Name: Chryseobacterium gambrini 5-1St1a
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 5698

Type strain:

Species: Chryseobacterium gambrini

Strain Designation: 5-1St1a

Culture col. no.: DSM 18014, CCUG 52549, CIP 110172

Strain history: CIP <- 2010, DSMZ <- A. Lipski, Osnabrück Univ., Osnabrück, Germany: strain 5-1St1a

NCBI tax ID(s): 373672 (species)

SI-ID 323954

CCUG 52549, DSM 18014, LMG 25632, CIP 110172

Other strains from Chryseobacterium gambrini

C. gambrini 167-84, CIP 100738
C. gambrini CIP 109992

Section

Chryseobacterium gambrini 5-1St1a is an aerobe, mesophilic, Gram-negative bacterium that was isolated from steel surface of a beer-bottling plant.

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 gambrini**
	Full Scientific Name (LPSN)	Chryseobacterium gambrini Herzog et al. 2008

Information on morphological and physiological properties Morphology

[Ref.: #32348]	Gram stain	negative
[Ref.: #119526]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.992

[Ref.: #32348]	Cell length	3.6 µm

[Ref.: #32348]	Cell width	1.1 µm

[Ref.: #32348]	Cell shape	rod-shaped
[Ref.: #119526]	Cell shape	rod-shaped

[Ref.: #32348]	Motility	no
[Ref.: #119526]	Motility	no

[Ref.: #32348]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #7333]

Culture medium

TRYPTONE SOYA BROTH (TSB) (DSMZ Medium 545)

[Ref.: #7333]

Culture medium growth

[Ref.: #7333]

Culture medium link

Medium recipe at MediaDive

[Ref.: #7333]

Culture medium composition

expand / minimize

[Ref.: #33351]

Culture medium

MEDIUM 72- for trypto casein soja agar

[Ref.: #33351]

Culture medium growth

[Ref.: #33351]

Culture medium composition

expand / minimize

[Ref.: #119526]

Culture medium

CIP Medium 72

[Ref.: #119526]

Culture medium growth

[Ref.: #119526]

Culture medium link

Medium recipe provided by DSMZ

		Temperature
[Ref.: #7333]	growth	28 °C
[Ref.: #32348]	growth	25-42 °C
[Ref.: #33351]	growth	30 °C
[Ref.: #59592]	growth	30-37 °C

[Ref.: #7333]	Temperature range	mesophilic
[Ref.: #33351]	Temperature range	mesophilic
[Ref.: #59592]	Temperature range	mesophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #32348]	Oxygen tolerance	aerobe
[Ref.: #59592]	Oxygen tolerance	aerobe
[Ref.: #119526]	Oxygen tolerance	obligate aerobe

[Ref.: #32348]	Ability of spore formation	no
[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.997

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #32348]		NaCl		growth	<1	%

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #32348]	adipate ChEBI	+	carbon source
[Ref.: #32348]	arabinose ChEBI	+	carbon source
[Ref.: #32348]	esculin ChEBI	+	hydrolysis
[Ref.: #32348]	glucose ChEBI	+	carbon source
[Ref.: #32348]	maltose ChEBI	+	carbon source
[Ref.: #32348]	mannose ChEBI	+	carbon source
[Ref.: #119526]	nitrate ChEBI	-	reduction
[Ref.: #119526]	nitrite ChEBI	-	reduction
[Ref.: #32348]	phenylacetate ChEBI	+	carbon source

	Metabolite production	Metabolite	Production
[Ref.: #119526]		indole ChEBI	no

	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.: #32348]	catalase	+	1.11.1.6
[Ref.: #119526]	catalase	+	1.11.1.6
[Ref.: #68382]	cystine arylamidase	+	3.4.11.3	* from API zym
[Ref.: #32348]	cytochrome oxidase	+	1.9.3.1
[Ref.: #68382]	esterase (C 4)	+		* from API zym
[Ref.: #68382]	esterase lipase (C 8)	+		* from API zym
[Ref.: #32348]	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.: #119526]	oxidase	+
[Ref.: #68382]	trypsin	+	3.4.21.4	* from API zym
[Ref.: #119526]	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.: #119526]	12410	-	+	+	+	-	+	+	+	+	-	+	+	-	-	-	+	+	+	-	-

