Roseburia hominis (DSM 16839, CIP 109406, JCM 17582)

Name: Roseburia hominis (DSM 16839, CIP 109406, JCM 17582)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 6367

Type strain

Strain Designation A2-183

Culture col. no. DSM 16839 CIP 109406 JCM 17582 NCIMB 14029 A2-183 1 more

NCBI tax ID(s) 301301

Special Collections DSMZ JCM CIP

Links

Roseburia hominis A2-183 is an anaerobe, mesophilic prokaryote that was isolated from human faecal sample.

anaerobe mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 237167

JCM 17582,NCIMB 14029,DSM 16839,CIP 109406

@ref 20215

Last LPSN update 2025-12-16 09:48:18

Domain Bacillati

Phylum Bacillota

Class Clostridia

Order Eubacteriales

Family Lachnospiraceae

Genus Roseburia

Species Roseburia hominis

Full scientific name Roseburia hominis Duncan et al. 2006

BacDive ID	Other strains from **Roseburia hominis** (1)	Type strain
164026	R. hominis JCM 31337

Morphology

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
6625	BIFIDOBACTERIUM MEDIUM (DSMZ Medium 58)		Medium recipe at MediaDive	Name: BIFIDOBACTERIUM MEDIUM (DSMZ Medium 58) Composition: Glucose 10.0 g/l Casein peptone 10.0 g/l Bacto Soytone 5.0 g/l Meat extract 5.0 g/l Yeast extract 5.0 g/l L-Cysteine HCl x H2O 0.5 g/l NaHCO3 0.4 g/l NaCl 0.08 g/l MnSO4 x H2O 0.05 g/l KH2PO4 0.04 g/l K2HPO4 0.04 g/l MgSO4 x 7 H2O 0.02 g/l CaCl2 x 2 H2O 0.01 g/l Tween 80 Resazurin Distilled water
6625	YCFA-MEDIUM (MODIFIED) (DSMZ Medium 1611)		Medium recipe at MediaDive	Name: YCFA-MEDIUM (MODIFIED) (DSMZ Medium 1611) Composition: Casitone 10.0 g/l Glucose 5.0 g/l NaHCO3 4.0 g/l Yeast extract 2.5 g/l Acetic acid 1.78695 g/l L-Cysteine HCl 1.0 g/l NaCl 0.9 g/l Propionic acid 0.62559 g/l KH2PO4 0.45 g/l K2HPO4 0.45 g/l CaCl2 x 2 H2O 0.09 g/l n-Valeric acid 0.08451 g/l iso-Valeric acid 0.0837899 g/l iso-Butyric acid 0.07695 g/l MgSO4 x 7 H2O 0.045 g/l Hemin 0.01 g/l Resazurin 0.001 g/l Pyridoxine hydrochloride 0.0001 g/l Nicotinic acid 5e-05 g/l Thiamine-HCl x 2 H2O 5e-05 g/l Riboflavin 5e-05 g/l D-Calcium pantothenate 5e-05 g/l p-Aminobenzoic acid 5e-05 g/l Lipoic acid 5e-05 g/l Folic acid 2e-05 g/l Biotin 2e-05 g/l Vitamin B12 1e-06 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
6625	positive	growth	37
67770	positive	growth	37	mesophilic

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
6625	anaerobe
125438	anaerobe	96.956
125439	facultative anaerobe	99.2

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
68380	29016 ChEBI	arginine	-	hydrolysis	from API rID32A
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	27897 ChEBI	tryptophan	-	energy source	from API rID32A
68380	16199 ChEBI	urea	-	hydrolysis	from API rID32A

Metabolite production

@ref	Chebi-ID	Metabolite	Production
68380	35581 ChEBI	indole		from API rID32A

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
68380	alpha-fucosidase	-	3.2.1.51	from API rID32A
68380	alpha-galactosidase	+	3.2.1.22	from API rID32A
68380	arginine dihydrolase	-	3.5.3.6	from API rID32A
68380	beta-galactosidase	+	3.2.1.23	from API rID32A
68380	beta-Galactosidase 6-phosphate	-		from API rID32A
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
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

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
6625	-	-	+	+	-	-	+/-	-	-	-	-	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
6625	-	-	+	+	-	+/-	+	+/-	+/-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Host	#Human	-
#Host Body Product	#Gastrointestinal tract	#Feces (Stool)

