Anaerocolumna aminovalerica (DSM 1283, ATCC 13725, JCM 11016)

Name: Anaerocolumna aminovalerica (DSM 1283, ATCC 13725, JCM 11016)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 2542

Type strain

Strain Designation 10017

Culture col. no. DSM 1283 ATCC 13725 JCM 11016 NCIB 10631 NCIMB 10631 4 more

NCBI tax ID(s) 1121297 1527

Special Collections DSMZ JCM CIP

History <- ATCC <- J. K. Hardman and T. C. Stadtman, National Heart Institute, Bethesda, Maryland, USA {1957} ATCC 13725 <-- J. K. Hardman and T. C. Stadtman. CIP <- 1994, J.P. Carlier, Inst. Pasteur, Paris, France: strain 10017 <- ATCC <- J.K. Hardman and T.C. Stadtman

Links

Anaerocolumna aminovalerica 10017 is an anaerobe, mesophilic prokaryote that was isolated from swamp mud.

anaerobe mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 35870

ATCC 13725,CIP 104304,DSM 1283,NCIB 10631,JCM 11016,NCIMB 10631,BCRC 14474,CCRC 14474,JCM 1421

@ref 20215

Last LPSN update 2026-02-09 11:18:18

Domain Bacteria

Phylum Bacillota

Class Clostridia

Order Eubacteriales

Family Lachnospiraceae

Genus Anaerocolumna

Species Anaerocolumna aminovalerica

Full scientific name Anaerocolumna aminovalerica (Hardman and Stadtman 1960) Ueki et al. 2016

Synonyms (1)

Clostridium aminovalericum

Morphology

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
603	CHOPPED MEAT MEDIUM WITH CARBOHYDRATES (DSMZ Medium 110)	Medium recipe at MediaDive	Name: CHOPPED MEAT MEDIUM WITH CARBOHYDRATES (DSMZ Medium 110) Composition: Ground beef 500.0 g/l Casitone 30.0 g/l Agar 15.0 g/l K2HPO4 5.0 g/l Yeast extract 5.0 g/l D-Glucose 4.0 g/l Starch 1.0 g/l Maltose 1.0 g/l Cellobiose 1.0 g/l L-Cysteine HCl 0.5 g/l Ethanol 0.19 g/l Vitamin K3 0.05 g/l Hemin 0.005 g/l Sodium resazurin 0.0005 g/l Vitamin K1 NaOH Distilled water
41994	MEDIUM 20 - for Anaerobic bacteria		Agar (15.000 g);Glucose (5.000 g);Yeast extract (20.000 g);Tryptone (30.000 g);Cysteine hydrochloride (0.500 g);distilled water (1000.000 ml);Hemin solution -M00149 (25.000 ml)
116333	CIP Medium 20	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
603	positive	growth	37	mesophilic
41994	positive	growth	37	mesophilic
67770	positive	growth	37	mesophilic

