Flavobacterium aciduliphilum (DSM 25663, JCM 18211, KACC 16594)

Name: Flavobacterium aciduliphilum (DSM 25663, JCM 18211, KACC 16594)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 24021

Type strain

Strain Designation JJ013

Culture col. no. DSM 25663 JCM 18211 KACC 16594 JJ013

NCBI tax ID(s) 1101402

Special Collections DSMZ JCM Literature strains

History <- J.Y. Kang, Chonbuk National Univ., Dept. of Life Scs., Jeonju-si, Korea; JJ013 K. Y. Jahng JJ013.

Links

Flavobacterium aciduliphilum JJ013 is an aerobe, Gram-negative, rod-shaped bacterium that was isolated from artificial lake.

Gram-negative rod-shaped aerobe genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 399969

JCM 18211,DSM 25663

@ref 20215

Last LPSN update 2026-02-09 11:23:52

Domain Bacteria

Phylum Bacteroidota

Class Flavobacteriia

Order Flavobacteriales

Family Flavobacteriaceae

Genus Flavobacterium

Species Flavobacterium aciduliphilum

Full scientific name Flavobacterium aciduliphilum Kang et al. 2013

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Confidence
30796	negative	1.75 µm	0.35 µm	rod-shaped
125439	negative				99.9
125438					95
125438	negative				97.705

Pigmentation

30796

Productionyes

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
20568	R2A MEDIUM (DSMZ Medium 830)		Medium recipe at MediaDive	Name: R2A MEDIUM (DSMZ Medium 830) Composition: Agar 15.0 g/l Casamino acids 0.5 g/l Starch 0.5 g/l Glucose 0.5 g/l Proteose peptone 0.5 g/l Yeast extract 0.5 g/l K2HPO4 0.3 g/l Na-pyruvate 0.3 g/l MgSO4 x 7 H2O 0.05 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)
20568	positive	growth	25
30796	positive	growth	20-30
30796	positive	optimum	25
67770	positive	growth	25

Culture pH

@ref	Ability	Type	PH
30796	positive	optimum	6
30796	positive	growth	05-07

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
30796	aerobe
125439	obligate aerobe	98.3

