Ruthenibacterium lactatiformans (DSM 100348, VKM B-2901, 585-1)
BacDive ID
132588
Type strain
Strain Designation
585-1
NCBI tax ID(s)
1550024
Special Collections
DSMZ
Literature strains
History
DSMZ <- V. Shcherbakova, Russian Academy of Sciences, Inst. of Biochem. and Physiology, Moscow, Russia; 585-1 <- B.A. Efimov, Russian Natl. Res. Med. Univ., Moscow
Links
Ruthenibacterium lactatiformans 585-1 is an obligate anaerobe, chemoorganoheterotroph, Gram-negative bacterium that forms circular colonies and was isolated from faeces of healthy men.
Gram-negative rod-shaped colony-forming obligate anaerobe chemoorganoheterotroph genome sequence 16S sequence BacteriaName and taxonomic classification
| @ref 20215 |
|
Last LPSN update
2026-05-29 08:37:53 |
| Domain Bacteria |
| Phylum Bacillota |
| Class Clostridia |
| Order Eubacteriales |
| Family Oscillospiraceae |
| Genus Ruthenibacterium |
| Species Ruthenibacterium lactatiformans |
| Full scientific name Ruthenibacterium lactatiformans Shkoporov et al. 2016 |
| BacDive ID | Other strains from Ruthenibacterium lactatiformans (1) | Type strain |
|---|---|---|
| 159622 | R. lactatiformans WCA3-601-WT-6J, DSM 105274 |
Culture and growth conditions
Culture medium
| @ref | Name | Growth | Medium link | Composition | |
|---|---|---|---|---|---|
| 43087 | EG blood agar | ||||
| 43087 | MRS broth | ||||
| 24377 | PYG MEDIUM (MODIFIED) (DSMZ Medium 104) | Medium recipe at MediaDive  | Name: PYG MEDIUM (modified) (DSMZ Medium 104) Composition: Yeast extract 10.0 g/l Peptone 5.0 g/l Trypticase peptone 5.0 g/l Beef extract 5.0 g/l Glucose 5.0 g/l L-Cysteine HCl x H2O 0.5 g/l NaHCO3 0.4 g/l NaCl 0.08 g/l K2HPO4 0.04 g/l KH2PO4 0.04 g/l MgSO4 x 7 H2O 0.02 g/l CaCl2 x 2 H2O 0.01 g/l Hemin 0.005 g/l Ethanol 0.0038 g/l Resazurin 0.001 g/l Tween 80 Vitamin K1 NaOH Distilled water | ||
| 24377 | RUMEN BACTERIA MEDIUM (DSMZ Medium 330) | Medium recipe at MediaDive | Name: RUMEN BACTERIA MEDIUM (DSMZ Medium 330) Composition: Na2CO3 4.0 g/l Trypticase peptone 2.0 g/l D-Glucose 0.5 g/l Yeast extract 0.5 g/l Maltose 0.5 g/l Cellobiose 0.5 g/l Starch 0.5 g/l Glycerol 0.5 g/l NaCl 0.456 g/l K2HPO4 0.3 g/l L-Cysteine HCl x H2O 0.25 g/l Na2S x 9 H2O 0.25 g/l (NH4)2SO4 0.228 g/l KH2PO4 0.228 g/l MgSO4 x 7 H2O 0.095 g/l CaCl2 x 2 H2O 0.0608 g/l Hemin 0.001 g/l Sodium resazurin 0.0005 g/l NaOH None Distilled water |
Physiology and metabolism
Nutrition type
| 43087 | Typechemoorganoheterotroph |
Spore formation
| @ref | Type of spore | Spore formation | |
|---|---|---|---|
| 43087 | spore |
Metabolite utilization
| @ref | Chebi-ID | Metabolite | Utilization activity | Kind of utilization tested | |
|---|---|---|---|---|---|
| 68380 | 29016 ChEBI | arginine | - | hydrolysis | from API rID32A |
| 43087 | 12936 ChEBI | D-galactose | + | builds acid from | |
| 43087 | 17634 ChEBI | D-glucose | + | builds acid from | |
| 43087 | 16899 ChEBI | D-mannitol | - | builds acid from | |
| 68380 | 16024 ChEBI | D-mannose | - | fermentation | from API rID32A |
| 43087 | 4853 ChEBI | esculin | + | hydrolysis | |
| 43087 | 5291 ChEBI | gelatin | - | degradation | |
| 43087 | 30849 ChEBI | L-arabinose | - | builds acid from | |
| 68380 | 29985 ChEBI | L-glutamate | - | degradation | from API rID32A |
| 43087 | 62345 ChEBI | L-rhamnose | + | builds acid from | |
| 43087 | 17716 ChEBI | lactose | - | builds acid from | |
| 43087 | 17306 ChEBI | maltose | + | builds acid from | |
| 68380 | 17632 ChEBI | nitrate | - | reduction | from API rID32A |
| 43087 | 16634 ChEBI | raffinose | - | builds acid from | |
| 68380 | 16634 ChEBI | raffinose | - | fermentation | from API rID32A |
| 43087 | 15963 ChEBI | ribitol | - | builds acid from | |
| 43087 | 17814 ChEBI | salicin | + | builds acid from | |
| 43087 | 28017 ChEBI | starch | + | hydrolysis | |
| 43087 | 27082 ChEBI | trehalose | - | builds acid from | |
| 68380 | 27897 ChEBI | tryptophan | - | energy source | from API rID32A |
| 68380 | 16199 ChEBI | urea | - | hydrolysis | from API rID32A |
Antibiotic resistance
Metabolite production
Metabolite tests
| @ref | Chebi-ID | Metabolite | Indole test | |
|---|---|---|---|---|
| 68380 | 35581 ChEBI | indole | - | from API rID32A |
Enzymes
| @ref | Value | Activity | Ec | |
|---|---|---|---|---|
| 68380 | alanine arylamidase | - | 3.4.11.2 | from API rID32A |
| 68380 | alkaline phosphatase | - | 3.1.3.1 | from API rID32A |
| 43087 | alpha-arabinosidase | - | 3.2.1.55 | |
| 68380 | alpha-arabinosidase | - | 3.2.1.55 | from API rID32A |
| 43087 | alpha-fucosidase | - | 3.2.1.51 | |
| 68380 | alpha-fucosidase | - | 3.2.1.51 | from API rID32A |
| 43087 | alpha-galactosidase | + | 3.2.1.22 | |
| 68380 | alpha-galactosidase | + | 3.2.1.22 | from API rID32A |
| 43087 | alpha-glucosidase | + | 3.2.1.20 | |
| 68380 | alpha-glucosidase | + | 3.2.1.20 | from API rID32A |
| 68380 | arginine dihydrolase | - | 3.5.3.6 | from API rID32A |
| 43087 | beta-galactosidase | + | 3.2.1.23 | |
| 68380 | beta-galactosidase | + | 3.2.1.23 | from API rID32A |
| 68380 | beta-Galactosidase 6-phosphate | - | from API rID32A | |
| 43087 | beta-glucosidase | + | 3.2.1.21 | |
| 68380 | beta-glucosidase | + | 3.2.1.21 | from API rID32A |
| 43087 | beta-glucuronidase | + | 3.2.1.31 | |
| 68380 | beta-glucuronidase | - | 3.2.1.31 | from API rID32A |
| 43087 | catalase | - | 1.11.1.6 | |
| 68380 | glutamate decarboxylase | - | 4.1.1.15 | from API rID32A |
| 68380 | glutamyl-glutamate arylamidase | - | from API rID32A | |
| 68380 | glycin arylamidase | - | from API rID32A | |
| 68380 | histidine arylamidase | - | from API rID32A | |
| 68380 | L-arginine arylamidase | - | from API rID32A | |
| 68380 | leucine arylamidase | - | 3.4.11.1 | from API rID32A |
| 68380 | leucyl glycin arylamidase | - | 3.4.11.1 | from API rID32A |
| 43087 | N-acetyl-beta-glucosaminidase | + | 3.2.1.52 | |
| 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 | |
| 43087 | urease | - | 3.5.1.5 | |
| 68380 | urease | - | 3.5.1.5 | from API rID32A |
API rID32A
Isolation, sampling and environmental information
Isolation source categories
| Cat1 | Cat2 | Cat3 | |
|---|---|---|---|
| #Infection | #Patient | - | |
| #Host Body Product | #Gastrointestinal tract | #Feces (Stool) | |
| #Host | #Human | #Male |
Isolation
Taxonmaps
Global distribution of 16S sequence KM098109 (>99% sequence identity) for Ruthenibacterium lactatiformans subclade from Microbeatlas 
 Aquatic Samples |
6411 |
 Soil Samples |
1989 |
 Animal Samples |
296291 |
 Plant Samples |
856 |
| Total Samples | 305547 |
Sequence information
Genome sequences
| @ref | Description | Assembly level | INSDC accession | BV-BRC accession | IMG accession | NCBI tax ID | Score | |
|---|---|---|---|---|---|---|---|---|
| 66792 | ASM94945v1 assembly for Ruthenibacterium lactatiformans 585-1 | contig | GCA_000949455   | 1550024.404  | 2630968832  | 1550024 | 54.78 | |
Genome browser: GCA_000949455
16S sequences
| @ref | Description | Accession | Length | Database | NCBI tax ID | |
|---|---|---|---|---|---|---|
