Faecalibaculum rodentium (DSM 103405, JCM 30274, KCTC 15484)

Name: Faecalibaculum rodentium (DSM 103405, JCM 30274, KCTC 15484)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 132424

Type strain

Culture col. no. DSM 103405 JCM 30274 KCTC 15484 ALO 17

NCBI tax ID(s) 1702221

Special Collections DSMZ JCM KCTC

History <- JCM, Riken BioResource Center, Tsukuba, Japan; JCM 30274 <-B.C. Kim, KCTC, South Korea; ALO17 B.-C. Kim; KCTC, South Korea; ALO17. <- BC Kim, KRIBB

Links

Faecalibaculum rodentium DSM 103405 is an anaerobe, rod-shaped bacterium that was isolated from faeces, female C57BL/6 J mouse.

rod-shaped anaerobe genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 402765

KCTC 15484,JCM 30274,DSM 103405

@ref 20215

Last LPSN update 2026-02-09 11:31:42

Domain Bacteria

Phylum Bacillota

Class Erysipelotrichia

Order Erysipelotrichales

Family Erysipelotrichaceae

Genus Faecalibaculum

Species Faecalibaculum rodentium

Full scientific name Faecalibaculum rodentium Chang et al. 2016

BacDive ID	Other strains from **Faecalibaculum rodentium** (1)	Type strain
169656	F. rodentium CLA-AV-15, DSM 110083

Morphology

Cell morphology

@ref	Cell shape	Motility	Gram stain
67771	rod-shaped
67771			positive

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
24213	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

Culture temp

@ref	Growth	Type	Temperature (°C)
24213	positive	growth	37
67770	positive	growth	37
67771	positive	growth	37

