Anaerocolumna jejuensis (DSM 15929, IMSNU 40003, KCTC 5026)

Name: Anaerocolumna jejuensis (DSM 15929, IMSNU 40003, KCTC 5026)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 2829

Type strain

Strain Designation HY-35-12

Culture col. no. DSM 15929 IMSNU 40003 KCTC 5026 HY-35-12

NCBI tax ID(s) 1121322 259063

Special Collections DSMZ KCTC Literature strains

Links

Anaerocolumna jejuensis HY-35-12 is an anaerobe, spore-forming, mesophilic prokaryote that was isolated from soil.

spore-forming Gram-positive motile rod-shaped anaerobe mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 130900

DSM 15929,KCTC 5026

@ref 20215

Last LPSN update 2025-12-16 09:47:24

Domain Bacillati

Phylum Bacillota

Class Clostridia

Order Eubacteriales

Family Lachnospiraceae

Genus Anaerocolumna

Species Anaerocolumna jejuensis

Full scientific name Anaerocolumna jejuensis (Jeong et al. 2004) Ueki et al. 2016

Synonyms (1)

Clostridium jejuense

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape
31249	positive	3.15 µm	0.5 µm	rod-shaped
67771				rod-shaped
67771				curved-shaped
67771	positive

Pigmentation

31249

Productionno

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
6190	PY + X MEDIUM (N2/CO2) (DSMZ Medium 104c)		Medium recipe at MediaDive	Name: PY + X MEDIUM (N2/CO2) (DSMZ Medium 104c) Composition: Yeast extract 10.0 g/l D-Glucose 5.0 g/l Trypticase peptone 5.0 g/l Meat peptone 5.0 g/l Na2CO3 1.0 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 Sodium resazurin 0.0005 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
6190	positive	growth	30	mesophilic
31249	positive	growth	10-40
31249	positive	optimum	30	mesophilic
67771	positive	growth	30	mesophilic

Culture pH

@ref	Ability	Type	PH
31249	positive	optimum	7
31249	positive	growth	5.5-9.5

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance
6190	anaerobe
31249	anaerobe
67771	anaerobe
125439	anaerobe

Spore formation

@ref	Spore formation
31249
67771

Halophily

@ref	Salt	Growth	Tested relation	Concentration
31249	NaCl	positive	growth	0-1.5 %
31249	NaCl	positive	optimum	0.25 %

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
31249	22599 ChEBI	arabinose	+	carbon source
31249	17057 ChEBI	cellobiose	+	carbon source
31249	4853 ChEBI	esculin	+	hydrolysis
31249	28757 ChEBI	fructose	+	carbon source
31249	28260 ChEBI	galactose	+	carbon source
31249	17234 ChEBI	glucose	+	carbon source
31249	17716 ChEBI	lactose	+	carbon source
31249	17306 ChEBI	maltose	+	carbon source
31249	37684 ChEBI	mannose	+	carbon source
31249	16634 ChEBI	raffinose	+	carbon source
31249	33942 ChEBI	ribose	+	carbon source
31249	17992 ChEBI	sucrose	+	carbon source
31249	27082 ChEBI	trehalose	+	carbon source
31249	18222 ChEBI	xylose	+	carbon source