Physiology and metabolism

Oxygen tolerance

603

Oxygen toleranceanaerobe

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	cellulose degradation	100	5 of 5
66794	propanol degradation	100	7 of 7
66794	L-lactaldehyde degradation	100	3 of 3
66794	methylglyoxal degradation	100	5 of 5
66794	threonine metabolism	100	10 of 10
66794	cardiolipin biosynthesis	100	7 of 7
66794	C4 and CAM-carbon fixation	100	8 of 8
66794	gluconeogenesis	100	8 of 8
66794	cis-vaccenate biosynthesis	100	2 of 2
66794	coenzyme A metabolism	100	4 of 4
66794	suberin monomers biosynthesis	100	2 of 2
66794	ceramide biosynthesis	100	1 of 1
66794	folate polyglutamylation	100	1 of 1
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	CDP-diacylglycerol biosynthesis	100	2 of 2
66794	teichoic acid biosynthesis	100	1 of 1
66794	palmitate biosynthesis	90.91	20 of 22
66794	starch degradation	90	9 of 10
66794	d-mannose degradation	88.89	8 of 9
66794	aspartate and asparagine metabolism	88.89	8 of 9
66794	chorismate metabolism	88.89	8 of 9
66794	reductive acetyl coenzyme A pathway	85.71	6 of 7
66794	phenylalanine metabolism	84.62	11 of 13
66794	glycolysis	82.35	14 of 17
66794	pyrimidine metabolism	82.22	37 of 45
66794	metabolism of amino sugars and derivatives	80	4 of 5
66794	Entner Doudoroff pathway	80	8 of 10
66794	peptidoglycan biosynthesis	80	12 of 15
66794	glycogen metabolism	80	4 of 5
66794	purine metabolism	79.79	75 of 94
66794	photosynthesis	78.57	11 of 14
66794	NAD metabolism	77.78	14 of 18
66794	molybdenum cofactor biosynthesis	77.78	7 of 9
66794	valine metabolism	77.78	7 of 9
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	75	6 of 8
66794	butanoate fermentation	75	3 of 4
66794	acetate fermentation	75	3 of 4
66794	glycogen biosynthesis	75	3 of 4
66794	ppGpp biosynthesis	75	3 of 4
66794	biotin biosynthesis	75	3 of 4
66794	methionine metabolism	73.08	19 of 26
66794	vitamin B12 metabolism	70.59	24 of 34
66794	polyamine pathway	69.57	16 of 23
66794	alanine metabolism	68.97	20 of 29
66794	degradation of sugar alcohols	68.75	11 of 16
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	acetoin degradation	66.67	2 of 3
66794	CO2 fixation in Crenarchaeota	66.67	6 of 9
66794	selenocysteine biosynthesis	66.67	4 of 6
66794	glycolate and glyoxylate degradation	66.67	4 of 6
66794	heme metabolism	64.29	9 of 14
66794	citric acid cycle	64.29	9 of 14
66794	d-xylose degradation	63.64	7 of 11
66794	dTDPLrhamnose biosynthesis	62.5	5 of 8
66794	isoleucine metabolism	62.5	5 of 8
66794	ketogluconate metabolism	62.5	5 of 8
66794	urea cycle	61.54	8 of 13
66794	glutamate and glutamine metabolism	60.71	17 of 28
66794	non-pathway related	60.53	23 of 38
66794	oxidative phosphorylation	60.44	55 of 91
66794	hydrogen production	60	3 of 5
66794	glycine betaine biosynthesis	60	3 of 5
66794	myo-inositol biosynthesis	60	6 of 10
66794	propionate fermentation	60	6 of 10
66794	arginine metabolism	58.33	14 of 24
66794	tryptophan metabolism	57.89	22 of 38
66794	tetrahydrofolate metabolism	57.14	8 of 14
66794	degradation of sugar acids	56	14 of 25
66794	cysteine metabolism	55.56	10 of 18
66794	histidine metabolism	55.17	16 of 29
66794	metabolism of disaccharids	54.55	6 of 11
66794	pentose phosphate pathway	54.55	6 of 11
66794	ethanol fermentation	50	1 of 2
66794	CMP-KDO biosynthesis	50	2 of 4
66794	ribulose monophosphate pathway	50	1 of 2
66794	degradation of aromatic, nitrogen containing compounds	50	6 of 12
66794	degradation of pentoses	50	14 of 28
66794	glycine metabolism	50	5 of 10
66794	adipate degradation	50	1 of 2
66794	sulfopterin metabolism	50	2 of 4
66794	aminopropanol phosphate biosynthesis	50	1 of 2
66794	lysine metabolism	47.62	20 of 42
66794	leucine metabolism	46.15	6 of 13
66794	proline metabolism	45.45	5 of 11
66794	degradation of hexoses	44.44	8 of 18
66794	nitrate assimilation	44.44	4 of 9
66794	ubiquinone biosynthesis	42.86	3 of 7
66794	ascorbate metabolism	40.91	9 of 22
66794	vitamin K metabolism	40	2 of 5
66794	arachidonate biosynthesis	40	2 of 5
66794	lipoate biosynthesis	40	2 of 5
66794	factor 420 biosynthesis	40	2 of 5
66794	phenylpropanoid biosynthesis	38.46	5 of 13
66794	isoprenoid biosynthesis	38.46	10 of 26
66794	phosphatidylethanolamine bioynthesis	38.46	5 of 13
66794	tyrosine metabolism	35.71	5 of 14
66794	lipid metabolism	35.48	11 of 31
66794	enterobactin biosynthesis	33.33	1 of 3
66794	acetyl CoA biosynthesis	33.33	1 of 3
66794	IAA biosynthesis	33.33	1 of 3
66794	methane metabolism	33.33	1 of 3
66794	sphingosine metabolism	33.33	2 of 6
66794	lipid A biosynthesis	33.33	3 of 9
66794	4-hydroxymandelate degradation	33.33	3 of 9
66794	sulfoquinovose degradation	33.33	1 of 3
66794	flavin biosynthesis	33.33	5 of 15
66794	vitamin B1 metabolism	30.77	4 of 13
66794	sulfate reduction	30.77	4 of 13
66794	coenzyme M biosynthesis	30	3 of 10
66794	glutathione metabolism	28.57	4 of 14
66794	aclacinomycin biosynthesis	28.57	2 of 7
66794	arachidonic acid metabolism	27.78	5 of 18
66794	carnitine metabolism	25	2 of 8
66794	phenol degradation	25	5 of 20
66794	cyclohexanol degradation	25	1 of 4
66794	lactate fermentation	25	1 of 4
66794	catecholamine biosynthesis	25	1 of 4
66794	toluene degradation	25	1 of 4
66794	allantoin degradation	22.22	2 of 9