Physiology and metabolism

Oxygen tolerance

67771

Oxygen toleranceanaerobe

Spore formation

67771

Spore formationno

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	ribulose monophosphate pathway	100	2 of 2
66794	L-lactaldehyde degradation	100	3 of 3
66794	coenzyme A metabolism	100	4 of 4
66794	teichoic acid biosynthesis	100	1 of 1
66794	cardiolipin biosynthesis	100	7 of 7
66794	CDP-diacylglycerol biosynthesis	100	2 of 2
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	folate polyglutamylation	100	1 of 1
66794	suberin monomers biosynthesis	100	2 of 2
66794	methylglyoxal degradation	100	5 of 5
66794	adipate degradation	100	2 of 2
66794	peptidoglycan biosynthesis	93.33	14 of 15
66794	threonine metabolism	90	9 of 10
66794	aspartate and asparagine metabolism	88.89	8 of 9
66794	chorismate metabolism	88.89	8 of 9
66794	Entner Doudoroff pathway	80	8 of 10
66794	starch degradation	80	8 of 10
66794	cellulose degradation	80	4 of 5
66794	metabolism of amino sugars and derivatives	80	4 of 5
66794	photosynthesis	78.57	11 of 14
66794	valine metabolism	77.78	7 of 9
66794	d-mannose degradation	77.78	7 of 9
66794	palmitate biosynthesis	77.27	17 of 22
66794	phenylalanine metabolism	76.92	10 of 13
66794	ppGpp biosynthesis	75	3 of 4
66794	acetate fermentation	75	3 of 4
66794	glycogen biosynthesis	75	3 of 4
66794	C4 and CAM-carbon fixation	75	6 of 8
66794	butanoate fermentation	75	3 of 4
66794	isoleucine metabolism	75	6 of 8
66794	NAD metabolism	72.22	13 of 18
66794	glutamate and glutamine metabolism	71.43	20 of 28
66794	reductive acetyl coenzyme A pathway	71.43	5 of 7
66794	propanol degradation	71.43	5 of 7
66794	glycolysis	70.59	12 of 17
66794	pyrimidine metabolism	68.89	31 of 45
66794	acetoin degradation	66.67	2 of 3
66794	serine metabolism	66.67	6 of 9
66794	formaldehyde oxidation	66.67	2 of 3
66794	octane oxidation	66.67	2 of 3
66794	purine metabolism	64.89	61 of 94
66794	metabolism of disaccharids	63.64	7 of 11
66794	pentose phosphate pathway	63.64	7 of 11
66794	gluconeogenesis	62.5	5 of 8
66794	dTDPLrhamnose biosynthesis	62.5	5 of 8
66794	degradation of sugar alcohols	62.5	10 of 16
66794	hydrogen production	60	3 of 5
66794	glycogen metabolism	60	3 of 5
66794	factor 420 biosynthesis	60	3 of 5
66794	glycine betaine biosynthesis	60	3 of 5
66794	citric acid cycle	57.14	8 of 14
66794	CO2 fixation in Crenarchaeota	55.56	5 of 9
66794	tryptophan metabolism	55.26	21 of 38
66794	histidine metabolism	55.17	16 of 29
66794	alanine metabolism	55.17	16 of 29
66794	oxidative phosphorylation	54.95	50 of 91
66794	degradation of hexoses	50	9 of 18
66794	cis-vaccenate biosynthesis	50	1 of 2
66794	ethanol fermentation	50	1 of 2
66794	CMP-KDO biosynthesis	50	2 of 4
66794	heme metabolism	50	7 of 14
66794	glycolate and glyoxylate degradation	50	3 of 6
66794	phenylmercury acetate degradation	50	1 of 2
66794	kanosamine biosynthesis II	50	1 of 2
66794	ketogluconate metabolism	50	4 of 8
66794	tetrahydrofolate metabolism	50	7 of 14
66794	toluene degradation	50	2 of 4
66794	arginine metabolism	50	12 of 24
66794	isoprenoid biosynthesis	50	13 of 26
66794	methionine metabolism	50	13 of 26
66794	leucine metabolism	46.15	6 of 13
66794	vitamin B1 metabolism	46.15	6 of 13
66794	proline metabolism	45.45	5 of 11
66794	lysine metabolism	45.24	19 of 42
66794	cysteine metabolism	44.44	8 of 18
66794	tyrosine metabolism	42.86	6 of 14
66794	glutathione metabolism	42.86	6 of 14
66794	degradation of aromatic, nitrogen containing compounds	41.67	5 of 12
66794	flavin biosynthesis	40	6 of 15
66794	glycine metabolism	40	4 of 10
66794	degradation of pentoses	39.29	11 of 28
66794	lipid metabolism	38.71	12 of 31
66794	urea cycle	38.46	5 of 13
66794	sulfate reduction	38.46	5 of 13
66794	carnitine metabolism	37.5	3 of 8
66794	non-pathway related	36.84	14 of 38
66794	d-xylose degradation	36.36	4 of 11
66794	degradation of sugar acids	36	9 of 25
66794	IAA biosynthesis	33.33	1 of 3
66794	selenocysteine biosynthesis	33.33	2 of 6
66794	sphingosine metabolism	33.33	2 of 6
66794	acetyl CoA biosynthesis	33.33	1 of 3
66794	nitrate assimilation	33.33	3 of 9
66794	molybdenum cofactor biosynthesis	33.33	3 of 9
66794	4-hydroxymandelate degradation	33.33	3 of 9
66794	lipid A biosynthesis	33.33	3 of 9
66794	phosphatidylethanolamine bioynthesis	30.77	4 of 13
66794	phenol degradation	30	6 of 20
66794	coenzyme M biosynthesis	30	3 of 10
66794	4-hydroxyphenylacetate degradation	30	3 of 10
66794	myo-inositol biosynthesis	30	3 of 10
66794	bile acid biosynthesis, neutral pathway	29.41	5 of 17
66794	benzoyl-CoA degradation	28.57	2 of 7
66794	cyclohexanol degradation	25	1 of 4
66794	lactate fermentation	25	1 of 4
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	25	2 of 8
66794	ascorbate metabolism	22.73	5 of 22

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Host	#Mammals	#Muridae (Mouse/Rat)
#Host Body Product	#Gastrointestinal tract	#Feces (Stool)

Isolation

@ref	Sample type	Country	Country ISO 3 Code	Continent
24213	faeces, female C57BL/6 J mouse	Republic of Korea	KOR	Asia
67770	Mouse faeces
67771	From mouse faeces, 36-weeks(=9 month)-old female C57BL/6 J mouse	Republic of Korea	KOR	Asia