| 24377 | Ruthenibacterium lactatiformans strain 585-1 16S ribosomal RNA gene, partial sequence | KM098109 | 1519 |  | 1550024 |
Literature
Literature 
| Topic | Title | Authors | Journal | DOI | Year | |
|---|---|---|---|---|---|---|
| Metabolism | Rational design of a microbial consortium of mucosal sugar utilizers reduces Clostridiodes difficile colonization. | Pereira FC, Wasmund K, Cobankovic I, Jehmlich N, Herbold CW, Lee KS, Lee KS, Sziranyi B, Vesely C, Decker T, Stocker R, Warth B, von Bergen M, Wagner M, Berry D. | Nat Commun | 10.1038/s41467-020-18928-1 | 2020 | |
| Fecal microbiota composition and clinical characteristics of patients with carbapenem-resistant enterobacterales colonization vs. patients with spontaneous decolonization. | Lima O, Perez-Castro S, Davina-Nunez C, Represa M, Rubinan P, Avila-Nunez M, Filgueira A, Portela C, Sopena B, Perez-Rodriguez MT. | Infection | 10.1007/s15010-025-02676-9 | 2025 | | |
| Phylogeny | Evaluation of kefir consumption on gut microbial diversity in a healthy young population using full-length 16S rRNA sequencing. | Choi Y, Keum GB, Kang J, Doo H, Kwak J, Kim H, Chae Y, Lee S, Yang H, Kim S, Sun X, Kim HB, Yoo SJ. | Front Microbiol | 10.3389/fmicb.2025.1587831 | 2025 | |
| Ruthenibacterium lactatiformans isolated from a human blood culture: a first report. | Sumiyoshi S, Hamaguchi S, Kimura K, Negishi K, Ninomiya K, Sasaki M, Kutsuna S. | BMC Infect Dis | 10.1186/s12879-024-09606-4 | 2024 | | |
| Effects of Long-Term Fasting on Gut Microbiota, Serum Metabolome, and Their Association in Male Adults. | Wu F, Guo Y, Wang Y, Sui X, Wang H, Zhang H, Xin B, Yang C, Zhang C, Jiang S, Qu L, Feng Q, Dai Z, Shi C, Li Y. | Nutrients | 10.3390/nu17010035 | 2024 | | |
| The gut microbiome across the cardiovascular risk spectrum. | Prins FM, Collij V, Groot HE, Bjork JR, Swarte JC, Andreu-Sanchez S, Jansen BH, Fu J, Harmsen HJM, Zhernakova A, Lipsic E, van der Harst P, Weersma RK, Gacesa R. | Eur J Prev Cardiol | 10.1093/eurjpc/zwad377 | 2024 | | |
| Disease-modifying therapies used to treat multiple sclerosis and the gut microbiome: a systematic review. | Tsai CC, Jette S, Tremlett H. | J Neurol | 10.1007/s00415-023-12107-0 | 2024 | | |
| Phylogeny | Evaluation of kefir consumption on gut microbial diversity in a healthy young population using full-length 16S rRNA sequencing | Choi Y, Keum G, Kang J, Doo H, Kwak J, Kim H, Chae Y, Lee S, Yang H, Kim S, Sun X, Kim H, Yoo S. | Front Microbiol | 2025 | | |
| Multiomics was used to clarify the mechanism by which air pollutants affect chronic obstructive pulmonary disease: A human cohort study. | Li H, Yang Y, Yang Y, Zhai C, Yao J, Liao W, Wang Y, Wang J, Cao C, Darwish HW, Wu W, Li W, Ge B, Ma Y, Wu H, Wu W, Zhai F. | Toxicology | 10.1016/j.tox.2023.153709 | 2024 | | |
| Metabolism | Combined metagenomic and metabolomic analyses reveal gut microbiota dysbiosis and metabolic dysfunction in pediatric neurodevelopmental disorders. | Wang Q, Luo Y, Mao C, Xiang X, Chen J. | Front Immunol | 10.3389/fimmu.2025.1645137 | 2025 | |
| Oral and gut microbial profiling in periodontitis and Parkinson's disease. | Yay E, Yilmaz M, Toygar H, Balci N, Alvarez Rivas C, Bolluk Kilic B, Zirh A, Paster BJ, Kantarci A. | J Oral Microbiol | 10.1080/20002297.2024.2331264 | 2024 | | |
| Genetics | Structural and functional characterization of gut microbiota in dyslipidemic patients from high-altitude Tibetan pastoral areas. | Chen J, Luo Y, Hao Y, Wang Q, Wang Q. | Front Nutr | 10.3389/fnut.2025.1676238 | 2025 | |
| Metagenome-based characterization of the gut virome in patients with schizophrenia | Ren Y, Zhang P, Yu H, Li S, Jiang H. | J Transl Med | 2025 | | ||
| Gut microbiome changes and cancer immunotherapy outcomes associated with dietary interventions: a systematic review of preclinical and clinical evidence. | Somodi C, Dora D, Horvath M, Szegvari G, Lohinai Z. | J Transl Med | 10.1186/s12967-025-06586-0 | 2025 | | |
| Changes in the intestinal microbiota of broiler chicken induced by dietary supplementation of the diatomite-bentonite mixture. | Wesierska E, Micek P, Adamski MG, Gondek K, Lis M, Trela M, Wojtysiak D, Kowal J, Wyrobisz-Papiewska A, Kunstman G, Mosiolek S, Smoron K. | BMC Vet Res | 10.1186/s12917-024-04439-4 | 2025 | | |
| Specific Bacterial Co-abundance Groups Are Associated With Inflammatory Status in Patients With Ulcerative Colitis. | Jangi S, Zhao N, Hsia K, Park YS, Michaud DS, Yoon H. | J Crohns Colitis | 10.1093/ecco-jcc/jjae125 | 2025 | | |
| Uncovering the complexity of childhood undernutrition through strain-level analysis of the gut microbiome. | Chang B, Zhang W, Wang Y, Zhang Y, Zhong S, Gao P, Wang L, Zhao Z. | BMC Microbiol | 10.1186/s12866-024-03211-w | 2024 | | |
| Pathogenicity | Metabolic modeling links gut microbiota to metabolic markers of Parkinson's disease. | Hensen T, Thiele I. | Gut Microbes | 10.1080/19490976.2025.2554195 | 2025 | |
| Levofloxacin prophylaxis and parenteral nutrition have a detrimental effect on intestinal microbial networks in pediatric patients undergoing HSCT. | Fabbrini M, D'Amico F, Leardini D, Muratore E, Barone M, Belotti T, Forchielli ML, Zama D, Pession A, Prete A, Brigidi P, Rampelli S, Candela M, Turroni S, Masetti R. | Commun Biol | 10.1038/s42003-023-04436-7 | 2023 | | |
| Gut Microbiota Composition Is Causally Linked to Multiple Sclerosis: A Mendelian Randomization Analysis. | Zancan V, Nasello M, Bigi R, Renie R, Buscarinu MC, Mechelli R, Ristori G, Salvetti M, Bellucci G. | Microorganisms | 10.3390/microorganisms12071476 | 2024 | | |
| Three-Month cART Initiated During Primary HIV Does Not Correct the Structural, Immune, and Microbial Abnormalities within the Gastrointestinal Tract. | Tincati C, Bono V, Nozza S, Bandera A, Tosi D, Sala V, Ancona G, Calcagno A, Muscatello A, Rusconi S, Augello M, Rovito R, Gianelli U, Pescia C, Santoro A, Falleni M, Gori A, Marchetti G. | Pathog Immun | 10.20411/pai.v10i2.864 | 2025 | | |
| Lactiplantibacillus plantarum HM-P2 influences gestational gut microbiome and microbial metabolism. | Liu B, Zhang Z, Zhao J, Li X, Wang Y, Liu L, Qiao W, Chen L. | Front Nutr | 10.3389/fnut.2024.1489359 | 2024 | | |
| Metabolism | Microbiota and short chain fatty acid relationships underlie clinical heterogeneity and identify key microbial targets in irritable bowel syndrome (IBS). | Shin AS, Xing Y, Waseem MR, Siwiec R, James-Stevenson T, Rogers N, Bohm M, Wo J, Lockett C, Gupta A, Kadariya J, Toh E, Anderson R, Dong A, Xu H, Gao X. | Sci Rep | 10.1038/s41598-025-19363-2 | 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 | | |
| 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 | | |
| Associations between specific dietary patterns, gut microbiome composition, and incident subthreshold depression in Chinese young adults. | Jiang X, Wang X, Zhang M, Yu L, He J, Wu S, Yan J, Zheng Y, Zhou Y, Chen Y. | J Adv Res | 10.1016/j.jare.2024.05.030 | 2024 | | |
| Relationship between gut microbiota and multiple sclerosis: a scientometric visual analysis from 2010 to 2023. | Ouyang Q, Yu H, Xu L, Yu M, Zhang Y. | Front Immunol | 10.3389/fimmu.2024.1451742 | 2024 | | |