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Engineered	#Waste	#Sewage sludge

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
603	swamp mud	North Carolina	USA	USA	North America
67770	Sewage sludge	Washington, D.C.	USA	USA	North America
116333	Environment, Sewage sludge	Washington	United States of America	USA	North America

Taxonmaps

69479

Global distribution of 16S sequence AB573069 (>99% sequence identity) for Anaerocolumna aminovalerica subclade from Microbeatlas

Aquatic Samples	296
Soil Samples	1063
Animal Samples	1750
Plant Samples	211
Total Samples	3320

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
603	1	Risk group (German classification) According to TRBA 466
116333	2	Risk group (French classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
67770	IMG-taxon 2634166351 annotated assembly for Anaerocolumna aminovalerica DSM 1283	scaffold	GCA_900115365	1527.7	2634166351	1527	61.9
124043	ASM3954103v1 assembly for Anaerocolumna aminovalerica JCM 1421	scaffold	GCA_039541035			1527	55.86

16S sequences

@ref	Description	Accession	Length	NCBI tax ID
20218	Clostridium aminovalericum gene for 16S ribosomal RNA, partial sequence, strain: JCM 11016	AB573069	1511	1527
20218	Clostridium aminovalericum gene for 16S ribosomal RNA, partial sequence, strain: JCM 1421	AB627029	1511	1527
603	Clostridium aminovalericum 16S rRNA gene, strain DSM 1283	X73436	1454	1527

GC content

@ref	GC-content (mol%)	Method
603	33.0
67770	33	thermal denaturation, midpoint method (Tm)

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Anaerocolumna aminovalerica DSM 1283
NCBI: GCA_900115365

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	yes	89.00	no
125439	motility	BacteriaNetⓘ	yes	87.00	no
125439	gram_stain	BacteriaNetⓘ	variable	79.90	no
125439	oxygen_tolerance	BacteriaNetⓘ	facultative anaerobe	86.40	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Phylogenetic Analysis of the Genes in D-Ala-D-Lactate Synthesizing Glycopeptide Resistance Operons: The Different Origins of Functional and Regulatory Genes.	Kardos G, Laczko L, Kaszab E, Timmer B, Szarka K, Prepost E, Banyai K.	Antibiotics (Basel)	10.3390/antibiotics13070573	2024
	Establishment and assessment of an amplicon sequencing method targeting the 16S-ITS-23S rRNA operon for analysis of the equine gut microbiome.	Kinoshita Y, Niwa H, Uchida-Fujii E, Nukada T.	Sci Rep	10.1038/s41598-021-91425-7	2021
Phylogeny	Descriptions of Anaerotaenia torta gen. nov., sp. nov. and Anaerocolumna cellulosilytica gen. nov., sp. nov. isolated from a methanogenic reactor of cattle waste and reclassification of Clostridium aminovalericum, Clostridium jejuense and Clostridium xylanovorans as Anaerocolumna species.	Ueki A, Ohtaki Y, Kaku N, Ueki K	Int J Syst Evol Microbiol	10.1099/ijsem.0.001123	2016
Phylogeny	Mobilisporobacter senegalensis gen. nov., sp. nov., an anaerobic bacterium isolated from tropical shea cake.	Mbengue M, Thioye A, Labat M, Casalot L, Joseph M, Samb A, Ben Ali Gam Z	Int J Syst Evol Microbiol	10.1099/ijsem.0.000889	2016

References

#603	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 1283
#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 )
#20218	Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.: StrainInfo introduces electronic passports for microorganisms.. Syst Appl Microbiol. 37: 42 - 50 2014 ( DOI 10.1016/j.syapm.2013.11.002 , PubMed 24321274 )
#41994	; Curators of the CIP;
#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;
#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 .
#116333	Collection of Institut Pasteur ; Curators of the CIP; CIP 104304
#124043	Isabel Schober, Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy .
#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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Anaerocolumna aminovalerica (DSM 1283, ATCC 13725, JCM 11016)

Name and taxonomic classification

Morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Pathway annotation

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_900115365

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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