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
6625	human faecal sample	Scotland, Aberdeen	United Kingdom	GBR	Europe
67770	Human feces in Aberdeen	Scotland	United Kingdom	GBR	Europe

Taxonmaps

69479

Global distribution of 16S sequence AB661434 (>99% sequence identity) for Roseburia hominis subclade from Microbeatlas

Aquatic Samples	676
Soil Samples	184
Animal Samples	56516
Plant Samples	92
Total Samples	57468

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
6625	1	Risk group (German classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ASM22534v1 assembly for Roseburia hominis A2-183	complete	GCA_000225345	585394.18	2511231128	585394	97.42

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
6625	Roseburia hominis A2-183 16S rRNA gene, type strain A2-183T	AJ270482	1485		585394
67770	Roseburia hominis gene for 16S ribosomal RNA, partial sequence, strain: JCM 17582	AB661434	1493		301301

GC content

@ref	GC-content (mol%)	Method
6625	47.4
67770	47.4	high performance liquid chromatography (HPLC)

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Roseburia hominis A2-183
NCBI: GCA_000225345

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	yes	87.50	no
125439	motility	BacteriaNetⓘ	yes	89.40	no
125439	gram_stain	BacteriaNetⓘ	positive	74.30	no
125439	oxygen_tolerance	BacteriaNetⓘ	facultative anaerobe	99.20	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Roseburia hominis A2-183 A2-183
NCBI: GCA_000225345.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	71.70	no
125438	anaerobic	anaerobicⓘ	yes	96.96	yes
125438	aerobic	aerobicⓘ	no	99.68	yes
125438	spore-forming	spore-formingⓘ	yes	51.10	no
125438	thermophilic	thermophileⓘ	no	91.95	no
125438	flagellated	motile2+ⓘ	yes	75.94	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Metabolism	Roseburia hominis enriched by baicalin reverses the non-response to metformin via upregulating linolenic acid metabolism.	Miao Z, Long J, Huang B, Yan D, Wang A.	iScience	10.1016/j.isci.2025.113892	2025
	Gut microbiota facilitate chronic spontaneous urticaria.	Zhu L, Jian X, Zhou B, Liu R, Munoz M, Sun W, Xie L, Chen X, Peng C, Maurer M, Li J.	Nat Commun	10.1038/s41467-023-44373-x	2024
Genetics	Growth stage and interspecies interactions shape the cell biology and cell cycle characteristics of human gut bacteria Bacteroides thetaiotaomicron and Roseburia intestinalis.	Liu B, Sondervorst K, Nesporova K, Faust K, Govers SK.	Commun Biol	10.1038/s42003-025-08949-1	2025
	SEMQuant: Extending Sipros-Ensemble with Match-Between-Runs for Comprehensive Quantitative Metaproteomics.	Zhang B, Feng S, Parajuli M, Xiong Y, Pan C, Guo X.	Bioinform Res Appl	10.1007/978-981-97-5087-0_9	2024
Pathogenicity	Butyrate producers, "The Sentinel of Gut": Their intestinal significance with and beyond butyrate, and prospective use as microbial therapeutics.	Singh V, Lee G, Son H, Koh H, Kim ES, Unno T, Shin JH.	Front Microbiol	10.3389/fmicb.2022.1103836	2022
Genetics	The estrobolome: Estrogen-metabolizing pathways of the gut microbiome and their relation to breast cancer.	Larnder AH, Manges AR, Murphy RA.	Int J Cancer	10.1002/ijc.35427	2025
	The waxy mutation in sorghum and other cereal grains reshapes the gut microbiome by reducing levels of multiple beneficial species.	Yang Q, Van Haute M, Korth N, Sattler S, Rose D, Juritsch A, Shao J, Beede K, Schmaltz R, Price J, Toy J, Ramer-Tait AE, Benson AK.	Gut Microbes	10.1080/19490976.2023.2178799	2023
	Novel Fermented Plant-Based Functional Beverage: Biological Potential and Impact on the Human Gut Microbiota.	Vila-Real C, Costa C, Pimenta-Martins A, Mbugua S, Hagretou SL, Katina K, Maina NH, Pinto E, Gomes AMP.	Foods	10.3390/foods14030433	2025
