Name: Chryseobacterium soli JS6-6
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 5703

Type strain:

Species: Chryseobacterium soli

Strain Designation: JS6-6

Culture col. no.: DSM 19298, KACC 12502, CIP 110182

Strain history: CIP <- 2010, DSMZ <- KACC <- H.Y. Weon, Nat. Inst. Agric. Sci Technol., Suwon, Korea: strain JS6-6

NCBI tax ID(s): 445961 (species)

SI-ID 323958

DSM 19298, KACC 12502, CIP 110182

Section

Chryseobacterium soli JS6-6 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from soil sample.

Gram-negative
rod-shaped
aerobe
mesophilic
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	*Weeksellaceae*
	Genus	*Chryseobacterium*
	Species	**Chryseobacterium soli**
	Full Scientific Name (LPSN)	Chryseobacterium soli Weon et al. 2008

Information on morphological and physiological properties Morphology

[Ref.: #32310]	Gram stain	negative
[Ref.: #122656]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.99

[Ref.: #32310]	Cell length	2.25 µm

[Ref.: #32310]	Cell width	0.7 µm

[Ref.: #32310]	Cell shape	rod-shaped
[Ref.: #122656]	Cell shape	rod-shaped

[Ref.: #32310]	Motility	no
[Ref.: #122656]	Motility	no
[Ref.: #69480]	Motility	no Confidence in %91.63

[Ref.: #32310]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #8004]

Culture medium

R2A MEDIUM (DSMZ Medium 830)

[Ref.: #8004]

Culture medium growth

[Ref.: #8004]

Culture medium link

Medium recipe at MediaDive

[Ref.: #8004]

Culture medium composition

expand / minimize

[Ref.: #40045]

Culture medium

MEDIUM 566- Reasoner's 2A agar for Flavobacterium micromati

[Ref.: #40045]

Culture medium growth

[Ref.: #40045]

Culture medium composition

expand / minimize

[Ref.: #122656]

Culture medium

CIP Medium 566

[Ref.: #122656]

Culture medium growth

[Ref.: #122656]

Culture medium link

Medium recipe provided by DSMZ

		Temperature
[Ref.: #8004]	growth	30 °C
[Ref.: #32310]	growth	05-30 °C
[Ref.: #32310]	optimum	29 °C
[Ref.: #40045]	growth	30 °C

[Ref.: #8004]	Temperature range	mesophilic
[Ref.: #32310]	Temperature range	mesophilic
[Ref.: #40045]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #32310]			optimum	6.5
[Ref.: #32310]			growth	05-09

Information on physiology and metabolism Physiology and metabolism

[Ref.: #32310]	Oxygen tolerance	aerobe
[Ref.: #122656]	Oxygen tolerance	facultative anaerobe

[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.997

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #32310]		NaCl		growth	0-3	%

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #68371]	arbutin ChEBI	-	builds acid from	* from API 50CH acid
[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-fucose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-galactose 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-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]	erythritol ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	galactitol ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	gluconate ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #32310]	glycogen ChEBI	+	carbon source
[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.: #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.: #122656]	nitrate ChEBI	-	reduction
[Ref.: #122656]	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.: #32310]	sucrose ChEBI	+	carbon source
[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.: #122656]		indole ChEBI	yes

	Enzyme	Enzyme activity	EC number
[Ref.: #68382]	acid phosphatase	+	3.1.3.2	* from API zym
[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.: #32310]	catalase	+	1.11.1.6
[Ref.: #122656]	catalase	+	1.11.1.6
[Ref.: #68382]	cystine arylamidase	+	3.4.11.3	* from API zym
[Ref.: #32310]	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.: #68382]	N-acetyl-beta-glucosaminidase	+	3.2.1.52	* from API zym
[Ref.: #68382]	naphthol-AS-BI-phosphohydrolase	+		* from API zym
[Ref.: #122656]	oxidase	+
[Ref.: #68382]	trypsin	+	3.4.21.4	* from API zym
[Ref.: #122656]	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.: #122656]	11719	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.: #122656]	12420	-	+	+	+	+	+	+	+	+	-	+	+	-	-	-	+	-	+	-	-

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

[Ref.: #8004]	Sample type/isolated from	soil sample
[Ref.: #8004]	Geographic location (country and/or sea, region)	Jeju
[Ref.: #8004]	Country	Republic of Korea
[Ref.: #8004]	Country ISO 3 Code	KOR
[Ref.: #8004]	Continent	Asia