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	cellulose degradation	100	5 of 5
66794	coenzyme A metabolism	100	4 of 4
66794	chorismate metabolism	100	9 of 9
66794	cis-vaccenate biosynthesis	100	2 of 2
66794	glycogen metabolism	100	5 of 5
66794	threonine metabolism	100	10 of 10
66794	adipate degradation	100	2 of 2
66794	palmitate biosynthesis	100	22 of 22
66794	ppGpp biosynthesis	100	4 of 4
66794	methylglyoxal degradation	100	5 of 5
66794	metabolism of amino sugars and derivatives	100	5 of 5
66794	formaldehyde oxidation	100	3 of 3
66794	teichoic acid biosynthesis	100	1 of 1
66794	denitrification	100	2 of 2
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	ceramide biosynthesis	100	1 of 1
66794	folate polyglutamylation	100	1 of 1
66794	L-lactaldehyde degradation	100	3 of 3
66794	suberin monomers biosynthesis	100	2 of 2
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	CDP-diacylglycerol biosynthesis	100	2 of 2
66794	Entner Doudoroff pathway	90	9 of 10
66794	starch degradation	90	9 of 10
66794	NAD metabolism	88.89	16 of 18
66794	d-mannose degradation	88.89	8 of 9
66794	aspartate and asparagine metabolism	88.89	8 of 9
66794	flavin biosynthesis	86.67	13 of 15
66794	reductive acetyl coenzyme A pathway	85.71	6 of 7
66794	ubiquinone biosynthesis	85.71	6 of 7
66794	phenylalanine metabolism	84.62	11 of 13
66794	vitamin B1 metabolism	84.62	11 of 13
66794	pyrimidine metabolism	84.44	38 of 45
66794	glycolate and glyoxylate degradation	83.33	5 of 6
66794	vitamin B12 metabolism	82.35	28 of 34
66794	glutamate and glutamine metabolism	82.14	23 of 28
66794	glycine betaine biosynthesis	80	4 of 5
66794	peptidoglycan biosynthesis	80	12 of 15
66794	alanine metabolism	79.31	23 of 29
66794	photosynthesis	78.57	11 of 14
66794	serine metabolism	77.78	7 of 9
66794	valine metabolism	77.78	7 of 9
66794	CO2 fixation in Crenarchaeota	77.78	7 of 9
66794	glycolysis	76.47	13 of 17
66794	purine metabolism	75.53	71 of 94
66794	acetate fermentation	75	3 of 4
66794	sulfopterin metabolism	75	3 of 4
66794	ketogluconate metabolism	75	6 of 8
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	75	6 of 8
66794	degradation of sugar alcohols	75	12 of 16
66794	butanoate fermentation	75	3 of 4
66794	glycogen biosynthesis	75	3 of 4
66794	isoleucine metabolism	75	6 of 8
66794	vitamin E metabolism	75	3 of 4
66794	C4 and CAM-carbon fixation	75	6 of 8
66794	pentose phosphate pathway	72.73	8 of 11
66794	metabolism of disaccharids	72.73	8 of 11
66794	degradation of hexoses	72.22	13 of 18
66794	propanol degradation	71.43	5 of 7
66794	tetrahydrofolate metabolism	71.43	10 of 14
66794	cardiolipin biosynthesis	71.43	5 of 7
66794	citric acid cycle	71.43	10 of 14
66794	methionine metabolism	69.23	18 of 26
66794	histidine metabolism	68.97	20 of 29
66794	cyanate degradation	66.67	2 of 3
66794	methane metabolism	66.67	2 of 3
66794	octane oxidation	66.67	2 of 3
66794	acetoin degradation	66.67	2 of 3
66794	tryptophan metabolism	65.79	25 of 38
66794	non-pathway related	65.79	25 of 38
66794	oxidative phosphorylation	64.84	59 of 91
66794	lysine metabolism	64.29	27 of 42
66794	degradation of pentoses	64.29	18 of 28
66794	d-xylose degradation	63.64	7 of 11
66794	dTDPLrhamnose biosynthesis	62.5	5 of 8
66794	gluconeogenesis	62.5	5 of 8
66794	isoprenoid biosynthesis	61.54	16 of 26
66794	hydrogen production	60	3 of 5
66794	propionate fermentation	60	6 of 10
66794	degradation of aromatic, nitrogen containing compounds	58.33	7 of 12
66794	polyamine pathway	56.52	13 of 23
66794	degradation of sugar acids	56	14 of 25
66794	proline metabolism	54.55	6 of 11
66794	leucine metabolism	53.85	7 of 13
66794	urea cycle	53.85	7 of 13
66794	lipid metabolism	51.61	16 of 31
66794	mannosylglycerate biosynthesis	50	1 of 2
66794	kanosamine biosynthesis II	50	1 of 2
66794	myo-inositol biosynthesis	50	5 of 10
66794	quinate degradation	50	1 of 2
66794	toluene degradation	50	2 of 4
66794	aminopropanol phosphate biosynthesis	50	1 of 2
66794	cysteine metabolism	50	9 of 18
66794	biotin biosynthesis	50	2 of 4
66794	ethanol fermentation	50	1 of 2
66794	heme metabolism	50	7 of 14
66794	CMP-KDO biosynthesis	50	2 of 4
66794	selenocysteine biosynthesis	50	3 of 6
66794	ribulose monophosphate pathway	50	1 of 2
66794	lactate fermentation	50	2 of 4
66794	sulfate reduction	46.15	6 of 13
66794	phenylpropanoid biosynthesis	46.15	6 of 13
66794	ascorbate metabolism	45.45	10 of 22
66794	vitamin B6 metabolism	45.45	5 of 11
66794	4-hydroxymandelate degradation	44.44	4 of 9
66794	nitrate assimilation	44.44	4 of 9
66794	arginine metabolism	41.67	10 of 24
66794	arachidonate biosynthesis	40	2 of 5
66794	factor 420 biosynthesis	40	2 of 5
66794	lipoate biosynthesis	40	2 of 5
66794	D-cycloserine biosynthesis	40	2 of 5
66794	glycine metabolism	40	4 of 10
66794	creatinine degradation	40	2 of 5
66794	phosphatidylethanolamine bioynthesis	38.46	5 of 13
66794	androgen and estrogen metabolism	37.5	6 of 16
66794	tyrosine metabolism	35.71	5 of 14
66794	1,4-dihydroxy-6-naphthoate biosynthesis	33.33	2 of 6
66794	enterobactin biosynthesis	33.33	1 of 3
66794	acetyl CoA biosynthesis	33.33	1 of 3
66794	sulfoquinovose degradation	33.33	1 of 3
66794	molybdenum cofactor biosynthesis	33.33	3 of 9
66794	pantothenate biosynthesis	33.33	2 of 6
66794	allantoin degradation	33.33	3 of 9
66794	IAA biosynthesis	33.33	1 of 3
66794	arachidonic acid metabolism	33.33	6 of 18
66794	lipid A biosynthesis	33.33	3 of 9
66794	coenzyme M biosynthesis	30	3 of 10
66794	benzoyl-CoA degradation	28.57	2 of 7
66794	aclacinomycin biosynthesis	28.57	2 of 7
66794	dolichyl-diphosphooligosaccharide biosynthesis	27.27	3 of 11
66794	cyclohexanol degradation	25	1 of 4
66794	glutathione metabolism	21.43	3 of 14

