Rubneribacter badeniensis (DSM 105129, JCM 32272, ResAG-85)

Name: Rubneribacter badeniensis (DSM 105129, JCM 32272, ResAG-85)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 158400

Type strain

Strain Designation ResAG-85

Culture col. no. DSM 105129 JCM 32272 ResAG-85

NCBI tax ID(s) 2070688

Special Collections DSMZ JCM Literature strains

History DSMZ <- M. Huch, Max Rubner-Inst. (MRI), Federal Res. Inst. Nutrition and Food, Karlsruhe, Germany; ResAG-85 <- N. Danylec <- D. Stoll JCM <-- M. Huch; Max Rubner-Inst., Germany; ResAG-85.

Links

Rubneribacter badeniensis ResAG-85 is an obligate anaerobe, Gram-positive, rod-shaped bacterium that was isolated from faecal sample, 30-years-old male.

Gram-positive rod-shaped obligate anaerobe genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 405437

JCM 32272,DSM 105129

@ref 20215

Last LPSN update 2026-05-29 08:43:57

Domain Bacteria

Phylum Actinomycetota

Class Coriobacteriia

Order Eggerthellales

Family Eggerthellaceae

Genus Rubneribacter

Species Rubneribacter badeniensis

Full scientific name Rubneribacter badeniensis Danylec et al. 2018

BacDive ID	Other strains from **Rubneribacter badeniensis** (1)	Type strain
160763	R. badeniensis Cla-CZ-151, DSM 108036

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Motility
65555	positive	1 µm	0.3 µm	rod-shaped

Colony morphology

@ref	Colony color	Incubation period	Medium used
65555	pale-white	2-3 days	BHI

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
65076	WILKINS-CHALGREN ANAEROBE BROTH (DSMZ Medium 339)		Medium recipe at MediaDive	Name: WILKINS-CHALGREN ANAEROBE BROTH (DSMZ Medium 339) Composition: dehydrated Wilkins-Chalgren medium 33.0 g/l L-Cysteine HCl 0.3 g/l Sodium resazurin 0.0005 g/l Distilled water
65555	BHI

Culture temp

@ref	Growth	Type	Temperature (°C)
65076	positive	growth	37
65555	positive	growth	37
67770	positive	growth	37

Physiology and metabolism

Oxygen tolerance

65555

Oxygen toleranceobligate anaerobe

Spore formation

@ref	Spore formation	Confidence
125439		99.456

Observation

@ref	Observation
65555	trans-resveratrol not metabolized to dihydroresveratol or lunularin
67770	quinones: MK-7, MK-5, MK-6

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
65555	22599 ChEBI	arabinose	-	builds acid from
65555	17057 ChEBI	cellobiose	-	builds acid from
65555	4853 ChEBI	esculin	-	hydrolysis
65555	5291 ChEBI	gelatin	-	hydrolysis
65555	17234 ChEBI	glucose	-	builds acid from
65555	17754 ChEBI	glycerol	-	builds acid from
65555	17716 ChEBI	lactose	-	builds acid from
65555	17306 ChEBI	maltose	-	builds acid from
65555	29864 ChEBI	mannitol	-	builds acid from
65555	37684 ChEBI	mannose	-	builds acid from
65555	37684 ChEBI	mannose	-	fermentation
65555	6731 ChEBI	melezitose	-	builds acid from
65555	17632 ChEBI	nitrate	-	reduction
65555	16634 ChEBI	raffinose	-	builds acid from
65555	16634 ChEBI	raffinose	-	fermentation
65555	26546 ChEBI	rhamnose	-	builds acid from
65555	17814 ChEBI	salicin	-	builds acid from
65555	30911 ChEBI	sorbitol	-	builds acid from
65555	17992 ChEBI	sucrose	-	builds acid from
65555	27082 ChEBI	trehalose	-	builds acid from
65555	18222 ChEBI	xylose	-	builds acid from

Antibiotic resistance

@ref	ChEBI	Metabolite	Resistance conc.
65555	28971	ampicillin	1 µg/mL
65555	17698	chloramphenicol	5 µg/mL
65555	37943	colistin	5 µg/mL