| Microbiome signatures of virulence in the oral-gut-brain axis influence Parkinson's disease and cognitive decline pathophysiology. | Clasen F, Yildirim S, Arikan M, Garcia-Guevara F, Hanoglu L, Yilmaz NH, Sen A, Celik HK, Neslihan AA, Demir TK, Temel Z, Mardinoglu A, Moyes DL, Uhlen M, Shoaie S. | Gut Microbes | 10.1080/19490976.2025.2506843 | 2025 | | |
| Microbiota-Driven Mechanisms in Multiple Sclerosis: Pathogenesis, Therapeutic Strategies, and Biomarker Potential. | Nemati MH, Yazdanpanah E, Kazemi R, Orooji N, Dadfar S, Oksenych V, Haghmorad D. | Biology (Basel) | 10.3390/biology14040435 | 2025 | | |
| Persistent reduction of Bifidobacterium longum in the infant gut microbiome in the first year of age following intrapartum penicillin prophylaxis for maternal GBS colonization. | Teuscher JL, Lupatsii M, Graspeuntner S, Jonassen S, Bringewatt A, Herting E, Stichtenoth G, Bossung V, Rupp J, Hartel C, Demmert M. | Front Immunol | 10.3389/fimmu.2025.1540979 | 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 | | |
| The carotenoid torularhodin alleviates NAFLD by promoting Akkermanisa muniniphila-mediated adenosylcobalamin metabolism. | Liu C, Zheng X, Ji J, Zhu X, Liu X, Liu H, Guo L, Ye K, Zhang S, Xu YJ, Sun X, Zhou W, Wong HLX, Tian Y, Qian H. | Nat Commun | 10.1038/s41467-025-58500-3 | 2025 | | |
| 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 | | |
| Reduced Sulfur Diet Reshapes the Microbiome and Metabolome in Mild-Moderate Ulcerative Colitis. | Ye J, Raman M, Taylor LM, Yousuf M, Panaccione R, Turbide C, Sinha SR, Haskey N. | Int J Mol Sci | 10.3390/ijms26104596 | 2025 | | |
| The Alteration of Akkermansiaceae/Lachnospiraceae Ratio Is a Microbial Feature of Antibiotic-Induced Microbiota Remodeling. | Chen PC, Lin MS, Lin TC, Kang TW, Ruan JW. | Bioinform Biol Insights | 10.1177/11779322231166229 | 2023 | | |
| Metabolism | Association of Subjective and Objective Measures of Sleep With Gut Microbiota Composition and Diversity in Older Men: The Osteoporotic Fractures in Men Study. | Estaki M, Langsetmo L, Shardell M, Mischel A, Jiang L, Zhong Y, Kaufmann C, Knight R, Stone K, Kado D. | J Gerontol A Biol Sci Med Sci | 10.1093/gerona/glad011 | 2023 | |
| Genetics | Transient colonizing microbes promote gut dysbiosis and functional impairment. | Lee S, Meslier V, Bidkhori G, Garcia-Guevara F, Etienne-Mesmin L, Clasen F, Park J, Plaza Onate F, Cai H, Le Chatelier E, Pons N, Pereira M, Seifert M, Boulund F, Engstrand L, Lee D, Proctor G, Mardinoglu A, Blanquet-Diot S, Moyes D, Almeida M, Ehrlich SD, Uhlen M, Shoaie S. | NPJ Biofilms Microbiomes | 10.1038/s41522-024-00561-1 | 2024 | |
| Genetics | Effects of Resistant Starch on Symptoms, Fecal Markers, and Gut Microbiota in Parkinson's Disease - The RESISTA-PD Trial. | Becker A, Schmartz GP, Groger L, Grammes N, Galata V, Philippeit H, Weiland J, Ludwig N, Meese E, Tierling S, Walter J, Schwiertz A, Spiegel J, Wagenpfeil G, Fassbender K, Keller A, Unger MM. | Genomics Proteomics Bioinformatics | 10.1016/j.gpb.2021.08.009 | 2022 | |
| Investigating Plasma Metabolomics and Gut Microbiota Changes Associated With Parkinson Disease: A Focus on Caffeine Metabolism. | Chen CC, Chiu JY, Tan AH, Toh TS, Lim SY, Tan EK, Pettersson S, Hsu CC, Liou JM, Wu MS, Hsu CL, Lin CH. | Neurology | 10.1212/wnl.0000000000213592 | 2025 | | |
| Dietary intervention improves metabolic levels in patients with type 2 diabetes through the gut microbiota: a systematic review and meta-analysis. | Xu X, Zhang F, Ren J, Zhang H, Jing C, Wei M, Jiang Y, Xie H. | Front Nutr | 10.3389/fnut.2023.1243095 | 2023 | | |
| Multi-omics reveals specific host metabolism-microbiome associations in intracerebral hemorrhage. | Chen L, Wang S, Zhang Y, Li Y, Zhang X, Ma J, Zou X, Yao T, Li S, Chen J, Zhou H, Wu L, Zhou Y, Zhang L. | Front Cell Infect Microbiol | 10.3389/fcimb.2022.999627 | 2022 | | |
| Gut microbiome dynamics and functional shifts in healthy aging: insights from a metagenomic study. | Ai X, Huang C, Liu Q, Duan R, Ma X, Li L, Shu Z, Miao Y, Shen H, Lv Y, Jiang Z, Luo H, Long Z. | Front Microbiol | 10.3389/fmicb.2025.1629811 | 2025 | | |
| Microbiome and metabolome explain the high-fat diet-induced diabetes development and diabetes resistance in Guizhou mini-pigs. | Wu Y, Mo J, Wang Q, Li J, Wei J, Zhang N, Dong Y, Zhu X, Lu T, Huang S. | Front Microbiol | 10.3389/fmicb.2025.1555069 | 2025 | | |
| Causal Relationship Between Sjögren's Syndrome and Gut Microbiota: A Two-Sample Mendelian Randomization Study. | Wang X, Liu M, Xia W. | Biomedicines | 10.3390/biomedicines12102378 | 2024 | | |
| Genetics | Alterations of the Composition and Neurometabolic Profile of Human Gut Microbiota in Major Depressive Disorder. | Kovtun AS, Averina OV, Angelova IY, Yunes RA, Zorkina YA, Morozova AY, Pavlichenko AV, Syunyakov TS, Karpenko OA, Kostyuk GP, Danilenko VN. | Biomedicines | 10.3390/biomedicines10092162 | 2022 | |
| A comparative pharmacological study of three Chinese traditional medicines found Blautia to be the key functional bacterium of Coptis chinensis Franch. and Phellodendri chinensis Cortex against colitis. | Zhan J, Cheng J, Yang Y, Xu X, Lu Z, Li L, Li H, Yang Q, Hu Y, Song Y, Fan Q, Yang E, Liang Q, Sun S, Qiu F, Cao Y, Wu C. | Front Pharmacol | 10.3389/fphar.2025.1587119 | 2025 | | |
| Evaluation of the therapeutic effect of pomegranate peel ginger ultrafine powder on chronic enteritis in mice by regulating intestinal microbiota. | Guo Z, Wang X, Li Y, Zhang Y, Guo P, Zhang J, Zhang Z, Ma X. | Front Immunol | 10.3389/fimmu.2025.1563225 | 2025 | | |
| 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 | | |
| Therapeutic Effect of Proteinase-Activated Receptor-1 Antagonist on Colitis-Associated Carcinogenesis. | Li X, Kurahara LH, Zhao Z, Zhao F, Ishikawa R, Ohmichi K, Li G, Yamashita T, Hashimoto T, Hirano M, Sun Z, Hirano K. | Cell Mol Gastroenterol Hepatol | 10.1016/j.jcmgh.2024.04.001 | 2024 | | |
| Metabolism | The dynamics of the gut microbiota in prediabetes during a four-year follow-up among European patients-an IMI-DIRECT prospective study. | Lyu L, Fan Y, Vogt JK, Clos-Garcia M, Bonnefond A, Pedersen HK, Dutta A, Koivula R, Sharma S, Allin KH, Brorsson C, Cederberg H, Chabanova E, De Masi F, Dermitzakis E, Elders PJ, Blom MT, Hollander M, Eriksen R, Forgie I, Frost G, Giordano GN, Grallert H, Haid M, Hansen TH, Jablonka B, Kokkola T, Mahajan A, Mari A, McDonald TJ, Musholt PB, Pavo I, Prehn C, Ridderstrale M, Ruetten H, Hart LM', Schwenk JM, Stankevic E, Thomsen HS, Vangipurapu J, Vestergaard H, Vinuela A, Walker M, Hansen T, Linneberg A, Nielsen HB, Brunak S, McCarthy MI, Froguel P, Adamski J, Franks PW, Laakso M, Beulens JWJ, Pearson E, Pedersen O. | Genome Med | 10.1186/s13073-025-01508-7 | 2025 | |
| A contributory citizen science project reveals the impact of dietary keys to microbiome health in Spain. | Soler Z, Serrano-Gomez G, Pons-Tarin M, Vega-Abellaneda S, Xie Z, Manjon I, Cognard C, Varela E, Yanez F, Noguera-Segura A, Roca-Bosch M, Manichanh C. | NPJ Biofilms Microbiomes | 10.1038/s41522-025-00769-9 | 2025 | | |
