Name: Flavobacterium soli DS-6
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 5559

Type strain:

Species: Flavobacterium soli

Strain Designation: DS-6

Culture col. no.: DSM 19725, CIP 108840, KCTC 12542

Strain history: CIP <- 2005, J.H. Yoon, KRIBB, Taejon, South Korea: strain DS-6

NCBI tax ID(s): 1121897 (strain), 344881 (species)

SI-ID 291131

CIP 108840, KCTC 12542, DSM 19725

Special Collections

Section

Flavobacterium soli DS-6 is an aerobe, Gram-negative, rod-shaped bacterium that was isolated from soil.

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

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	14-12-2023 (DD-MM-YYYY)
	Domain	"Bacteria"
	Phylum	*Bacteroidota*
	Class	*Flavobacteriia*
	Order	*Flavobacteriales*
	Family	*Flavobacteriaceae*
	Genus	*Flavobacterium*
	Species	**Flavobacterium soli**
	Full Scientific Name (LPSN)	Flavobacterium soli Yoon et al. 2006

Information on morphological and physiological properties Morphology

[Ref.: #31721]	Gram stain	negative
[Ref.: #67771]	Gram stain	negative
[Ref.: #122657]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %98.727

[Ref.: #31721]	Cell length	01-03 µm

[Ref.: #31721]	Cell width	0.3-0.6 µm

[Ref.: #31721]	Cell shape	rod-shaped
[Ref.: #122657]	Cell shape	rod-shaped
[Ref.: #67771]	Cell shape	rod-shaped

[Ref.: #31721]	Motility	no
[Ref.: #122657]	Motility	no
[Ref.: #67771]	Motility	no

[Ref.: #31721]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #8264]

Culture medium

TRYPTONE SOYA BROTH (TSB) (DSMZ Medium 545)

[Ref.: #8264]

Culture medium growth

[Ref.: #8264]

Culture medium link

Medium recipe at MediaDive

[Ref.: #8264]

Culture medium composition

expand / minimize

[Ref.: #34227]

Culture medium

MEDIUM 72- for trypto casein soja agar

[Ref.: #34227]

Culture medium growth

[Ref.: #34227]

Culture medium composition

expand / minimize

[Ref.: #122657]

Culture medium

CIP Medium 72

[Ref.: #122657]

Culture medium growth

[Ref.: #122657]

Culture medium link

Medium recipe provided by DSMZ

		Temperature
[Ref.: #8264]	growth	28 °C
[Ref.: #31721]	growth	04-33 °C
[Ref.: #31721]	optimum	25 °C
[Ref.: #34227]	growth	25 °C
[Ref.: #67771]	growth	25 °C

	pH	Kind of pH		pH
[Ref.: #31721]			optimum	7
[Ref.: #31721]			growth	6.5-8

Information on physiology and metabolism Physiology and metabolism

[Ref.: #31721]	Oxygen tolerance	aerobe
[Ref.: #67771]	Oxygen tolerance	aerobe
[Ref.: #122657]	Oxygen tolerance	obligate aerobe

[Ref.: #31721]	Ability of spore formation	no
[Ref.: #69480]	Ability of spore formation	no Confidence in %92.303
[Ref.: #69481]	Ability of spore formation	no Confidence in %100

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #31721]		NaCl		growth	0-2	%
[Ref.: #31721]		NaCl		optimum	0-0.5	%

[Ref.: #31721]	Observation	aggregates in chains
[Ref.: #67771]	Observation	quinones: MK-6

