestinal microbiota: what can be revealed? | Huys G, Vanhoutte T, Vandamme P. | Interdiscip Perspect Infect Dis | 10.1155/2008/597603 | 2008 | | |
| Genetics | Complete Genome Sequence of Collinsella aerofaciens JCM 10188(T). | Tourlousse DM, Sakamoto M, Miura T, Narita K, Ohashi A, Uchino Y, Yamazoe A, Kameyama K, Terauchi J, Ohkuma M, Kawasaki H, Sekiguchi Y | Microbiol Resour Announc | 10.1128/MRA.00134-20 | 2020 | |
| Phylogeny | Characterization a Novel Butyric Acid-Producing Bacterium Collinsella aerofaciens Subsp. Shenzhenensis Subsp. Nov. | Qin P, Zou Y, Dai Y, Luo G, Zhang X, Xiao L | Microorganisms | 10.3390/microorganisms7030078 | 2019 | |
| Enzymology | Identification, cloning, heterologous expression, and characterization of a NADPH-dependent 7beta-hydroxysteroid dehydrogenase from Collinsella aerofaciens. | Liu L, Aigner A, Schmid RD | Appl Microbiol Biotechnol | 10.1007/s00253-010-3052-y | 2010 | |
| Phylogeny | Phylogenetic and phenotypic evidence for the transfer of Eubacterium aerofaciens to the genus Collinsella as Collinsella aerofaciens gen. nov., comb. nov. | Kageyama A, Benno Y, Nakase T | Int J Syst Bacteriol | 10.1099/00207713-49-2-557 | 1999 | |
| Enzymology | Characterization of NADP-dependent 7 beta-hydroxysteroid dehydrogenases from Peptostreptococcus productus and Eubacterium aerofaciens. | Hirano S, Masuda N | Appl Environ Microbiol | 10.1128/aem.43.5.1057-1063.1982 | 1982 | |
| "Collinsella bouchesdurhonensis" sp. nov., identified in human stool sample. | Bilen M, Cadoret F, Daoud Z, Fournier PE, Raoult D. | New Microbes New Infect | 10.1016/j.nmni.2016.11.004 | 2017 | | |
| Genetics | Non contiguous-finished genome sequence and description of Enorma massiliensis gen. nov., sp. nov., a new member of the Family Coriobacteriaceae. | Mishra AK, Hugon P, Lagier JC, Nguyen TT, Couderc C, Raoult D, Fournier PE. | Stand Genomic Sci | 10.4056/sigs.3426906 | 2013 | |
| Genetics | Non contiguous-finished genome sequence and description of Enorma timonensis sp. nov. | Ramasamy D, Dubourg G, Robert C, Caputo A, Papazian L, Raoult D, Fournier PE. | Stand Genomic Sci | 10.4056/sigs.4878632 | 2014 | |
| Genetics | Non-contiguous finished genome sequence and description of Collinsella massiliensis sp. nov. | Padmanabhan R, Dubourg G, Jean-Christophe lagier, Nguyen TT, Couderc C, Rossi-Tamisier M, Caputo A, Raoult D, Fournier PE. | Stand Genomic Sci | 10.4056/sigs.5399696 | 2014 | |
| Collinsella acetigenes sp. nov., an Anaerobic Actinobacterium Isolated from Human Feces, and Emended Description of the Genus Collinsella and Collinsella aerofaciens. | Han KI, Kim JS, Eom MK, Lee KC, Suh MK, Kim HS, Park SH, Lee JH, Kang SW, Park JE, Oh BS, Ryu SW, Yu SY, Choi SH, Lee DH, Yoon H, Kim BY, Lee JH, Lee JS. | Curr Microbiol | 10.1007/s00284-021-02625-3 | 2021 | | |
| Phylogeny | Genomic and phenotypic description of the newly isolated human species Collinsella bouchesdurhonensis sp. nov. | Bilen M, Beye M, Mbogning Fonkou MD, Khelaifia S, Cadoret F, Armstrong N, Nguyen TT, Delerce J, Daoud Z, Raoult D, Fournier PE. | Microbiologyopen | 10.1002/mbo3.580 | 2018 | |
| Phylogeny | Emendation of genus Collinsella and proposal of Collinsella stercoris sp. nov. and Collinsella intestinalis sp. nov. | Kageyama A, Benno Y. | Int J Syst Evol Microbiol | 10.1099/00207713-50-5-1767 | 2000 | |
How to citeIf you want to cite this particular strain cite the following doi:
https://doi.org/10.13145/bacdive3044.20251217.10
When using BacDive for research please cite the following paper
BacDive in 2025: the core database for prokaryotic strain data
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