Spore formation

@ref	Spore formation	Confidence
125439		99.3
125438		94.803

Observation

30796

Observationaggregates in clumps

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
30796	62064 ChEBI	2,3-butanediol	+	carbon source
30796	28644 ChEBI	2-oxopentanoate	+	carbon source
30796	16449 ChEBI	alanine	+	carbon source
30796	22599 ChEBI	arabinose	+	carbon source
30796	22653 ChEBI	asparagine	+	carbon source
30796	35391 ChEBI	aspartate	+	carbon source
68367	17057 ChEBI	cellobiose	-	builds acid from	from API 20A
30796	16947 ChEBI	citrate	+	carbon source
68367	17634 ChEBI	D-glucose	+	builds acid from	from API 20A
68367	16899 ChEBI	D-mannitol	+	builds acid from	from API 20A
68367	16024 ChEBI	D-mannose	-	builds acid from	from API 20A
68367	65327 ChEBI	D-xylose	-	builds acid from	from API 20A
30796	23652 ChEBI	dextrin	+	carbon source
30796	17126 ChEBI	DL-carnitine	+	carbon source
68367	4853 ChEBI	esculin	-	hydrolysis	from API 20A
30796	15740 ChEBI	formate	+	carbon source
30796	24148 ChEBI	galactonate	+	carbon source
68367	5291 ChEBI	gelatin	-	hydrolysis	from API 20A
30796	5417 ChEBI	glucosamine	+	carbon source
30796	17234 ChEBI	glucose	+	carbon source
30796	32323 ChEBI	glucuronamide	+	carbon source
30796	29987 ChEBI	glutamate	+	carbon source
68367	17754 ChEBI	glycerol	-	builds acid from	from API 20A
30796	21217 ChEBI	L-alaninamide	+	carbon source
68367	30849 ChEBI	L-arabinose	-	builds acid from	from API 20A
30796	18403 ChEBI	L-arabitol	+	carbon source
68367	62345 ChEBI	L-rhamnose	-	builds acid from	from API 20A
30796	17716 ChEBI	lactose	+	carbon source
68367	17716 ChEBI	lactose	-	builds acid from	from API 20A
30796	15792 ChEBI	malonate	+	carbon source
68367	17306 ChEBI	maltose	+	builds acid from	from API 20A
30796	29864 ChEBI	mannitol	+	carbon source
68367	6731 ChEBI	melezitose	-	builds acid from	from API 20A
30796	37657 ChEBI	methyl D-glucoside	+	carbon source
30796	51850 ChEBI	methyl pyruvate	+	carbon source
30796	506227 ChEBI	N-acetylglucosamine	+	carbon source
30796	18257 ChEBI	ornithine	+	carbon source
30796	26271 ChEBI	proline	+	carbon source
30796	17272 ChEBI	propionate	+	carbon source
30796	16634 ChEBI	raffinose	+	carbon source
68367	16634 ChEBI	raffinose	-	builds acid from	from API 20A
30796	26546 ChEBI	rhamnose	+	carbon source
30796	15963 ChEBI	ribitol	+	carbon source
68367	17814 ChEBI	salicin	-	builds acid from	from API 20A
30796	17822 ChEBI	serine	+	carbon source
68367	30911 ChEBI	sorbitol	-	builds acid from	from API 20A
30796	30031 ChEBI	succinate	+	carbon source
68367	17992 ChEBI	sucrose	-	builds acid from	from API 20A
30796	17748 ChEBI	thymidine	+	carbon source
30796	27082 ChEBI	trehalose	+	carbon source
68367	27082 ChEBI	trehalose	-	builds acid from	from API 20A
68367	27897 ChEBI	tryptophan	-	energy source	from API 20A
30796	53423 ChEBI	tween 40	+	carbon source
68367	16199 ChEBI	urea	-	hydrolysis	from API 20A

Metabolite production

@ref	Chebi-ID	Metabolite	Production
68367	35581 ChEBI	indole		from API 20A

Metabolite tests

@ref	Chebi-ID	Metabolite	Indole test
68367	35581 ChEBI	indole	-	from API 20A

Enzymes

@ref	Value	Activity	Ec
30796	acid phosphatase	+	3.1.3.2
30796	alkaline phosphatase	+	3.1.3.1
68367	beta-glucosidase	-	3.2.1.21	from API 20A
30796	catalase	+	1.11.1.6
30796	cytochrome oxidase	+	1.9.3.1
68367	gelatinase	-		from API 20A
68367	urease	-	3.5.1.5	from API 20A

