Name: Chryseobacterium gregarium P 461/12
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 5688

Type strain:

Species: Chryseobacterium gregarium

Strain Designation: P 461/12

Culture col. no.: DSM 19109, LMG 24052, CIP 110171

Strain history: CIP <- 2010, DSMZ <- U. Behrendt, ZALF, Müncheberg, Germany: strain P 461/12

NCBI tax ID(s): 1121287 (strain), 456299 (species)

SI-ID 353997

DSM 19109, LMG 24052, CIP 110171

Section

Chryseobacterium gregarium P 461/12 is an aerobe, Gram-negative, rod-shaped bacterium that was isolated from decaying plant material, litter layer.

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	*Weeksellaceae*
	Genus	*Chryseobacterium*
	Species	**Chryseobacterium gregarium**
	Full Scientific Name (LPSN)	Chryseobacterium gregarium Behrendt et al. 2008

Information on morphological and physiological properties Morphology

[Ref.: #32474]	Gram stain	negative
[Ref.: #119735]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.982

[Ref.: #32474]	Cell length	1.85 µm

[Ref.: #32474]	Cell width	0.7 µm

[Ref.: #32474]	Cell shape	rod-shaped
[Ref.: #119735]	Cell shape	rod-shaped

[Ref.: #32474]	Motility	no
[Ref.: #69480]	Motility	no Confidence in %90.697

[Ref.: #32474]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #7896]

Culture medium

NUTRIENT AGAR (DSMZ Medium 1)

[Ref.: #7896]

Culture medium growth

[Ref.: #7896]

Culture medium link

Medium recipe at MediaDive

[Ref.: #7896]

Culture medium composition

expand / minimize

[Ref.: #33350]

Culture medium

MEDIUM 328- for nutrient agar

[Ref.: #33350]

Culture medium growth

[Ref.: #33350]

Culture medium composition

expand / minimize

[Ref.: #119735]

Culture medium

CIP Medium 328

[Ref.: #119735]

Culture medium growth

[Ref.: #119735]

Culture medium link

Medium recipe provided by DSMZ

		Temperature
[Ref.: #7896]	growth	21-30 °C
[Ref.: #32474]	growth	04-30 °C
[Ref.: #32474]	optimum	25 °C
[Ref.: #33350]	growth	25 °C

[Ref.: #32474]	Temperature range	mesophilic
[Ref.: #33350]	Temperature range	mesophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #32474]	Oxygen tolerance	aerobe
[Ref.: #119735]	Oxygen tolerance	obligate aerobe

[Ref.: #32474]	Ability of spore formation	no
[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.995

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #32474]	arabinose ChEBI	+	carbon source
[Ref.: #32474]	esculin ChEBI	+	hydrolysis
[Ref.: #32474]	glucose ChEBI	+	carbon source
[Ref.: #32474]	maltose ChEBI	+	carbon source
[Ref.: #32474]	mannose ChEBI	+	carbon source
[Ref.: #119735]	nitrate ChEBI	-	reduction
[Ref.: #119735]	nitrite ChEBI	-	reduction
[Ref.: #32474]	ribose ChEBI	+	carbon source
[Ref.: #32474]	salicin ChEBI	+	carbon source
[Ref.: #32474]	sucrose ChEBI	+	carbon source
[Ref.: #32474]	trehalose ChEBI	+	carbon source
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #32474]		indole ChEBI	yes
[Ref.: #119735]		indole ChEBI	yes

	Physiological tests	Metabolite	Indole test
[Ref.: #32474]		indole ChEBI	+

	Enzyme	Enzyme activity	EC number
[Ref.: #32474]	acid phosphatase	+	3.1.3.2
[Ref.: #68382]	acid phosphatase	+	3.1.3.2	* from API zym
[Ref.: #32474]	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.: #32474]	catalase	+	1.11.1.6
[Ref.: #119735]	catalase	+	1.11.1.6
[Ref.: #68382]	cystine arylamidase	-	3.4.11.3	* from API zym
[Ref.: #32474]	cytochrome oxidase	+	1.9.3.1
[Ref.: #68382]	esterase (C 4)	+		* from API zym
[Ref.: #68382]	esterase lipase (C 8)	+		* from API zym
[Ref.: #32474]	gelatinase	+
[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.: #119735]	oxidase	+
[Ref.: #68382]	trypsin	+	3.4.21.4	* from API zym
[Ref.: #119735]	urease	-	3.5.1.5
[Ref.: #68382]	valine arylamidase	+		* from API zym
	Only first 10 entries are displayed. Click here to see all.