	Evolutionary Insights Into Microbiota Transplantation in Inflammatory Bowel Disease.	Wang X, Zhao J, Feng Y, Feng Z, Ye Y, Liu L, Kang G, Cao X.	Front Cell Infect Microbiol	10.3389/fcimb.2022.916543	2022
Metabolism	Structure-dependent stimulation of gut bacteria by arabinoxylo-oligosaccharides (AXOS): a review.	Leschonski KP, Mortensen MS, Hansen LBS, Krogh KBRM, Kabel MA, Laursen MF.	Gut Microbes	10.1080/19490976.2024.2430419	2024
	Lactate cross-feeding between Bifidobacterium species and Megasphaera indica contributes to butyrate formation in the human colonic environment.	Zhao S, Lau R, Zhong Y, Chen M-H.	Appl Environ Microbiol	10.1128/aem.01019-23	2024
Metabolism	Gut microbial beta-glucuronidase and glycerol/diol dehydratase activity contribute to dietary heterocyclic amine biotransformation.	Zhang J, Lacroix C, Wortmann E, Ruscheweyh HJ, Sunagawa S, Sturla SJ, Schwab C.	BMC Microbiol	10.1186/s12866-019-1483-x	2019
Metabolism	Butyrate producing colonic Clostridiales metabolise human milk oligosaccharides and cross feed on mucin via conserved pathways.	Pichler MJ, Yamada C, Shuoker B, Alvarez-Silva C, Gotoh A, Leth ML, Schoof E, Katoh T, Sakanaka M, Katayama T, Jin C, Karlsson NG, Arumugam M, Fushinobu S, Abou Hachem M.	Nat Commun	10.1038/s41467-020-17075-x	2020
	Linking human milk oligosaccharide metabolism and early life gut microbiota: bifidobacteria and beyond.	Lordan C, Roche AK, Delsing D, Nauta A, Groeneveld A, MacSharry J, Cotter PD, van Sinderen D.	Microbiol Mol Biol Rev	10.1128/mmbr.00094-23	2024
	The Unique Seed Protein Composition of Quality Protein Popcorn Promotes Growth of Beneficial Bacteria From the Human Gut Microbiome.	Korth N, Parsons L, Van Haute MJ, Yang Q, Hurst P, Schnable JC, Holding DR, Benson AK.	Front Microbiol	10.3389/fmicb.2022.921456	2022
Phylogeny	Pipeline for amplifying and analyzing amplicons of the V1-V3 region of the 16S rRNA gene.	Allen HK, Bayles DO, Looft T, Trachsel J, Bass BE, Alt DP, Bearson SM, Nicholson T, Casey TA.	BMC Res Notes	10.1186/s13104-016-2172-6	2016
Phylogeny	Vertebrate host phylogeny influences gut archaeal diversity.	Youngblut ND, Reischer GH, Dauser S, Maisch S, Walzer C, Stalder G, Farnleitner AH, Ley RE.	Nat Microbiol	10.1038/s41564-021-00980-2	2021
	Developing standards for the microbiome field.	Amos GCA, Logan A, Anwar S, Fritzsche M, Mate R, Bleazard T, Rijpkema S.	Microbiome	10.1186/s40168-020-00856-3	2020
Metabolism	Butyrate-producing bacteria supplemented in vitro to Crohn's disease patient microbiota increased butyrate production and enhanced intestinal epithelial barrier integrity.	Geirnaert A, Calatayud M, Grootaert C, Laukens D, Devriese S, Smagghe G, De Vos M, Boon N, Van de Wiele T.	Sci Rep	10.1038/s41598-017-11734-8	2017
	A low-cost paper-based synthetic biology platform for analyzing gut microbiota and host biomarkers.	Takahashi MK, Tan X, Dy AJ, Braff D, Akana RT, Furuta Y, Donghia N, Ananthakrishnan A, Collins JJ.	Nat Commun	10.1038/s41467-018-05864-4	2018
	Bifidobacteria and Butyrate-Producing Colon Bacteria: Importance and Strategies for Their Stimulation in the Human Gut.	Riviere A, Selak M, Lantin D, Leroy F, De Vuyst L.	Front Microbiol	10.3389/fmicb.2016.00979	2016
	Coculture of Bifidobacterium bifidum G9-1 With Butyrate-Producing Bacteria Promotes Butyrate Production.	Yokota H, Tanaka Y, Ohno H.	Microbiol Immunol	10.1111/1348-0421.13224	2025