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Terrestrial	#Soil

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
6190	soil	Jeju island	Republic of Korea	KOR	Asia
67771	From soil	Jeju island	Republic of Korea	KOR	Asia

Taxonmaps

69479

Global distribution of 16S sequence AY494606 (>99% sequence identity) for Anaerocolumna jejuensis subclade from Microbeatlas

Aquatic Samples	196
Soil Samples	640
Animal Samples	212
Plant Samples	183
Total Samples	1231

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
6190	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	IMG-taxon 2585428173 annotated assembly for Anaerocolumna jejuensis DSM 15929	scaffold	GCA_900142215	1121322.3	2585428173	1121322	55.14

Genome browser: GCA_900142215

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
6190	Clostridium jejuense strain HY-35-12 16S ribosomal RNA gene, partial sequence	AY494606	1466		1121322

GC content

@ref	GC-content (mol%)	Method
6190	41	high performance liquid chromatography (HPLC)
31249	41
67771	41.0	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: Anaerocolumna jejuensis DSM 15929
NCBI: GCA_900142215

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	anaerobe	98.70	no
125439	gram_stain	BacteriaNetⓘ	variable	84.70	no
125439	motility	BacteriaNetⓘ	yes	81.40	no
125439	spore_formation	BacteriaNetⓘ	yes	79.60	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Anaerocolumna jejuensis DSM 15929 DSM 15929
NCBI: GCA_900142215.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	66.06	yes
125438	anaerobic	anaerobicⓘ	yes	82.43	yes
125438	aerobic	aerobicⓘ	no	86.26	yes
125438	spore-forming	spore-formingⓘ	yes	76.43	no
125438	thermophilic	thermophileⓘ	no	93.01	yes
125438	flagellated	motile2+ⓘ	yes	85.50	yes

Literature

Topic	Title	Authors	Journal	DOI	Year
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	Mobilitalea sibirica gen. nov., sp. nov., a halotolerant polysaccharide-degrading bacterium.	Podosokorskaya OA, Bonch-Osmolovskaya EA, Beskorovaynyy AV, Toshchakov SV, Kolganova TV, Kublanov IV	Int J Syst Evol Microbiol	10.1099/ijs.0.057109-0	2014
Phylogeny	Clostridium jejuense sp. nov., isolated from soil.	Jeong H, Yi H, Sekiguchi Y, Muramatsu M, Kamagata Y, Chun J	Int J Syst Evol Microbiol	10.1099/ijs.0.63128-0	2004

References

#6190	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 15929
#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 )
#31249	Barberan A, Caceres Velazquez H, Jones S, Fierer N.: Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information. mSphere 2: 2017 ( DOI 10.1128/mSphere.00237-17 , PubMed 28776041 ) - originally annotated from #27572 (see below)
#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) .
#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 )
#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 .
#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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Anaerocolumna jejuensis (DSM 15929, IMSNU 40003, KCTC 5026)

Name and taxonomic classification

Morphology

Cell morphology

Pigmentation

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

Metabolite utilization

Pathway annotation

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_900142215

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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