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.: #119735]	12409	-	+	+	+	-	+	+	-	+	-	+	+	-	-	-	-	+	+	-	-

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

[Ref.: #7896]	Sample type/isolated from	decaying plant material, litter layer
[Ref.: #7896]	Geographic location (country and/or sea, region)	Brandenburg, Havelland, Paulinenaue
[Ref.: #7896]	Country	Germany
[Ref.: #7896]	Country ISO 3 Code	DEU
[Ref.: #7896]	Continent	Europe

[Ref.: #119735]	Sample type/isolated from	Decaying plant material, litter layer
[Ref.: #119735]	Geographic location (country and/or sea, region)	Brandenburg
[Ref.: #119735]	Country	Germany
[Ref.: #119735]	Country ISO 3 Code	DEU
[Ref.: #119735]	Continent	Europe
* marker position based on {}

Isolation sources categories

#Host

#Plants

#Decomposing plant

What are isolation sources categories?

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

[Ref.: #7896]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #119735]	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.: #7896]	Chryseobacterium gregarium partial 16S rRNA gene, type strain DSM 19109T	AM773820	1462	ENA	1121287 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Chryseobacterium gregarium DSM 19109	GCA_000430845	scaffold	GenBank	1121287 tax ID	*
[Ref.: #66792]	Chryseobacterium gregarium DSM 19109	1121287.4	wgs	PATRIC	1121287 tax ID	*
[Ref.: #66792]	Chryseobacterium gregarium DSM 19109	2523533548	draft	JGI IMG/M	1121287 tax ID	*

[Ref.: #7896]

GC-content

38.4 mol%

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 gregarium DSM 19109 DSM 19109 NCBI: GCA_000430845.1
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Chryseobacterium gregarium DSM 19109 DSM 19109 NCBI: GCA_000430845.1
[Ref.: #69480]	motile	no	90.568	yes
[Ref.: #69480]	flagellated	no	96.804	yes
[Ref.: #69480]	gram-positive	no	97.991	yes
[Ref.: #69480]	anaerobic	no	99.465	yes
[Ref.: #69480]	aerobic	yes	91.698	yes
[Ref.: #69480]	halophile	no	93.706	no
[Ref.: #69480]	spore-forming	no	95.453	yes
[Ref.: #69480]	glucose-util	yes	88.384	yes
[Ref.: #69480]	thermophile	no	99.312	no
[Ref.: #69480]	glucose-ferment	no	91.529	no

Availability in culture collections External links

[Ref.: #7896]

Culture collection no.

DSM 19109, LMG 24052, CIP 110171

[Ref.: #75170]

SI-ID 353997

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Chryseobacterium panacis sp. nov., isolated from ginseng soil.	Singh P, Kim YJ, Farh Mel-A, Dan WD, Kang CH, Yang DC	Antonie Van Leeuwenhoek	10.1007/s10482-015-0620-2	2015	*
Phylogeny	Chryseobacterium aahli sp. nov., isolated from lake trout (Salvelinus namaycush) and brown trout (Salmo trutta), and emended descriptions of Chryseobacterium ginsenosidimutans and Chryseobacterium gregarium.	Loch TP, Faisal M	Int J Syst Evol Microbiol	10.1099/ijs.0.052373-0	2014	*
Phylogeny	Chryseobacterium gregarium sp. nov., isolated from decaying plant material.	Behrendt U, Ulrich A, Schumann P	Int J Syst Evol Microbiol	10.1099/ijs.0.65544-0	2008	*

References

#7896

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 19109

#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 )

#32474

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 #28695 (see below)

#33350 ; 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) .

#68382

Automatically annotated from API zym .

#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 )

#75170

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-ID353997.1 )

#119735 Collection of Institut Pasteur ; Curators of the CIP; CIP 110171

#28695

IJSEM 1069 2008 ( DOI 10.1099/ijs.0.65544-0 , PubMed 18450690 )

* These data were automatically processed and therefore are not curated

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Chryseobacterium gregarium DSM 19109 DSM 19109

Chryseobacterium gregarium DSM 19109 DSM 19109

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