| Gut Microbiome in Progressive Multiple Sclerosis. | Cox LM, Maghzi AH, Liu S, Tankou SK, Dhang FH, Willocq V, Song A, Wasen C, Tauhid S, Chu R, Anderson MC, De Jager PL, Polgar-Turcsanyi M, Healy BC, Glanz BI, Bakshi R, Chitnis T, Weiner HL. | Ann Neurol | 10.1002/ana.26084 | 2021 | | |
| Bariatric Surgery Is Associated with Lower Concentrations of Fecal Secondary Bile Acids and Their Metabolizing Microbial Enzymes: A Pilot Study. | Hussan H, Ali MR, Lyo V, Webb A, Pietrzak M, Zhu J, Choueiry F, Li H, Cummings BP, Marco ML, Medici V, Clinton SK. | Obes Surg | 10.1007/s11695-024-07420-0 | 2024 | | |
| The Potential Role of Fecal Microbiota Transplant in the Reversal or Stabilization of Multiple Sclerosis Symptoms: A Literature Review on Efficacy and Safety. | Laeeq T, Vongsavath T, Tun KM, Hong AS. | Microorganisms | 10.3390/microorganisms11122840 | 2023 | | |
| The association between gut microbiota composition and cardiometabolic parameters in healthy adults | Okalin S, Arslan N, Demiray Gurbuz E, Arayici M, Kirca N, Ozel Demiralp D, Dereli-Akdeniz D, Akan P, Ozkutuk A. | BMC Microbiol | 2025 | | ||
| Consistent signatures in the human gut microbiome of longevous populations. | Chen S, Zhang Z, Liu S, Chen T, Lu Z, Zhao W, Mou X, Liu S. | Gut Microbes | 10.1080/19490976.2024.2393756 | 2024 | | |
| Early-onset Colon Cancer Shows a Distinct Intestinal Microbiome and a Host-Microbe Interaction. | Adnan D, Trinh JQ, Sharma D, Alsayid M, Bishehsari F. | Cancer Prev Res (Phila) | 10.1158/1940-6207.capr-23-0091 | 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 | | |
| Genetics | Exploring the Predictive Value of Gut Microbiome Signatures for Therapy Intensification in Patients With Inflammatory Bowel Disease: A 10-Year Follow-up Study. | Al Radi ZMA, Prins FM, Collij V, Vich Vila A, Festen EAM, Dijkstra G, Weersma RK, Klaassen MAY, Gacesa R. | Inflamm Bowel Dis | 10.1093/ibd/izae064 | 2024 | |
| The gut microbial metabolite indole-3-aldehyde alleviates impaired intestinal development by promoting intestinal stem cell expansion in weaned piglets. | Zhang J, Chen Y, Guo X, Li X, Zhang R, Wang M, Zhu W, Yu K. | J Anim Sci Biotechnol | 10.1186/s40104-024-01111-7 | 2024 | | |
| Ornithine aspartate effects on bacterial composition and metabolic pathways in a rat model of steatotic liver disease. | Lange EC, Rampelotto PH, Longo L, de Freitas LBR, Uribe-Cruz C, Alvares-da-Silva MR. | World J Hepatol | 10.4254/wjh.v16.i5.832 | 2024 | | |
| Pathogenicity | Gut microbiota composition is altered in postural orthostatic tachycardia syndrome and post-acute COVID-19 syndrome. | Hamrefors V, Kahn F, Holmqvist M, Carlson K, Varjus R, Gudjonsson A, Fedorowski A, Ohlsson B. | Sci Rep | 10.1038/s41598-024-53784-9 | 2024 | |
| Comparative Analysis of Fecal Microbiota Composition Between Rheumatoid Arthritis and Osteoarthritis Patients. | Lee JY, Mannaa M, Kim Y, Kim J, Kim GT, Seo YS. | Genes (Basel) | 10.3390/genes10100748 | 2019 | | |
| 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 | | |
| Interactions between Medications and the Gut Microbiome in Inflammatory Bowel Disease. | Eckenberger J, Butler JC, Bernstein CN, Shanahan F, Claesson MJ. | Microorganisms | 10.3390/microorganisms10101963 | 2022 | | |
| Genetics | Gut resistome of NSCLC patients treated with immunotherapy. | Iwan E, Grenda A, Bomba A, Bielinska K, Wasyl D, Kieszko R, Rolska-Kopinska A, Chmielewska I, Krawczyk P, Rybczynska-Tkaczyk K, Olejnik M, Milanowski J. | Front Genet | 10.3389/fgene.2024.1378900 | 2024 | |
| Metabolism | BRAFV600E mutation impinges on gut microbial markers defining novel biomarkers for serrated colorectal cancer effective therapies. | Trivieri N, Pracella R, Cariglia MG, Panebianco C, Parrella P, Visioli A, Giani F, Soriano AA, Barile C, Canistro G, Latiano TP, Dimitri L, Bazzocchi F, Cassano D, Vescovi AL, Pazienza V, Binda E. | J Exp Clin Cancer Res | 10.1186/s13046-020-01801-w | 2020 | |
| Phylogeny | Familial clustering of dysbiotic oral and fecal microbiomes in juvenile dermatomyositis. | Koester ST, Chow A, Pepper-Tunick E, Lee P, Eckert M, Brenchley L, Gardner P, Song HJ, Li N, Schiffenbauer A, Volochayev R, Bayat N, McLean JS, Rider LG, Shenoi S, Stevens AM, Dey N. | Sci Rep | 10.1038/s41598-024-60225-0 | 2024 | |
| Genetics | Characteristics of the Fecal Microbiome of Piglets with Diarrhea Identified Using Shotgun Metagenomics Sequencing. | Gryaznova M, Smirnova Y, Burakova I, Morozova P, Nesterova E, Gladkikh M, Mikhaylov E, Syromyatnikov M. | Animals (Basel) | 10.3390/ani13142303 | 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 | | |
| The DAV132 colon-targeted adsorbent does not interfere with plasma concentrations of antibiotics but prevents antibiotic-related dysbiosis: a randomized phase I trial in healthy volunteers. | Messaoudene M, Ferreira S, Saint-Lu N, Ponce M, Truntzer C, Boidot R, Le Bescop C, Loppinet T, Corbel T, Feger C, Bertrand K, Elkrief A, Isaksen M, Vitry F, Sablier-Gallis F, Andremont A, Bod L, Ghiringhelli F, de Gunzburg J, Routy B. | Nat Commun | 10.1038/s41467-024-52373-8 | 2024 | | |
| Genetics | Exploring the dynamics of gut microbiota, antibiotic resistance, and chemotherapy impact in acute leukemia patients: A comprehensive metagenomic analysis. | Luo Y, Sheikh TMM, Li X, Yuan Y, Yao F, Wang M, Guo X, Wu J, Shafiq M, Xie Q, Jiao X. | Virulence | 10.1080/21505594.2024.2428843 | 2024 | |
| HiBC: a publicly available collection of bacterial strains isolated from the human gut. | Hitch TCA, Masson JM, Pauvert C, Bosch J, Nuchtern S, Treichel NS, Baloh M, Razavi S, Afrizal A, Kousetzi N, Aguirre AM, Wylensek D, Coates AC, Jennings SAV, Panyot A, Viehof A, Schmitz MA, Stuhrmann M, Deis EC, Bisdorf K, Chiotelli MD, Lissin A, Schober I, Witte J, Cramer T, Riedel T, Wende M, Winter KA, Amend L, Riva A, Trinh S, Mitchell L, Hartman J, Berry D, Seitz J, Bossert LC, Grognot M, Allers T, Strowig T, Pester M, Abt B, Reimer LC, Overmann J, Clavel T. | Nat Commun | 10.1038/s41467-025-59229-9 | 2025 | | |
| Elucidation of host diversity of the VanD-carrying genomic islands in enterococci and anaerobes. | Hashimoto Y, Hisatsune J, Suzuki M, Kurushima J, Nomura T, Hirakawa H, Kojima N, Ono Y, Hasegawa Y, Tanimoto K, Sugai M, Tomita H. | JAC Antimicrob Resist | 10.1093/jacamr/dlab189 | 2022 | | |
| Role of the gut microbiota in nutrient competition and protection against intestinal pathogen colonization. | Horrocks V, King OG, Yip AYG, Marques IM, McDonald JAK. | Microbiology (Reading) | 10.1099/mic.0.001377 | 2023 | | |
| Metabolism | 2'-FL and cross-feeding bifidobacteria reshaped the gut microbiota of infants with atopic dermatitis ex vivo and prevented dermatitis in mice post-microbiota transplantation through retinol metabolism activation. | Qi C, Li Z, Tu H, Sun F, Guo W, Di C, He R, Ze X, Zhang L, Gao R, Hu P, Yang W, Li K, Liu J, Pan X, Jin Z, Sun J. | Gut Microbes | 10.1080/19490976.2025.2474148 | 2025 | |