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	sulfopterin metabolism	100	4 of 4
66794	adipate degradation	100	2 of 2
66794	phenylacetate degradation (aerobic)	100	5 of 5
66794	coenzyme A metabolism	100	4 of 4
66794	biotin biosynthesis	100	4 of 4
66794	palmitate biosynthesis	100	22 of 22
66794	denitrification	100	2 of 2
66794	CDP-diacylglycerol biosynthesis	100	2 of 2
66794	cis-vaccenate biosynthesis	100	2 of 2
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	suberin monomers biosynthesis	100	2 of 2
66794	folate polyglutamylation	100	1 of 1
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	chorismate metabolism	88.89	8 of 9
66794	gluconeogenesis	87.5	7 of 8
66794	C4 and CAM-carbon fixation	87.5	7 of 8
66794	glycogen metabolism	80	4 of 5
66794	vitamin K metabolism	80	4 of 5
66794	peptidoglycan biosynthesis	80	12 of 15
66794	threonine metabolism	80	8 of 10
66794	methylglyoxal degradation	80	4 of 5
66794	photosynthesis	78.57	11 of 14
66794	tetrahydrofolate metabolism	78.57	11 of 14
66794	d-mannose degradation	77.78	7 of 9
66794	serine metabolism	77.78	7 of 9
66794	aspartate and asparagine metabolism	77.78	7 of 9
66794	lipid A biosynthesis	77.78	7 of 9
66794	CO2 fixation in Crenarchaeota	77.78	7 of 9
66794	ppGpp biosynthesis	75	3 of 4
66794	CMP-KDO biosynthesis	75	3 of 4
66794	glycogen biosynthesis	75	3 of 4
66794	acetate fermentation	75	3 of 4
66794	NAD metabolism	72.22	13 of 18
66794	cardiolipin biosynthesis	71.43	5 of 7
66794	propanol degradation	71.43	5 of 7
66794	citric acid cycle	71.43	10 of 14
66794	lipid metabolism	70.97	22 of 31
66794	starch degradation	70	7 of 10
66794	propionate fermentation	70	7 of 10
66794	pyrimidine metabolism	68.89	31 of 45
66794	acetoin degradation	66.67	2 of 3
66794	flavin biosynthesis	66.67	10 of 15
66794	L-lactaldehyde degradation	66.67	2 of 3
66794	purine metabolism	65.96	62 of 94
66794	heme metabolism	64.29	9 of 14
66794	isoleucine metabolism	62.5	5 of 8
66794	dTDPLrhamnose biosynthesis	62.5	5 of 8
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	62.5	5 of 8
66794	leucine metabolism	61.54	8 of 13
66794	cellulose degradation	60	3 of 5
66794	glycine betaine biosynthesis	60	3 of 5
66794	3-chlorocatechol degradation	60	3 of 5
66794	arachidonate biosynthesis	60	3 of 5
66794	lysine metabolism	59.52	25 of 42
66794	glycolysis	58.82	10 of 17
66794	glutamate and glutamine metabolism	57.14	16 of 28
66794	ubiquinone biosynthesis	57.14	4 of 7
66794	phenylalanine metabolism	53.85	7 of 13
66794	methionine metabolism	53.85	14 of 26
66794	tryptophan metabolism	52.63	20 of 38
66794	alanine metabolism	51.72	15 of 29
66794	degradation of aromatic, nitrogen containing compounds	50	6 of 12
66794	ketogluconate metabolism	50	4 of 8
66794	Entner Doudoroff pathway	50	5 of 10
66794	kanosamine biosynthesis II	50	1 of 2
66794	ethanol fermentation	50	1 of 2
66794	butanoate fermentation	50	2 of 4
66794	non-pathway related	50	19 of 38
66794	cysteine metabolism	50	9 of 18
66794	quinate degradation	50	1 of 2
66794	isoprenoid biosynthesis	46.15	12 of 26
66794	vitamin B1 metabolism	46.15	6 of 13
66794	phenylpropanoid biosynthesis	46.15	6 of 13
66794	vitamin B6 metabolism	45.45	5 of 11
66794	metabolism of disaccharids	45.45	5 of 11
66794	valine metabolism	44.44	4 of 9
66794	tyrosine metabolism	42.86	6 of 14
66794	mevalonate metabolism	42.86	3 of 7
66794	reductive acetyl coenzyme A pathway	42.86	3 of 7
66794	coenzyme M biosynthesis	40	4 of 10
66794	glycine metabolism	40	4 of 10
66794	metabolism of amino sugars and derivatives	40	2 of 5
66794	oxidative phosphorylation	38.46	35 of 91
66794	histidine metabolism	37.93	11 of 29
66794	androgen and estrogen metabolism	37.5	6 of 16
66794	pentose phosphate pathway	36.36	4 of 11
66794	ascorbate metabolism	36.36	8 of 22
66794	proline metabolism	36.36	4 of 11
66794	pantothenate biosynthesis	33.33	2 of 6
66794	IAA biosynthesis	33.33	1 of 3
66794	octane oxidation	33.33	1 of 3
66794	cyanate degradation	33.33	1 of 3
66794	glycolate and glyoxylate degradation	33.33	2 of 6
66794	formaldehyde oxidation	33.33	1 of 3
66794	acetyl CoA biosynthesis	33.33	1 of 3
66794	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
66794	selenocysteine biosynthesis	33.33	2 of 6
66794	3-phenylpropionate degradation	33.33	5 of 15
66794	molybdenum cofactor biosynthesis	33.33	3 of 9
66794	sphingosine metabolism	33.33	2 of 6
66794	enterobactin biosynthesis	33.33	1 of 3
66794	carotenoid biosynthesis	31.82	7 of 22
66794	degradation of sugar alcohols	31.25	5 of 16
66794	sulfate reduction	30.77	4 of 13
66794	polyamine pathway	30.43	7 of 23
66794	myo-inositol biosynthesis	30	3 of 10
66794	arginine metabolism	29.17	7 of 24
66794	degradation of hexoses	27.78	5 of 18
66794	dolichyl-diphosphooligosaccharide biosynthesis	27.27	3 of 11
66794	d-xylose degradation	27.27	3 of 11
66794	carnitine metabolism	25	2 of 8
66794	lactate fermentation	25	1 of 4
66794	cyclohexanol degradation	25	1 of 4
66794	toluene degradation	25	1 of 4
66794	catecholamine biosynthesis	25	1 of 4
66794	phosphatidylethanolamine bioynthesis	23.08	3 of 13
66794	nitrate assimilation	22.22	2 of 9
66794	glutathione metabolism	21.43	3 of 14
66794	degradation of pentoses	21.43	6 of 28