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #31721]	5-dehydro-D-gluconate ChEBI	+	carbon source
[Ref.: #68371]	amygdalin ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #31721]	arabinose ChEBI	+	carbon source
[Ref.: #68371]	arbutin ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #31721]	cellobiose ChEBI	+	carbon source
[Ref.: #68371]	cellobiose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-arabinose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-arabitol ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-fructose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-fucose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-galactose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-glucose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-lyxose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-mannitol ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-mannose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-ribose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-sorbitol ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-tagatose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-xylose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	erythritol ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	esculin ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #68371]	galactitol ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	gentiobiose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	gluconate ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #31721]	glucose ChEBI	+	carbon source
[Ref.: #68371]	glycerol ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	glycogen ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	inulin ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	L-arabinose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	L-arabitol ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	L-fucose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	L-rhamnose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	L-sorbose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	L-xylose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	lactose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #31721]	maltose ChEBI	+	carbon source
[Ref.: #68371]	maltose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #31721]	mannose ChEBI	+	carbon source
[Ref.: #68371]	melezitose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	melibiose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	methyl alpha-D-glucopyranoside ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	methyl alpha-D-mannoside ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	methyl beta-D-xylopyranoside ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	myo-inositol ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	N-acetylglucosamine ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #122657]	nitrate ChEBI	-	reduction
[Ref.: #122657]	nitrite ChEBI	-	reduction
[Ref.: #68371]	Potassium 2-ketogluconate ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	Potassium 5-ketogluconate ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	raffinose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	ribitol ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	salicin ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	starch ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	sucrose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	trehalose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	turanose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	xylitol ChEBI	-	builds acid from	* from API 50CH acid
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #122657]		indole ChEBI	no

	Enzyme	Enzyme activity	EC number
[Ref.: #31721]	acid phosphatase	+	3.1.3.2
[Ref.: #68382]	acid phosphatase	+	3.1.3.2	* from API zym
[Ref.: #122657]	alcohol dehydrogenase	-	1.1.1.1
[Ref.: #31721]	alkaline phosphatase	+	3.1.3.1
[Ref.: #68382]	alkaline phosphatase	+	3.1.3.1	* from API zym
[Ref.: #68382]	alpha-chymotrypsin	-	3.4.21.1	* from API zym
[Ref.: #68382]	alpha-fucosidase	-	3.2.1.51	* from API zym
[Ref.: #68382]	alpha-galactosidase	-	3.2.1.22	* from API zym
[Ref.: #68382]	alpha-glucosidase	+	3.2.1.20	* from API zym
[Ref.: #68382]	alpha-mannosidase	-	3.2.1.24	* from API zym
[Ref.: #68382]	beta-galactosidase	-	3.2.1.23	* from API zym
[Ref.: #68382]	beta-glucosidase	+	3.2.1.21	* from API zym
[Ref.: #68382]	beta-glucuronidase	-	3.2.1.31	* from API zym
[Ref.: #31721]	catalase	+	1.11.1.6
[Ref.: #122657]	catalase	-	1.11.1.6
[Ref.: #68382]	cystine arylamidase	-	3.4.11.3	* from API zym
[Ref.: #31721]	cytochrome oxidase	+	1.9.3.1
[Ref.: #68382]	esterase (C 4)	+		* from API zym
[Ref.: #68382]	esterase lipase (C 8)	+		* from API zym
[Ref.: #68382]	leucine arylamidase	+	3.4.11.1	* from API zym
[Ref.: #68382]	lipase (C 14)	-		* from API zym
[Ref.: #122657]	lysine decarboxylase	-	4.1.1.18
[Ref.: #68382]	N-acetyl-beta-glucosaminidase	-	3.2.1.52	* from API zym
[Ref.: #68382]	naphthol-AS-BI-phosphohydrolase	+		* from API zym
[Ref.: #122657]	ornithine decarboxylase	-	4.1.1.17
[Ref.: #122657]	oxidase	-
[Ref.: #68382]	trypsin	+	3.4.21.4	* from API zym
[Ref.: #122657]	urease	-	3.5.1.5
[Ref.: #68382]	valine arylamidase	+		* from API zym
	Only first 10 entries are displayed. Click here to see all.

API® 50CH acid:

Note that the displayed test results represent raw data and therefore may deviate!