| Genetics | A metagenome-wide study of the gut virome in chronic kidney disease. | Zhang P, Guo R, Ma S, Jiang H, Yan Q, Li S, Wang K, Deng J, Zhang Y, Zhang Y, Wang G, Chen L, Li L, Guo X, Zhao G, Yang L, Wang Y, Kang J, Sha S, Fan S, Cheng L, Meng J, Yu H, Chen F, He D, Wang J, Liu S, Shi H. | Theranostics | 10.7150/thno.101601 | 2025 | |
| Associations of gut microbiota with disease development, disease activity, and therapeutic effects in patients with systemic lupus erythematosus. | Nishio J, Sato H, Watanabe E, Masuoka H, Aoki K, Kawazoe M, Wakiya R, Yamada S, Muraoka S, Masuoka S, Hayashi T, Mizutani S, Yamada Z, Koshiba K, Irita I, Kanaji M, Furukawa K, Yajima N, Dobashi H, Hirose W, Ishii Y, Suda W, Nanki T. | Sci Rep | 10.1038/s41598-024-83835-0 | 2024 | | |
| Genetics | Taxonomic and metabolic development of the human gut microbiome across life stages: a worldwide metagenomic investigation. | Mancabelli L, Milani C, De Biase R, Bocchio F, Fontana F, Lugli GA, Alessandri G, Tarracchini C, Viappiani A, De Conto F, Nouvenne A, Ticinesi A, Bussolati O, Meschi T, Cecchi R, Turroni F, Ventura M. | mSystems | 10.1128/msystems.01294-23 | 2024 | |
| Dissecting the Effect of Berberine on the Intestinal Microbiome in the Weaned Piglets by Metagenomic Sequencing. | Hu H, Xu K, Wang K, Zhang F, Bai X. | Front Microbiol | 10.3389/fmicb.2022.862882 | 2022 | | |
| Genetics | Metabolic pathways associated with Firmicutes prevalence in the gut of multiple livestock animals and humans. | Dias BDC, Lamarca AP, Machado DT, Kloh VP, de Carvalho FM, Vasconcelos ATR. | Anim Microbiome | 10.1186/s42523-025-00379-y | 2025 | |
| Integrated multi-omics highlights alterations of gut microbiome functions in prodromal and idiopathic Parkinson's disease. | Villette R, Ortis Sunyer J, Novikova PV, Aho VTE, Petrov VA, Hickl O, Busi SB, De Rudder C, Kunath BJ, Heintz-Buschart A, Trezzi JP, Halder R, Jager C, Lebrun LA, Daujeumont A, Schade S, Janzen A, Jehmlich N, von Bergen M, Laczny CC, May P, Trenkwalder C, Oertel W, Mollenhauer B, Wilmes P. | Microbiome | 10.1186/s40168-025-02227-2 | 2025 | | |
| Metabolism | Longitudinal multi-omics analysis uncovers the altered landscape of gut microbiota and plasma metabolome in response to high altitude. | Han Y, Liu X, Jia Q, Xu J, Shi J, Li X, Xie G, Zhao X, He K. | Microbiome | 10.1186/s40168-024-01781-5 | 2024 | |
| Breaking down barriers: is intestinal mucus degradation by Akkermansia muciniphila beneficial or harmful? | Tingler AM, Engevik MA. | Infect Immun | 10.1128/iai.00503-24 | 2025 | | |
| Pathogenicity | Gut microbiota composition is associated with disease severity and host immune responses in COVID-19. | Fan R, Liu S, Sun N, Yang Y, Deng X, Hu B, Sun C, Wen C, Li H, Cheng D, Huang C, Hou P, Zhang T. | Front Cell Infect Microbiol | 10.3389/fcimb.2023.1274690 | 2023 | |
| Phylogeny | Distinct gut microbiomes in Thai patients with colorectal polyps. | Intarajak T, Udomchaiprasertkul W, Khoiri AN, Sutheeworapong S, Kusonmano K, Kittichotirat W, Thammarongtham C, Cheevadhanarak S. | World J Gastroenterol | 10.3748/wjg.v30.i27.3336 | 2024 | |
| Genetics | Dysbiosis and relapse-related microbiome in inflammatory bowel disease: A shotgun metagenomic approach. | Serrano-Gomez G, Mayorga L, Oyarzun I, Roca J, Borruel N, Casellas F, Varela E, Pozuelo M, Machiels K, Guarner F, Vermeire S, Manichanh C. | Comput Struct Biotechnol J | 10.1016/j.csbj.2021.11.037 | 2021 | |
| Pathogenicity | The gut microbiome in bullous pemphigoid: implications of the gut-skin axis for disease susceptibility. | Liu X, van Beek N, Cepic A, Andreani NA, Chung CJ, Hermes BM, Yilmaz K, Benoit S, Drenovska K, Gerdes S, Glaser R, Goebeler M, Gunther C, von Georg A, Hammers CM, Holtsche MM, Hubner F, Kiritsi D, Schauer F, Linnenmann B, Huilaja L, Tasanen-Maatta K, Vassileva S, Zillikens D, Sadik CD, Schmidt E, Ibrahim S, Baines JF. | Front Immunol | 10.3389/fimmu.2023.1212551 | 2023 | |
| Pathogenicity | The intestinal microbiome and metabolome discern disease severity in cytotoxic T-lymphocyte-associated protein 4 deficiency. | Chandrasekaran P, Krausz M, Han Y, Mitsuiki N, Gabrysch A, Noltner C, Proietti M, Heller T, Grou C, Calderon V, Subramanian P, Jones DR, Siu Y, Deming C, Conlan S, Holland SM, Segre JA, Uzel G, Grimbacher B, Falcone EL. | Microbiome | 10.1186/s40168-025-02028-7 | 2025 | |
| Gut flora in multiple sclerosis: implications for pathogenesis and treatment. | Zhang W, Wang Y, Zhu M, Liu K, Liu K, Zhang HL. | Neural Regen Res | 10.4103/1673-5374.387974 | 2024 | | |
| A specific gut microbiota signature is associated with an enhanced GLP-1 and GLP-2 secretion and improved metabolic control in patients with type 2 diabetes after metabolic Roux-en-Y gastric bypass. | Hernandez-Montoliu L, Rodriguez-Pena MM, Puig R, Astiarraga B, Guerrero-Perez F, Virgili N, Lopez-Urdiales R, Osorio J, Monseny R, Lazzara C, Sobrino L, Perez-Maraver M, Perez-Prieto M, Pellitero S, Fernandez-Veledo S, Vendrell J, Vilarrasa N. | Front Endocrinol (Lausanne) | 10.3389/fendo.2023.1181744 | 2023 | | |
| Phylogeny | Microbial Signatures in COVID-19: Distinguishing Mild and Severe Disease via Gut Microbiota. | Galeeva JS, Fedorov DE, Starikova EV, Manolov AI, Pavlenko AV, Selezneva OV, Klimina KM, Veselovsky VA, Morozov MD, Yanushevich OO, Krikheli NI, Levchenko OV, Andreev DN, Sokolov FS, Fomenko AK, Devkota MK, Andreev NG, Zaborovskiy AV, Bely PA, Tsaregorodtsev SV, Evdokimov VV, Maev IV, Govorun VM, Ilina EN. | Biomedicines | 10.3390/biomedicines12050996 | 2024 | |
| Gut and Urinary Microbiota in Cats with Kidney Stones. | Joubran P, Roux FA, Serino M, Deschamps JY. | Microorganisms | 10.3390/microorganisms12061098 | 2024 | | |
| Machine learning-based meta-analysis reveals gut microbiome alterations associated with Parkinson's disease. | Romano S, Wirbel J, Ansorge R, Schudoma C, Ducarmon QR, Narbad A, Zeller G. | Nat Commun | 10.1038/s41467-025-56829-3 | 2025 | | |
| Microbial Metabolites in Multiple Sclerosis: Implications for Pathogenesis and Treatment. | Duarte-Silva E, Meuth SG, Peixoto CA. | Front Neurosci | 10.3389/fnins.2022.885031 | 2022 | | |
| Role of blood metabolites in mediating the effect of gut microbiome on the mutated-RAS/BRAF metastatic colorectal cancer-specific survival. | Xiang Y, Zhang C, Wang J, Cheng Y, Wang K, Wang L, Tong Y, Yan D. | Int J Colorectal Dis | 10.1007/s00384-024-04686-9 | 2024 | | |
| Pathogenicity | CRISPR-Cas spacer acquisition is a rare event in human gut microbiome. | Zhang AN, Gaston JM, Cardenas P, Zhao S, Gu X, Alm EJ. | Cell Genom | 10.1016/j.xgen.2024.100725 | 2025 | |
| Diarrheal-associated gut dysbiosis in cancer and inflammatory bowel disease patients is exacerbated by Clostridioides difficile infection. | Kulecka M, Zeber-Lubecka N, Balabas A, Czarnowski P, Baginska K, Glowienka M, Kluska A, Piatkowska M, Dabrowska M, Waker E, Mikula M, Ostrowski J. | Front Cell Infect Microbiol | 10.3389/fcimb.2023.1190910 | 2023 | | |
| 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 | | |
| 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 | | |