	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	Characterization of fructooligosaccharide metabolism and fructooligosaccharide-degrading enzymes in human commensal butyrate producers.	Tanno H, Fujii T, Hirano K, Maeno S, Tonozuka T, Sakamoto M, Ohkuma M, Tochio T, Endo A.	Gut Microbes	10.1080/19490976.2020.1869503	2021
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
	Human Gut Symbiont Roseburia hominis Promotes and Regulates Innate Immunity.	Patterson AM, Mulder IE, Travis AJ, Lan A, Cerf-Bensussan N, Gaboriau-Routhiau V, Garden K, Logan E, Delday MI, Coutts AGP, Monnais E, Ferraria VC, Inoue R, Grant G, Aminov RI	Front Immunol	10.3389/fimmu.2017.01166	2017
Genetics	Complete Genome Sequence of the Human Gut Symbiont Roseburia hominis.	Travis AJ, Kelly D, Flint HJ, Aminov RI	Genome Announc	10.1128/genomeA.01286-15	2015
Metabolism	In vitro kinetics of prebiotic inulin-type fructan fermentation by butyrate-producing colon bacteria: implementation of online gas chromatography for quantitative analysis of carbon dioxide and hydrogen gas production.	Falony G, Verschaeren A, De Bruycker F, De Preter V, Verbeke K, Leroy F, De Vuyst L	Appl Environ Microbiol	10.1128/AEM.00876-09	2009
Metabolism	Mechanism of conjugated linoleic acid and vaccenic acid formation in human faecal suspensions and pure cultures of intestinal bacteria.	McIntosh FM, Shingfield KJ, Devillard E, Russell WR, Wallace RJ	Microbiology (Reading)	10.1099/mic.0.022921-0	2009
Metabolism	Distribution of beta-glucosidase and beta-glucuronidase activity and of beta-glucuronidase gene gus in human colonic bacteria.	Dabek M, McCrae SI, Stevens VJ, Duncan SH, Louis P	FEMS Microbiol Ecol	10.1111/j.1574-6941.2008.00520.x	2008
Phylogeny	Pararoseburia lenta gen. nov., sp. nov. isolated from human faeces.	Abdugheni R, Wang YJ, Li DH, Du MX, Liu C, Zhou N, Liu SJ	Int J Syst Evol Microbiol	10.1099/ijsem.0.005371	2022
Phylogeny	Proposal of Roseburia faecis sp. nov., Roseburia hominis sp. nov. and Roseburia inulinivorans sp. nov., based on isolates from human faeces.	Duncan SH, Aminov RI, Scott KP, Louis P, Stanton TB, Flint HJ	Int J Syst Evol Microbiol	10.1099/ijs.0.64098-0	2006

References

#6625	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 16839
#20215	Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.: List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ. IJSEM ( DOI 10.1099/ijsem.0.004332 )
#66792	Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#68380	Automatically annotated from API rID32A .
#69479	João F Matias Rodrigues, Janko Tackmann,Gregor Rot, Thomas SB Schmidt, Lukas Malfertheiner, Mihai Danaila,Marija Dmitrijeva, Daniela Gaio, Nicolas Näpflin and Christian von Mering. University of Zurich.: MicrobeAtlas 1.0 beta .
#125438	Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann: Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets. 2024 ( DOI 10.1101/2024.08.12.607695 )
#125439	Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy: deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 .
#126262	A. Lissin, I. Schober, J. F. Witte, H. Lüken, A. Podstawka, J. Koblitz, B. Bunk, P. Dawyndt, P. Vandamme, P. de Vos, J. Overmann, L. C. Reimer: StrainInfo—the central database for linked microbial strain identifiers. ( DOI 10.1093/database/baaf059 )

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Roseburia hominis (DSM 16839, CIP 109406, JCM 17582)

Name and taxonomic classification

Morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Metabolite utilization

Metabolite production

Metabolite tests

Enzymes

API rID32A

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_000225345

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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