Taxonmaps

69479

Global distribution of 16S sequence KP881689 (>99% sequence identity) for Faecalibaculum rodentium subclade from Microbeatlas

Aquatic Samples	1524
Soil Samples	1546
Animal Samples	70176
Plant Samples	500
Total Samples	73746

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
24213	1	Risk group (German classification)

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
67770	ASM156445v1 assembly for Faecalibaculum rodentium ALO17	complete	GCA_001564455	1702221.14	2744054991	1702221	95.17

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
24213	Faecalibaculum rodentium strain ALO17 16S ribosomal RNA gene, partial sequence	KP881689	1487		1702221
124043	Bacillus subtilis strain KFP-17 16S ribosomal RNA gene, partial sequence.	KT380827	1487		1702221

GC content

@ref	GC-content (mol%)	Method
24213	52.3	high performance liquid chromatography (HPLC)
67771	52.3

Genome-based predictions

Literature

Topic	Title	Authors	Journal	DOI	Year
	Disentangling the impact of obesity, diet, host factors, and microbiota on small intestinal antimicrobial peptide expression.	Puertolas-Balint F, Prasoodanan P K V, Holmberg SM, Schroeder BO.	Gut Microbes	10.1080/19490976.2025.2536095	2025
Metabolism	Sulfoquinovose is exclusively metabolized by the gut microbiota and degraded differently in mice and humans.	Krasenbrink J, Hanson BT, Weiss AS, Borusak S, Tanabe TS, Lang M, Aichinger G, Hausmann B, Berry D, Richter A, Marko D, Mussmann M, Schleheck D, Stecher B, Loy A.	Microbiome	10.1186/s40168-025-02175-x	2025
	Antibiotic-induced disturbances of the gut microbiota result in accelerated breast tumor growth.	McKee AM, Kirkup BM, Madgwick M, Fowler WJ, Price CA, Dreger SA, Ansorge R, Makin KA, Caim S, Le Gall G, Paveley J, Leclaire C, Dalby M, Alcon-Giner C, Andrusaite A, Feng TY, Di Modica M, Triulzi T, Tagliabue E, Milling SWF, Weilbaecher KN, Rutkowski MR, Korcsmaros T, Hall LJ, Robinson SD.	iScience	10.1016/j.isci.2021.103012	2021
	The microbiota conditions a gut milieu that selects for wild-type Salmonella Typhimurium virulence.	Gul E, Bakkeren E, Salazar G, Steiger Y, Abi Younes A, Clerc M, Christen P, Fattinger SA, Nguyen BD, Kiefer P, Slack E, Ackermann M, Vorholt JA, Sunagawa S, Diard M, Hardt WD.	PLoS Biol	10.1371/journal.pbio.3002253	2023
	Gut-derived Faecalibaculum rodentium exerts anti-cancer effects on colorectal cancer by modulating PDPN-CLEC-2 signaling pathway.	Yang X, Liu M, Wang T, Ma X, Guan Z, Ma B, Duan X, Su C.	mSystems	10.1128/msystems.00148-25	2025
Genetics	Whole genome sequencing of "Faecalibaculum rodentium" ALO17, isolated from C57BL/6J laboratory mouse feces.	Lim S, Chang DH, Ahn S, Kim BC	Gut Pathog	10.1186/s13099-016-0087-3	2016
Phylogeny	Faecalibaculum rodentium gen. nov., sp. nov., isolated from the faeces of a laboratory mouse.	Chang DH, Rhee MS, Ahn S, Bang BH, Oh JE, Lee HK, Kim BC	Antonie Van Leeuwenhoek	10.1007/s10482-015-0583-3	2015

References

#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 )
#24213	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 103405
#66794	Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg: BRENDA, the ELIXIR core data resource in 2021: new developments and updates. Nucleic Acids Res. 49: D498 - D508 2020 ( DOI 10.1093/nar/gkaa1025 , PubMed 33211880 )
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#67771	Korean Collection for Type Cultures (KCTC) ; Curators of the KCTC;
#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 .
#124043	Isabel Schober, Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy .
#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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Faecalibaculum rodentium (DSM 103405, JCM 30274, KCTC 15484)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Pathway annotation

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_001564455

16S sequences

GC content

Genome-based predictions

Literature

Literature

References

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