	API ID	ControlQ	Acid from glycerolGLY	Acid from erythritolERY	Acid from D-arabinoseDARA	Acid from L-arabinoseLARA	Acid from D-riboseRIB	Acid from D-xyloseDXYL	Acid from L-xyloseLXYL	Acid from D-adonitolADO	Acid from methyl beta-D-xylopyranosideMDX	Acid from D-galactoseGAL	Acid from D-glucoseGLU	Acid from D-fructoseFRU	Acid from D-mannoseMNE	Acid from L-sorboseSBE	Acid from L-rhamnoseRHA	Acid from dulcitolDUL	Acid from inositolINO	Acid from D-mannitolMAN	Acid from D-sorbitolSOR	Acid from methyl alpha-D-mannopyranosideMDM	Acid from methyl alpha-D-glucopyranosideMDG	Acid from N-acetyl-glucosamineNAG	Acid from amygdalinAMY	Acid from arbutinARB	Acid from esculinESC	Acid from salicinSAL	Acid from cellobioseCEL	Acid from maltoseMAL	Acid from lactoseLAC	Acid from melibioseMEL	Acid from sucroseSAC	Acid from trehaloseTRE	Acid from inulinINU	Acid from melezitoseMLZ	Acid from raffinoseRAF	Acid from starchAMD	Acid from glycogenGLYG	Acid from xylitolXLT	Acid from gentiobioseGEN	Acid from turanoseTUR	Acid from D-lyxoseLYX	Acid from D-tagatoseTAG	Acid from D-fucoseDFUC	Acid from L-fucoseLFUC	Acid from D-arabitolDARL	Acid from L-arabitolLARL	Acid from gluconateGNT	Acid from 2-Ketogluconate2KG	Acid from 5-Ketogluconate5KG
[Ref.: #122657]	11401	not determinedn.d.	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-

API® zym:

Note that the displayed test results represent raw data and therefore may deviate!

	API ID	Control	2-naphthyl phosphateAlkaline phosphatase	2-naphthyl butyrateEsterase (C 4)	2-naphtyl caprylateEsterase Lipase (C 8)	2-naphthyl myristateLipase (C 14)	L-leucyl-2-naphthylamideLeucine arylamidase	L-valyl-2-naphthylamideValine arylamidase	L-cystyl-2-naphthylamideCystine arylamidase	N-benzoyl-DL-arginine-2-naphthylamideTrypsin	N-glutaryl-phenylalanine-2-naphthylamidealpha- Chymotrypsin	2-naphthyl phosphateAcid phosphatase	Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase	6-Br-2-naphthyl-alphaD-galactpyranosidealpha- Galactosidase	2-naphthyl-betaD-galactpyranosidebeta- Galactosidase	Naphthol-AS-BI-betaD-glucuronidebeta- Glucuronidase	2-naphthyl-alphaD-glucopyranosidealpha- Glucosidase	6-Br-2-naphthyl-betaD-glucopyranosidebeta- Glucosidase	1-naphthyl-N-acetyl-betaD-glucosaminideN-acetyl-beta- glucosaminidase	6-Br-2-naphthyl-alphaD-mannopyranosidealpha- Mannosidase	2-naphthyl-alphaL-fucopyranosidealpha- Fucosidase
[Ref.: #122657]	11501	-	+	+	+	-	+	+	-	+	-	+	+	-	-	-	+	+	-	-	-

Information on isolation source, the sampling and environmental conditions Isolation, sampling and environmental information

[Ref.: #8264]	Sample type/isolated from	soil
[Ref.: #8264]	Geographic location (country and/or sea, region)	island of Dokdo (37° 14' 12'' N, 131° 52' 07'' E)
[Ref.: #8264]	Country	Republic of Korea
[Ref.: #8264]	Country ISO 3 Code	KOR
[Ref.: #8264]	Continent	Asia
[Ref.: #8264]	Geographic location	37.2367°/131.8690°

[Ref.: #67771]	Sample type/isolated from	From soil
[Ref.: #67771]	Geographic location (country and/or sea, region)	Dokdo
[Ref.: #67771]	Country	Republic of Korea
[Ref.: #67771]	Country ISO 3 Code	KOR
[Ref.: #67771]	Continent	Asia

[Ref.: #122657]	Sample type/isolated from	Environment, Soil
[Ref.: #122657]	Geographic location (country and/or sea, region)	Dokdo Island
[Ref.: #122657]	Country	Republic of Korea
[Ref.: #122657]	Country ISO 3 Code	KOR
[Ref.: #122657]	Continent	Asia
[Ref.: #122657]	Isolation date	2004
* marker position based on {}

Isolation sources categories

#Environmental

#Terrestrial

#Soil

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence DQ178976 (>99% sequence identity) for Flavobacterium soli subclade from Microbeatlas

Aquatic Samples	220
Soil Samples	111
Animal Samples	134
Plant Samples	55
Total Samples	520