| Genetics | Microbiome Dysbiosis Shows Strong Association of Gut-Derived Altered Metabolomic Profile in Gulf War Chronic Multisymptom Illness Symptom Persistence Following Western Diet Feeding and Development of Obesity. | Bose D, Stebliankin V, Cickovski T, Saha P, Trivedi A, Roy S, More M, Tuteja A, Mathee K, Narasimhan G, Chatterjee S. | Int J Mol Sci | 10.3390/ijms24044245 | 2023 | |
| Immunomolecular and reactivity landscapes of gut IgA subclasses in homeostasis and inflammatory bowel disease. | Tejedor Vaquero S, Neuman H, Comerma L, Marcos-Fa X, Corral-Vazquez C, Uzzan M, Pybus M, Segura-Garzon D, Guerra J, Perruzza L, Tacho-Pinot R, Sintes J, Rosenstein A, Grasset EK, Iglesias M, Gonzalez Farre M, Lop J, Patriaca-Amiano ME, Larrubia-Loring M, Santiago-Diaz P, Perera-Bel J, Berenguer-Molins P, Martinez Gallo M, Martin-Nalda A, Varela E, Garrido-Pontnou M, Grassi F, Guarner F, Mehandru S, Marquez-Mosquera L, Mehr R, Cerutti A, Magri G. | J Exp Med | 10.1084/jem.20230079 | 2024 | | |
| Gastrointestinal microbiota: A predictor of COVID-19 severity? | Neag MA, Vulturar DM, Gherman D, Burlacu CC, Todea DA, Buzoianu AD. | World J Gastroenterol | 10.3748/wjg.v28.i45.6328 | 2022 | | |
| Guild-Level Microbiome Signature Associated with COVID-19 Severity and Prognosis. | Guo M, Wu G, Tan Y, Li Y, Jin X, Qi W, Guo X, Zhang C, Zhu Z, Zhao L. | mBio | 10.1128/mbio.03519-22 | 2023 | | |
| Characterization of vancomycin-resistance vanD gene clusters in the human intestinal microbiota by metagenomics and culture-enriched metagenomics. | Brochu E, Huletsky A, Boudreau DK, Raymond F, Berube E, Ouameur AA, Frenette J, Boissinot M, Corbeil J, Bergeron MG. | JAC Antimicrob Resist | 10.1093/jacamr/dlad026 | 2023 | | |
| Genetics | Rapid species-level metagenome profiling and containment estimation with sylph. | Shaw J, Yu YW. | Nat Biotechnol | 10.1038/s41587-024-02412-y | 2025 | |
| Metagenomic and Untargeted Metabolomic Analysis of the Effect of Sporisorium reilianum Polysaccharide on Improving Obesity. | Guo Y, Liu M, Liu X, Zheng M, Xu X, Liu X, Gong J, Liu H, Liu J. | Foods | 10.3390/foods12081578 | 2023 | | |
| Obesity, Gut Microbiota, and Metabolome: From Pathophysiology to Nutritional Interventions. | Puljiz Z, Kumric M, Vrdoljak J, Martinovic D, Ticinovic Kurir T, Krnic MO, Urlic H, Puljiz Z, Zucko J, Dumanic P, Mikolasevic I, Bozic J. | Nutrients | 10.3390/nu15102236 | 2023 | | |
| Regional pattern and signatures of gut microbiota in rural residents with coronary heart disease: A metagenomic analysis. | Li W, Li H, Wang S, Han K, Liu Y, An Z, Wu H, Li J, Song J, Wu W. | Front Cell Infect Microbiol | 10.3389/fcimb.2022.1007161 | 2022 | | |
| The landscape in the gut microbiome of long-lived families reveals new insights on longevity and aging - relevant neural and immune function. | Wang J, Qie J, Zhu D, Zhang X, Zhang Q, Xu Y, Wang Y, Mi K, Pei Y, Liu Y, Ji G, Liu X. | Gut Microbes | 10.1080/19490976.2022.2107288 | 2022 | | |
| Gut Microbiota Analysis and In Silico Biomarker Detection of Children with Autism Spectrum Disorder across Cohorts. | Wang W, Fu P. | Microorganisms | 10.3390/microorganisms11020291 | 2023 | | |
| Genetics | Exclusive enteral nutrition initiates individual protective microbiome changes to induce remission in pediatric Crohn's disease. | Hacker D, Siebert K, Smith BJ, Kohler N, Riva A, Mahapatra A, Heimes H, Nie J, Metwaly A, Holz H, Manz Q, De Zen F, Heetmeyer J, Socas K, Le Thi G, Meng C, Kleigrewe K, Pauling JK, Neuhaus K, List M, Pollard KS, Schwerd T, Haller D. | Cell Host Microbe | 10.1016/j.chom.2024.10.001 | 2024 | |
| Cancer Immune Checkpoint Inhibitor Therapy and the Gut Microbiota. | Frankel AE, Deshmukh S, Reddy A, Lightcap J, Hayes M, McClellan S, Singh S, Rabideau B, Glover TG, Roberts B, Koh AY. | Integr Cancer Ther | 10.1177/1534735419846379 | 2019 | | |
| Characterization of the Ocular Surface Microbiome in Keratitis Patients after Repeated Ophthalmic Antibiotic Exposure. | Kang Y, Tian L, Gu X, Chen Y, Ma X, Lin S, Li Z, Lou Y, Zheng M. | Microbiol Spectr | 10.1128/spectrum.02162-21 | 2022 | | |
| The Microbiome Modulates the Immune System to Influence Cancer Therapy. | Roy R, Singh SK. | Cancers (Basel) | 10.3390/cancers16040779 | 2024 | | |
| Genetics | Expanded microbiome niches of RAG-deficient patients. | Blaustein RA, Shen Z, Kashaf SS, Lee-Lin S, Conlan S, NISC Comparative Sequencing Program, Bosticardo M, Delmonte OM, Holmes CJ, Taylor ME, Banania G, Nagao K, Dimitrova D, Kanakry JA, Su H, Holland SM, Bergerson JRE, Freeman AF, Notarangelo LD, Kong HH, Segre JA. | Cell Rep Med | 10.1016/j.xcrm.2023.101205 | 2023 | |
| Genetics | Diversity and host interaction of the gut microbiota in specific pathogen-free pigs. | Wen M, Chen S, Zhang Y, Liu Y, Tang C, Zhang J, Sun J, Li X, Ding Y, Lu L, Long K, Nie Y, Li X, Li M, Ge L, Ma J. | Front Microbiol | 10.3389/fmicb.2024.1402807 | 2024 | |
| Meta-analysis of the microbial biomarkers in the gut-lung crosstalk in COVID-19, community-acquired pneumonia and Clostridium difficile infections. | Aishwarya S, Gunasekaran K. | Lett Appl Microbiol | 10.1111/lam.13798 | 2022 | | |
| 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 | | |
| Alterations of fecal antibiotic resistome in COVID-19 patients after empirical antibiotic exposure. | Kang Y, Chen S, Chen Y, Tian L, Wu Q, Zheng M, Li Z. | Int J Hyg Environ Health | 10.1016/j.ijheh.2021.113882 | 2022 | | |
| Lectin-Seq: A method to profile lectin-microbe interactions in native communities. | McPherson RL, Isabella CR, Walker RL, Sergio D, Bae S, Gaca T, Raman S, Nguyen LTT, Wesener DA, Halim M, Wuo MG, Dugan A, Kerby R, Ghosh S, Rey FE, Dhennezel C, Pishchany G, Lensch V, Vlamakis H, Alm EJ, Xavier RJ, Kiessling LL. | Sci Adv | 10.1126/sciadv.add8766 | 2023 | | |
| A Natural Polyphenol Exerts Antitumor Activity and Circumvents Anti-PD-1 Resistance through Effects on the Gut Microbiota. | Messaoudene M, Pidgeon R, Richard C, Ponce M, Diop K, Benlaifaoui M, Nolin-Lapalme A, Cauchois F, Malo J, Belkaid W, Isnard S, Fradet Y, Dridi L, Velin D, Oster P, Raoult D, Ghiringhelli F, Boidot R, Chevrier S, Kysela DT, Brun YV, Falcone EL, Pilon G, Onate FP, Gitton-Quent O, Le Chatelier E, Durand S, Kroemer G, Elkrief A, Marette A, Castagner B, Routy B. | Cancer Discov | 10.1158/2159-8290.cd-21-0808 | 2022 | | |
| Expansion of Colorectal Cancer Biomarkers Based on Gut Bacteria and Viruses. | Zhang J, He Y, Xia L, Yi J, Wang Z, Zhao Y, Song X, Li J, Liu H, Liang X, Nie S, Liu L. | Cancers (Basel) | 10.3390/cancers14194662 | 2022 | | |
| Towards geospatially-resolved public-health surveillance via wastewater sequencing. | Tierney BT, Foox J, Ryon KA, Butler D, Damle N, Young BG, Mozsary C, Babler KM, Yin X, Carattini Y, Andrews D, Lucaci AG, Solle NS, Kumar N, Shukla B, Vidovic D, Currall B, Williams SL, Schurer SC, Stevenson M, Amirali A, Beaver CC, Kobetz E, Boone MM, Reding B, Laine J, Comerford S, Lamar WE, Tallon JJ, Wain Hirschberg J, Proszynski J, Al Ghalith G, Can Kurt K, Sharkey ME, Church GM, Grills GS, Solo-Gabriele HM, Mason CE. | Nat Commun | 10.1038/s41467-024-52427-x | 2024 | | |