Metabolite production

@ref	Chebi-ID	Metabolite	Production
65555	35581 ChEBI	indole

Enzymes

@ref	Value	Activity	Ec
65555	alanine arylamidase	+	3.4.11.2
65555	alkaline phosphatase	-	3.1.3.1
65555	alpha-arabinosidase	-	3.2.1.55
65555	alpha-fucosidase	-	3.2.1.51
65555	alpha-galactosidase	-	3.2.1.22
65555	alpha-glucosidase	-	3.2.1.20
65555	arginine arylamidase	-
65555	arginine dihydrolase	+	3.5.3.6
65555	beta-galactosidase	-	3.2.1.23
65555	beta-glucosidase	-	3.2.1.21
65555	beta-glucuronidase	-	3.2.1.31
65555	catalase	-	1.11.1.6
65555	cytochrome oxidase	-	1.9.3.1
65555	glutamate decarboxylase	-	4.1.1.15
65555	glutamyl-glutamate arylamidase	-
65555	glycin arylamidase	+
65555	histidine arylamidase	+
65555	leucine arylamidase	+	3.4.11.1
65555	leucyl glycin arylamidase	-	3.4.11.1
65555	N-acetyl-beta-glucosaminidase	-	3.2.1.52
65555	phenylalanine arylamidase	+
65555	proline-arylamidase	+	3.4.11.5
65555	pyroglutamic acid arylamidase	-
65555	serine arylamidase	+
65555	tyrosine arylamidase	+
65555	urease	-	3.5.1.5

Isolation, sampling and environmental information

Isolation source categories

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

Isolation

@ref	Sample type	Host species	Geographic location	Country	Country ISO 3 Code	Continent	Enrichment culture	Enrichment culture composition	Enrichment culture duration	Enrichment culture temperature
65076	faecal sample, 30-years-old male		Karlsruhe	Germany	DEU	Europe
65555	faecal sample of 30 year old, human, male, moderately obese (BMI 33.2 kg/m2)	Homo sapiens	Karlsruhe	Germany	DEU	Europe	BHI	10 ml BHI supplemented with ampicillin (1 µg/ml), colistin (5 µg/ml), chloramphenicol (5 µg/ml), cholic acid (18 µg/ml) and trans-resveratrol (80 µM)	2 days	37
67770	Fecal sample of a 30-year old, human, male, moderately obese volunteer	Homo sapiens	Karlsruhe	Germany	DEU	Europe

Interaction and safety

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
67770	ASM289969v1 assembly for Rubneribacter badeniensis ResAG-85	contig	GCA_002899695	2070688.3	2831401355	2070688	36.01

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
65076	Rubneribacter badeniensis strain ResAG-85 16S ribosomal RNA gene, partial sequence	KY595971	1365		2070688

GC content

@ref	GC-content (mol%)	Method
65076	65.1
65555	65.1	genome sequence analysis

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: ASM289969v1 assembly for Rubneribacter badeniensis ResAG-85
NCBI: GCA_002899695

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	anaerobe	77.20	no
125439	motility	BacteriaNetⓘ	yes	69.85	no
125439	gram_stain	BacteriaNetⓘ	negative	77.02	no
125439	spore_formation	BacteriaNetⓘ	no	99.46	no

Literature

Topic	Title	Authors	Journal	DOI	Year
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
Phylogeny	Rubneribacter badeniensis gen. nov., sp. nov. and Enteroscipio rubneri gen. nov., sp. nov., new members of the Eggerthellaceae isolated from human faeces.	Danylec N, Gobl A, Stoll DA, Hetzer B, Kulling SE, Huch M	Int J Syst Evol Microbiol	10.1099/ijsem.0.002705	2018

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 )
#65076	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 105129
#65555	Nicolas Danylec, Andrea Göbl, Dominic A. Stoll, Birgit Hetzer, Sabine E. Kulling and Melanie Huch: Rubneribacter badeniensis gen. nov., sp. nov. and Enteroscipio rubneri gen. nov., sp. nov., new members of the Eggerthellaceae isolated from human faeces. IJSEM 68: 1533 - 1540 2018 ( DOI 10.1099/ijsem.0.002705 , PubMed 29537365 )
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#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 )

Content

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Rubneribacter badeniensis (DSM 105129, JCM 32272, ResAG-85)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Observation

Metabolite utilization

Antibiotic resistance

Metabolite production

Enzymes

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Sequence information

Genome sequences

Genome browser: GCA_002899695

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

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