[Ref.: #122656]	Sample type/isolated from	Environment, Soil sample
[Ref.: #122656]	Geographic location (country and/or sea, region)	Jeju Island
[Ref.: #122656]	Country	Republic of Korea
[Ref.: #122656]	Country ISO 3 Code	KOR
[Ref.: #122656]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Environmental

#Terrestrial

#Soil

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence EF591302 (>99% sequence identity) for Chryseobacterium soli subclade from Microbeatlas

Aquatic Samples	215
Soil Samples	182
Animal Samples	396
Plant Samples	94
Total Samples	887

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

[Ref.: #8004]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #122656]	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.: #8004]	Chryseobacterium soli strain JS6-6 16S ribosomal RNA gene, partial sequence	EF591302	1390	ENA	445961 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Chryseobacterium soli DSM 19298	GCA_000737705	contig	GenBank	445961 tax ID	*
[Ref.: #66792]	Chryseobacterium soli strain DSM 19298	445961.5	wgs	PATRIC	445961 tax ID	*
[Ref.: #66792]	Chryseobacterium soli DSM 19298	2617271210	draft	JGI IMG/M	445961 tax ID	*

[Ref.: #8004]	GC-content	39.9 mol%
[Ref.: #8004]	GC-content	36.4 mol%	sequence analysis

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

	Trait	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Chryseobacterium soli strain DSM 19298 PATRIC: 445961.5
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Chryseobacterium soli strain DSM 19298 PATRIC: 445961.5
[Ref.: #69480]	gram-positive	no	98.157	yes
[Ref.: #69480]	anaerobic	no	99.643	yes
[Ref.: #69480]	halophile	no	94.565	no
[Ref.: #69480]	spore-forming	no	94.72	no
[Ref.: #69480]	glucose-util	yes	88.973	no
[Ref.: #69480]	aerobic	yes	92.784	yes
[Ref.: #69480]	flagellated	no	97.123	no
[Ref.: #69480]	thermophile	no	99.521	no
[Ref.: #69480]	motile	no	93.554	yes
[Ref.: #69480]	glucose-ferment	no	91.476	no

Availability in culture collections External links

[Ref.: #8004]

Culture collection no.

DSM 19298, KACC 12502, CIP 110182

[Ref.: #75185]

SI-ID 323958

Literature:

Only first 10 entries are displayed. Click here to see all.

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Chryseobacterium subflavum sp. nov., isolated from soil.	Kong D, Wang Y, Li Q, Zhou Y, Jiang X, Xing Z, Wang Z, Ruan Z	Int J Syst Evol Microbiol	10.1099/ijsem.0.005345	2022	*
Phylogeny	Chryseobacterium paridis sp. nov., an endophytic bacterial species isolated from the root of Paris polyphylla Smith var. yunnanensis.	Zhang Z, Yang LL, Li CJ, Jiang XW, Zhi XY	Arch Microbiol	10.1007/s00203-021-02504-2	2021	*
Phylogeny	Chryseobacterium piperi sp. nov., isolated from a freshwater creek.	Strahan BL, Failor KC, Batties AM, Hayes PS, Cicconi KM, Mason CT, Newman JD	Int J Syst Evol Microbiol	10.1099/ijs.0.027805-0	2010	*
Phylogeny	Chryseobacterium ginsenosidimutans sp. nov., a bacterium with ginsenoside-converting activity isolated from soil of a Rhus vernicifera-cultivated field.	Im WT, Yang JE, Kim SY, Yi TH	Int J Syst Evol Microbiol	10.1099/ijs.0.023614-0	2010	*
Phylogeny	Chryseobacterium piscicola sp. nov., isolated from diseased salmonid fish.	Ilardi P, Fernandez J, Avendano-Herrera R	Int J Syst Evol Microbiol	10.1099/ijs.0.007021-0	2009	*
Phylogeny	Chryseobacterium soli sp. nov. and Chryseobacterium jejuense sp. nov., isolated from soil samples from Jeju, Korea.	Weon HY, Kim BY, Yoo SH, Kwon SW, Stackebrandt E, Go SJ	Int J Syst Evol Microbiol	10.1099/ijs.0.65295-0	2008	*

References

#8004

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 19298

#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 )

#32310

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 #28548 (see below)

#40045 ; 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) .

#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 )

#75185

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-ID323958.1 )

#122656 Collection of Institut Pasteur ; Curators of the CIP; CIP 110182

#28548

IJSEM 470 2008 ( DOI 10.1099/ijs.0.65295-0 , PubMed 18218951 )

* These data were automatically processed and therefore are not curated

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Chryseobacterium soli strain DSM 19298

Chryseobacterium soli strain DSM 19298

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