| 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 | |
| How important are fatty acids in human health and can they be used in treating diseases? | Dicks LMT. | Gut Microbes | 10.1080/19490976.2024.2420765 | 2024 | | |
| 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 | | |
| Microbiota in Gut-Heart Axis: Metabolites and Mechanisms in Cardiovascular Disease. | Kondapalli N, Katari V, Dalal KK, Paruchuri S, Thodeti CK. | Compr Physiol | 10.1002/cph4.70024 | 2025 | | |
| Gluten-free diet affects fecal small non-coding RNA profiles and microbiome composition in celiac disease supporting a host-gut microbiota crosstalk. | Francavilla A, Ferrero G, Pardini B, Tarallo S, Zanatto L, Caviglia GP, Sieri S, Grioni S, Francescato G, Stalla F, Guiotto C, Crocella L, Astegiano M, Bruno M, Calvo PL, Vineis P, Ribaldone DG, Naccarati A. | Gut Microbes | 10.1080/19490976.2023.2172955 | 2023 | | |
| The Gut Microbiota in Parkinson Disease: Interactions with Drugs and Potential for Therapeutic Applications. | Menozzi E, Schapira AHV. | CNS Drugs | 10.1007/s40263-024-01073-4 | 2024 | | |
| Both Disease Activity and HLA-B27 Status Are Associated With Gut Microbiome Dysbiosis in Spondyloarthritis Patients. | Berland M, Meslier V, Berreira Ibraim S, Le Chatelier E, Pons N, Maziers N, Thirion F, Gauthier F, Plaza Onate F, Furet JP, Leboime A, Said-Nahal R, Levenez F, Galleron N, Quinquis B, Langella P, Ehrlich SD, Breban M. | Arthritis Rheumatol | 10.1002/art.42289 | 2023 | | |
| Pathogenicity | Metagenomic Sequencing Reveals that High-Grain Feeding Alters the Composition and Metabolism of Cecal Microbiota and Induces Cecal Mucosal Injury in Sheep. | Xie F, Xu L, Wang Y, Mao S. | mSystems | 10.1128/msystems.00915-21 | 2021 | |
| Coconut rhinoceros beetle digestive symbiosis with potential plant cell wall degrading microbes. | Han CJ, Cheng CH, Yeh TF, Pauchet Y, Shelomi M. | NPJ Biofilms Microbiomes | 10.1038/s41522-024-00505-9 | 2024 | | |
| Molecular methods for colorectal cancer screening: Progress with next-generation sequencing evolution. | Abbes S, Baldi S, Sellami H, Amedei A, Keskes L. | World J Gastrointest Oncol | 10.4251/wjgo.v15.i3.425 | 2023 | | |
| Insights from shotgun metagenomics into bacterial species and metabolic pathways associated with NAFLD in obese youth. | Testerman T, Li Z, Galuppo B, Graf J, Santoro N. | Hepatol Commun | 10.1002/hep4.1944 | 2022 | | |
| Novel genomic islands and a new vanD-subtype in the first sporadic VanD-type vancomycin resistant enterococci in Norway. | Al Rubaye MTS, Janice J, Bjornholt JV, Jakovljev A, Hultstrom ME, Sundsfjord A, Hegstad K. | PLoS One | 10.1371/journal.pone.0255187 | 2021 | | |
| Dietary supplementation of solubles from shredded, steam-exploded pine particles modifies gut length and cecum microbiota in cyclic heat-stressed broilers. | Goel A, Ncho CM, Jeong CM, Gupta V, Jung JY, Ha SY, Yang JK, Choi YH. | Poult Sci | 10.1016/j.psj.2023.102498 | 2023 | | |
| Impact of dietary interventions on pre-diabetic oral and gut microbiome, metabolites and cytokines. | Shoer S, Shilo S, Godneva A, Ben-Yacov O, Rein M, Wolf BC, Lotan-Pompan M, Bar N, Weiss EI, Houri-Haddad Y, Pilpel Y, Weinberger A, Segal E. | Nat Commun | 10.1038/s41467-023-41042-x | 2023 | | |
| A comprehensive overview of the molecular features and therapeutic targets in BRAFV600E-mutant colorectal cancer. | Gu R, Fang H, Wang R, Dai W, Cai G, Cai G. | Clin Transl Med | 10.1002/ctm2.1764 | 2024 | | |
| Faecal metabolome and its determinants in inflammatory bowel disease. | Vich Vila A, Hu S, Andreu-Sanchez S, Collij V, Jansen BH, Augustijn HE, Bolte LA, Ruigrok RAAA, Abu-Ali G, Giallourakis C, Schneider J, Parkinson J, Al-Garawi A, Zhernakova A, Gacesa R, Fu J, Weersma RK. | Gut | 10.1136/gutjnl-2022-328048 | 2023 | | |
| 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 | | |
| Parvimonas micra, Peptostreptococcus stomatis, Fusobacterium nucleatum and Akkermansia muciniphila as a four-bacteria biomarker panel of colorectal cancer. | Osman MA, Neoh HM, Ab Mutalib NS, Chin SF, Mazlan L, Raja Ali RA, Zakaria AD, Ngiu CS, Ang MY, Jamal R. | Sci Rep | 10.1038/s41598-021-82465-0 | 2021 | | |
| Genetics | Gut microbial composition and functionality of school-age Mexican population with metabolic syndrome and type-2 diabetes mellitus using shotgun metagenomic sequencing. | Carrizales-Sanchez AK, Tamez-Rivera O, Garcia-Gamboa R, Garcia-Cayuela T, Rodriguez-Gutierrez NA, Elizondo-Montemayor L, Garcia-Rivas G, Pacheco A, Hernandez-Brenes C, Senes-Guerrero C. | Front Pediatr | 10.3389/fped.2023.1193832 | 2023 | |
| Detailed mapping of Bifidobacterium strain transmission from mother to infant via a dual culture-based and metagenomic approach. | Feehily C, O'Neill IJ, Walsh CJ, Moore RL, Killeen SL, Geraghty AA, Lawton EM, Byrne D, Sanchez-Gallardo R, Nori SRC, Nielsen IB, Wortmann E, Matthews E, O'Flaherty R, Rudd PM, Groeger D, Shanahan F, Saldova R, McAuliffe FM, Van Sinderen D, Cotter PD. | Nat Commun | 10.1038/s41467-023-38694-0 | 2023 | | |
| Multiomics signatures of type 1 diabetes with and without albuminuria. | Clos-Garcia M, Ahluwalia TS, Winther SA, Henriksen P, Ali M, Fan Y, Stankevic E, Lyu L, Vogt JK, Hansen T, Legido-Quigley C, Rossing P, Pedersen O. | Front Endocrinol (Lausanne) | 10.3389/fendo.2022.1015557 | 2022 | | |
| 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 | | |
| Combing fecal microbial community data to identify consistent obesity-specific microbial signatures and shared metabolic pathways. | Lin Y, Xu Z, Yeoh YK, Tun HM, Huang W, Jiang W, Chan FKL, Ng SC. | iScience | 10.1016/j.isci.2023.106476 | 2023 | | |
| Gut bacterial dysbiosis and instability is associated with the onset of complications and mortality in COVID-19. | Schult D, Reitmeier S, Koyumdzhieva P, Lahmer T, Middelhoff M, Erber J, Schneider J, Kager J, Frolova M, Horstmann J, Fricke L, Steiger K, Jesinghaus M, Janssen KP, Protzer U, Neuhaus K, Schmid RM, Haller D, Quante M. | Gut Microbes | 10.1080/19490976.2022.2031840 | 2022 | | |
| Genetics | A Machine Learning Approach to Study Glycosidase Activities from Bifidobacterium. | Sabater C, Ruiz L, Margolles A. | Microorganisms | 10.3390/microorganisms9051034 | 2021 | |
| Limosilactobacillus mucosae-derived extracellular vesicles modulates macrophage phenotype and orchestrates gut homeostasis in a diarrheal piglet model. | Li J, Feng S, Wang Z, He J, Zhang Z, Zou H, Wu Z, Liu X, Wei H, Tao S. | NPJ Biofilms Microbiomes | 10.1038/s41522-023-00403-6 | 2023 | | |
| Specific gut microbiome signatures and the associated pro-inflamatory functions are linked to pediatric allergy and acquisition of immune tolerance. | De Filippis F, Paparo L, Nocerino R, Della Gatta G, Carucci L, Russo R, Pasolli E, Ercolini D, Berni Canani R. | Nat Commun | 10.1038/s41467-021-26266-z | 2021 | | |
| Species-targeted sorting and cultivation of commensal bacteria from the gut microbiome using flow cytometry under anaerobic conditions. | Bellais S, Nehlich M, Ania M, Duquenoy A, Mazier W, van den Engh G, Baijer J, Treichel NS, Clavel T, Belotserkovsky I, Thomas V. | Microbiome | 10.1186/s40168-021-01206-7 | 2022 | | |