API 20A

@ref	IND	URE	GLU	MAN	LAC	SAC	MAL	SAL	XYL	ARA	GEL	ESC	GLY	CEL	MNE	MLZ	RAF	SOR	RHA	TRE	CAT	Spores presentSPOR	GramGRAM	Morphology coccus="+" rod="-"COCC
20568	-	-	+	+	-	-	+	-	-	-	-	-	-	-	-	-	-	-	-	-	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Engineered	#Built environment	-
#Environmental	#Aquatic	#Lake (large)

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
20568	artificial lake	Jeollabuk-do, Jinan-gun	Republic of Korea	KOR	Asia
67770	Artificial lake in Jeollabuk-do		Republic of Korea	KOR	Asia

Taxonmaps

69479

Global distribution of 16S sequence JN712178 (>99% sequence identity) for Flavobacterium aciduliphilum subclade from Microbeatlas

Aquatic Samples	530
Soil Samples	4
Animal Samples	76
Plant Samples	2
Total Samples	612

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
20568	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	ASM326885v1 assembly for Flavobacterium aciduliphilum DSM 25663	scaffold	GCA_003268855	1101402.3	2728369510	1101402	73.08

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
20568	Flavobacterium aciduliphilum strain JJ013 16S ribosomal RNA gene, partial sequence	JN712178	1377		1101402

GC content

@ref	GC-content (mol%)	Method
20568	33.9	high performance liquid chromatography (HPLC)
30796	33.9

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Flavobacterium aciduliphilum DSM 25663
NCBI: GCA_003268855

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	99.30	no
125439	motility	BacteriaNetⓘ	no	63.20	no
125439	gram_stain	BacteriaNetⓘ	negative	99.90	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	98.30	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Flavobacterium aciduliphilum strain DSM 25663
PATRIC: 1101402.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	97.71	yes
125438	anaerobic	anaerobicⓘ	no	96.21	yes
125438	spore-forming	spore-formingⓘ	no	94.80	no
125438	aerobic	aerobicⓘ	yes	80.05	no
125438	thermophilic	thermophileⓘ	no	94.32	yes
125438	flagellated	motile2+ⓘ	no	95.00	yes

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Flavobacterium aciduliphilum sp. nov., isolated from freshwater, and emended description of the genus Flavobacterium.	Kang JY, Chun J, Jahng KY	Int J Syst Evol Microbiol	10.1099/ijs.0.044495-0	2012

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 )
#20568	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 25663
#27127	IJSEM 1633 2013 ( DOI 10.1099/ijs.0.044495-0 , PubMed 22904226 )
#30796	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 #27127
#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;
#68367	Automatically annotated from API 20A .
#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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Flavobacterium aciduliphilum (DSM 25663, JCM 18211, KACC 16594)

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

Observation

Metabolite utilization

Metabolite production

Metabolite tests

Enzymes

Pathway annotation

API 20A

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_003268855

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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