Information on possible application of the strain and its possible interaction with e.g. potential hosts Safety information

[Ref.: #8264]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #122657]	Biosafety level	1	Risk group (French classification)

Information on genomic background e.g. entries in nucleic sequence databass Sequence information

16S Sequence information:

	Sequence accession description	Seq. accession number	Sequence length (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #8264]	Flavobacterium soli strain DS-6 16S ribosomal RNA gene, partial sequence	DQ178976	1471	GenBank ENA	344881 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Flavobacterium soli DSM 19725	GCA_000422705	scaffold	GenBank ENA	1121897 tax ID	*
[Ref.: #66792]	Flavobacterium soli DSM 19725	1121897.4	wgs	PATRIC	1121897 tax ID	*
[Ref.: #66792]	Flavobacterium soli DSM 19725	2522572162	draft	JGI IMG/M	1121897 tax ID	*

[Ref.: #8264]	GC-content	36.9 mol%	high performance liquid chromatography (HPLC)
[Ref.: #67771]	GC-content	36.9 mol%

Data predicted using genome information as a basis Genome-based predictions

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Flavobacterium soli DSM 19725 DSM 19725 NCBI: GCA_000422705.1
[Ref.: #69481]	spore-forming	spore-formingⓘ	no	100	no

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Flavobacterium soli DSM 19725 DSM 19725 NCBI: GCA_000422705.1
[Ref.: #69480]	gram-positive	gram-positiveⓘ	no	98.727	yes
[Ref.: #69480]	anaerobic	anaerobicⓘ	no	97.748	no
[Ref.: #69480]	aerobic	aerobicⓘ	yes	89.068	yes
[Ref.: #69480]	spore-forming	spore-formingⓘ	no	92.303	yes
[Ref.: #69480]	thermophilic	thermophileⓘ	no	96.199	yes
[Ref.: #69480]	flagellated	motile2+ⓘ	no	89.5	yes

Availability in culture collections External links

[Ref.: #8264]

Culture collection no.

DSM 19725, CIP 108840, KCTC 12542

[Ref.: #75041]

SI-ID 291131

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Flavobacterium terriphilum sp. nov., isolated from soil.	Zhang G, Xian W, Chu Q, Yang J, Liu W, Yang L, Xiao M, Jiang H, Li W	Int J Syst Evol Microbiol	10.1099/ijsem.0.001347	2016	*
Phylogeny	Flavobacterium caeni sp. nov., isolated from a sequencing batch reactor for the treatment of malachite green effluents.	Liu Y, Jin JH, Zhou YG, Liu HC, Liu ZP	Int J Syst Evol Microbiol	10.1099/ijs.0.010603-0	2009	*
Phylogeny	Flavobacterium lindanitolerans sp. nov., isolated from hexachlorocyclohexane-contaminated soil.	Jit S, Dadhwal M, Prakash O, Lal R	Int J Syst Evol Microbiol	10.1099/ijs.0.65578-0	2008	*
Phylogeny	Flavobacterium soli sp. nov., isolated from soil.	Yoon JH, Kang SJ, Oh TK	Int J Syst Evol Microbiol	10.1099/ijs.0.64119-0	2006	*

References

#8264

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 19725

#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 )

#31721

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 #27997 (see below)

#34227 ; Curators of the CIP;

#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) .

#67771 Korean Collection for Type Cultures (KCTC) ; Curators of the KCTC;

#68371

Automatically annotated from API 50CH acid .

#68382

Automatically annotated from API zym .

#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 .

#69480

Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .

#69481

Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch: Predictions based on the model GenomeNet Sporulation v. 1 . ( DOI 10.21203/rs.3.rs-2527258/v1 )

#75041

Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.: StrainInfo: A central database for resolving microbial strain identifiers . ( DOI 10.60712/SI-ID291131.1 )

#122657 Collection of Institut Pasteur ; Curators of the CIP; CIP 108840

#27997

IJSEM 997 2006 ( DOI 10.1099/ijs.0.64119-0 , PubMed 16627644 )

* These data were automatically processed and therefore are not curated

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Flavobacterium soli DSM 19725 DSM 19725

Flavobacterium soli DSM 19725 DSM 19725

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Change proposal