| A gut microbial signature for combination immune checkpoint blockade across cancer types. | Gunjur A, Shao Y, Rozday T, Klein O, Mu A, Haak BW, Markman B, Kee D, Carlino MS, Underhill C, Frentzas S, Michael M, Gao B, Palmer J, Cebon J, Behren A, Adams DJ, Lawley TD. | Nat Med | 10.1038/s41591-024-02823-z | 2024 | | |
| Gut Dysbiosis and Fecal Microbiota Transplantation in Autoimmune Diseases. | Belvoncikova P, Maronek M, Gardlik R. | Int J Mol Sci | 10.3390/ijms231810729 | 2022 | | |
| Pathogenicity | B Cells and Microbiota in Autoimmunity. | Botia-Sanchez M, Alarcon-Riquelme ME, Galicia G. | Int J Mol Sci | 10.3390/ijms22094846 | 2021 | |
| Longitudinal gut microbiome changes in immune checkpoint blockade-treated advanced melanoma. | Bjork JR, Bolte LA, Maltez Thomas A, Lee KA, Rossi N, Wind TT, Smit LM, Armanini F, Asnicar F, Blanco-Miguez A, Board R, Calbet-Llopart N, Derosa L, Dhomen N, Brooks K, Harland M, Harries M, Lorigan P, Manghi P, Marais R, Newton-Bishop J, Nezi L, Pinto F, Potrony M, Puig S, Serra-Bellver P, Shaw HM, Tamburini S, Valpione S, Waldron L, Zitvogel L, Zolfo M, de Vries EGE, Nathan P, Fehrmann RSN, Spector TD, Bataille V, Segata N, Hospers GAP, Weersma RK. | Nat Med | 10.1038/s41591-024-02803-3 | 2024 | | |
| Modulation of multiple sclerosis risk and pathogenesis by the gut microbiota: Complex interactions between host genetics, bacterial metabolism, and diet. | Montgomery TL, Peipert D, Krementsov DN. | Immunol Rev | 10.1111/imr.13343 | 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 | |
| Metabolism | Reduced calorie diet combined with NNMT inhibition establishes a distinct microbiome in DIO mice. | Dimet-Wiley A, Wu Q, Wiley JT, Eswar A, Neelakantan H, Savidge T, Watowich S. | Sci Rep | 10.1038/s41598-021-03670-5 | 2022 | |
| Host phenotype classification from human microbiome data is mainly driven by the presence of microbial taxa. | Giliberti R, Cavaliere S, Mauriello IE, Ercolini D, Pasolli E. | PLoS Comput Biol | 10.1371/journal.pcbi.1010066 | 2022 | | |
| Differential impact of environmental factors on systemic and localized autoimmunity. | Touil H, Mounts K, De Jager PL. | Front Immunol | 10.3389/fimmu.2023.1147447 | 2023 | | |
| Blue poo: impact of gut transit time on the gut microbiome using a novel marker. | Asnicar F, Leeming ER, Dimidi E, Mazidi M, Franks PW, Al Khatib H, Valdes AM, Davies R, Bakker E, Francis L, Chan A, Gibson R, Hadjigeorgiou G, Wolf J, Spector TD, Segata N, Berry SE. | Gut | 10.1136/gutjnl-2020-323877 | 2021 | | |
| Pathogenicity | A Mediterranean-like fat blend protects against the development of severe colitis in the mucin-2 deficient murine model. | Haskey N, Ye J, Estaki M, Verdugo Meza AA, Barnett JA, Yousefi M, Birnie BW, Gruenheid S, Ghosh S, Gibson DL. | Gut Microbes | 10.1080/19490976.2022.2055441 | 2022 | |
| The Changes in the Frog Gut Microbiome and Its Putative Oxygen-Related Phenotypes Accompanying the Development of Gastrointestinal Complexity and Dietary Shift. | Zhang M, Chen H, Liu L, Xu L, Wang X, Chang L, Chang Q, Lu G, Jiang J, Zhu L. | Front Microbiol | 10.3389/fmicb.2020.00162 | 2020 | | |
| Mediterranean diet intervention in overweight and obese subjects lowers plasma cholesterol and causes changes in the gut microbiome and metabolome independently of energy intake. | Meslier V, Laiola M, Roager HM, De Filippis F, Roume H, Quinquis B, Giacco R, Mennella I, Ferracane R, Pons N, Pasolli E, Rivellese A, Dragsted LO, Vitaglione P, Ehrlich SD, Ercolini D. | Gut | 10.1136/gutjnl-2019-320438 | 2020 | | |
| Metabolism | Ketogenic diet and ketone bodies enhance the anticancer effects of PD-1 blockade. | Ferrere G, Tidjani Alou M, Liu P, Goubet AG, Fidelle M, Kepp O, Durand S, Iebba V, Fluckiger A, Daillere R, Thelemaque C, Grajeda-Iglesias C, Alves Costa Silva C, Aprahamian F, Lefevre D, Zhao L, Ryffel B, Colomba E, Arnedos M, Drubay D, Rauber C, Raoult D, Asnicar F, Spector T, Segata N, Derosa L, Kroemer G, Zitvogel L. | JCI Insight | 10.1172/jci.insight.145207 | 2021 | |
| Summary of Novel Bacterial Isolates Derived from Human Clinical Specimens and Nomenclature Revisions Published in 2018 and 2019. | Munson E, Carroll KC. | J Clin Microbiol | 10.1128/jcm.01309-20 | 2021 | | |
| 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 | |
| Metabolism | Multiple evolutionary origins reflect the importance of sialic acid transporters in the colonization potential of bacterial pathogens and commensals. | Severi E, Rudden M, Bell A, Palmer T, Juge N, Thomas GH. | Microb Genom | 10.1099/mgen.0.000614 | 2021 | |
| Phylogeny | Integrating taxonomic, functional, and strain-level profiling of diverse microbial communities with bioBakery 3. | Beghini F, McIver LJ, Blanco-Miguez A, Dubois L, Asnicar F, Maharjan S, Mailyan A, Manghi P, Scholz M, Thomas AM, Valles-Colomer M, Weingart G, Zhang Y, Zolfo M, Huttenhower C, Franzosa EA, Segata N. | Elife | 10.7554/elife.65088 | 2021 | |
| Metabolism | Human Secretory IgM Emerges from Plasma Cells Clonally Related to Gut Memory B Cells and Targets Highly Diverse Commensals. | Magri G, Comerma L, Pybus M, Sintes J, Llige D, Segura-Garzon D, Bascones S, Yeste A, Grasset EK, Gutzeit C, Uzzan M, Ramanujam M, van Zelm MC, Albero-Gonzalez R, Vazquez I, Iglesias M, Serrano S, Marquez L, Mercade E, Mehandru S, Cerutti A. | Immunity | 10.1016/j.immuni.2017.06.013 | 2017 | |
| The microbial metabolite p-Cresol induces autistic-like behaviors in mice by remodeling the gut microbiota. | Bermudez-Martin P, Becker JAJ, Caramello N, Fernandez SP, Costa-Campos R, Canaguier J, Barbosa S, Martinez-Gili L, Myridakis A, Dumas ME, Bruneau A, Cherbuy C, Langella P, Callebert J, Launay JM, Chabry J, Barik J, Le Merrer J, Glaichenhaus N, Davidovic L. | Microbiome | 10.1186/s40168-021-01103-z | 2021 | | |
| Genetics | Comparative analysis of Faecalibacterium prausnitzii genomes shows a high level of genome plasticity and warrants separation into new species-level taxa. | Fitzgerald CB, Shkoporov AN, Sutton TDS, Chaplin AV, Velayudhan V, Ross RP, Hill C. | BMC Genomics | 10.1186/s12864-018-5313-6 | 2018 | |
| Phylogeny | Ruthenibacterium lactatiformans gen. nov., sp. nov., an anaerobic, lactate-producing member of the family Ruminococcaceae isolated from human faeces. | Shkoporov AN, Chaplin AV, Shcherbakova VA, Suzina NE, Kafarskaia LI, Bozhenko VK, Efimov BA | Int J Syst Evol Microbiol | 10.1099/ijsem.0.001143 | 2016 | |
How to cite
If you want to cite this particular strain cite the following doi:
https://doi.org/10.13145/bacdive132588.20260601.11
When using BacDive for research please cite the following paper
BacDive in 2025: the core database for prokaryotic strain dataIsabel Schober, Julia Koblitz, Joaquim Sardà Carbasse, Christian Ebeling, Marvin Leon Schmidt, Adam Podstawka, Rohit Gupta, Vinodh Ilangovan, Javad Chamanara, Jörg Overmann, Lorenz Christian Reimer
Nucleic Acids Research; database issue 2025.
License