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

[Ref.: #7333]	Sample type/isolated from	steel surface of a beer-bottling plant
[Ref.: #7333]	Country	Germany
[Ref.: #7333]	Country ISO 3 Code	DEU
[Ref.: #7333]	Continent	Europe

[Ref.: #59592]	Sample type/isolated from	Steel surface of a beer-bottling plant
[Ref.: #59592]	Sampling date	2002-08-01
[Ref.: #59592]	Country	Germany
[Ref.: #59592]	Country ISO 3 Code	DEU
[Ref.: #59592]	Continent	Europe

[Ref.: #119526]	Sample type/isolated from	Steel surface of a beer-bottling plant
[Ref.: #119526]	Country	Germany
[Ref.: #119526]	Country ISO 3 Code	DEU
[Ref.: #119526]	Continent	Europe
* marker position based on {}

Isolation sources categories

#Engineered	#Food production	#Bottled, canned, packed food
#Engineered	#Food production	#Fermented
#Engineered	#Industrial	#Engineered product
#Engineered	#Industrial	#Plant (Factory)
#Engineered	#Food production	#Beverage

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AM232810 (>99% sequence identity) for Chryseobacterium from Microbeatlas

Aquatic Samples	1137
Soil Samples	371
Animal Samples	977
Plant Samples	604
Total Samples	3089

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

[Ref.: #7333]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #119526]	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.: #7333]	Chryseobacterium gambrini partial 16S rRNA gene, type strain 5-1St1aT	AM232810	1403	ENA	373672 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Chryseobacterium gambrini DSM 18014	GCA_900156825	contig	GenBank	373672 tax ID	*
[Ref.: #66792]	Chryseobacterium gambrini strain DSM 18014	373672.4	wgs	PATRIC	373672 tax ID	*
[Ref.: #66792]	Chryseobacterium gambrini DSM 18014	2681813561	draft	JGI IMG/M	373672 tax ID	*

[Ref.: #32348]

GC-content

37.8 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 gambrini strain DSM 18014 PATRIC: 373672.8
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Chryseobacterium gambrini strain DSM 18014 PATRIC: 373672.4
[Ref.: #69480]	gram-positive	no	98.21	no
[Ref.: #69480]	anaerobic	no	99.545	yes
[Ref.: #69480]	halophile	no	95.146	yes
[Ref.: #69480]	spore-forming	no	95.483	yes
[Ref.: #69480]	glucose-util	yes	89.563	yes
[Ref.: #69480]	aerobic	yes	92.587	yes
[Ref.: #69480]	motile	no	91.091	yes
[Ref.: #69480]	flagellated	no	95.686	yes
[Ref.: #69480]	thermophile	no	99.465	yes
[Ref.: #69480]	glucose-ferment	no	92.303	no

Availability in culture collections External links

[Ref.: #7333]

Culture collection no.

DSM 18014, CCUG 52549, CIP 110172

[Ref.: #75180]

SI-ID 323954

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Chryseobacterium ureilyticum sp. nov., Chryseobacterium gambrini sp. nov., Chryseobacterium pallidum sp. nov. and Chryseobacterium molle sp. nov., isolated from beer-bottling plants.	Herzog P, Winkler I, Wolking D, Kampfer P, Lipski A	Int J Syst Evol Microbiol	10.1099/ijs.0.65362-0	2008	*

References

#7333

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 18014

#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 )

#32348

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 #28579 (see below)

#33351 ; Curators of the CIP;
#59592 Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 52549

#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 .

#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 )

#75180

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-ID323954.1 )

#119526 Collection of Institut Pasteur ; Curators of the CIP; CIP 110172

#28579

IJSEM 26 2008 ( DOI 10.1099/ijs.0.65362-0 , PubMed 18175677 )

* These data were automatically processed and therefore are not curated

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Chryseobacterium gambrini strain DSM 18014

Chryseobacterium gambrini strain DSM 18014

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