Name: Chryseobacterium haifense H38
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 5687

Type strain:

Species: Chryseobacterium haifense

Strain Designation: H38

Culture col. no.: DSM 19056, LMG 24029, CIP 110174

Strain history: CIP <- 2010, DSMZ <- M. Halpern, Haifa Univ., Oranim, Tivon, Israel: strain H38

NCBI tax ID(s): 1450526 (strain), 421525 (species)

SI-ID 310967

DSM 19056, LMG 24029, CIP 110174

Section

Chryseobacterium haifense H38 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from raw milk.

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 haifense**
	Full Scientific Name (LPSN)	Chryseobacterium haifense Hantsis-Zacharov and Halpern 2007

Synonym

Kaistella haifensis

Information on morphological and physiological properties Morphology

[Ref.: #32203]	Gram stain	negative
[Ref.: #119785]	Gram stain	negative

[Ref.: #32203]	Cell length	1.9 µm

[Ref.: #32203]	Cell width	0.75 µm

[Ref.: #32203]	Cell shape	rod-shaped
[Ref.: #119785]	Cell shape	rod-shaped

[Ref.: #32203]	Motility	no
[Ref.: #119785]	Motility	no

[Ref.: #32203]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #7786]

Culture medium

NUTRIENT AGAR (DSMZ Medium 1)

[Ref.: #7786]

Culture medium growth

[Ref.: #7786]

Culture medium link

Medium recipe at MediaDive

[Ref.: #7786]

Culture medium composition

expand / minimize

[Ref.: #37588]

Culture medium

MEDIUM 328- for nutrient agar

[Ref.: #37588]

Culture medium growth

[Ref.: #37588]

Culture medium composition

expand / minimize

[Ref.: #119785]

Culture medium

CIP Medium 328

[Ref.: #119785]

Culture medium growth

[Ref.: #119785]

Culture medium link

Medium recipe provided by DSMZ

		Temperature
[Ref.: #7786]	growth	28 °C
[Ref.: #32203]	growth	04-41 °C
[Ref.: #32203]	optimum	32 °C
[Ref.: #37588]	growth	30 °C

[Ref.: #7786]	Temperature range	mesophilic
[Ref.: #32203]	Temperature range	mesophilic
[Ref.: #37588]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #32203]			optimum	7-9.5
[Ref.: #32203]			growth	6.5-10.5

Information on physiology and metabolism Physiology and metabolism

[Ref.: #32203]	Oxygen tolerance	aerobe
[Ref.: #119785]	Oxygen tolerance	obligate aerobe

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #32203]		NaCl		growth	0-2.5	%
[Ref.: #32203]		NaCl		optimum	0-1.5	%

[Ref.: #32203]

Observation

aggregates in chains

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #32203]	arabinose ChEBI	+	carbon source
[Ref.: #32203]	esculin ChEBI	+	hydrolysis
[Ref.: #32203]	fructose ChEBI	+	carbon source
[Ref.: #32203]	glucose ChEBI	+	carbon source
[Ref.: #32203]	lactose ChEBI	+	carbon source
[Ref.: #32203]	malate ChEBI	+	carbon source
[Ref.: #32203]	maltose ChEBI	+	carbon source
[Ref.: #32203]	mannose ChEBI	+	carbon source
[Ref.: #119785]	nitrate ChEBI	-	reduction
[Ref.: #119785]	nitrite ChEBI	-	reduction
[Ref.: #32203]	sucrose ChEBI	+	carbon source
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #32203]		indole ChEBI	yes
[Ref.: #119785]		indole ChEBI	yes

	Physiological tests	Metabolite	Indole test
[Ref.: #32203]		indole ChEBI	+

	Enzyme	Enzyme activity	EC number
[Ref.: #32203]	acid phosphatase	+	3.1.3.2
[Ref.: #68382]	acid phosphatase	+	3.1.3.2	* from API zym
[Ref.: #32203]	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.: #32203]	catalase	+	1.11.1.6
[Ref.: #119785]	catalase	+	1.11.1.6
[Ref.: #68382]	cystine arylamidase	+	3.4.11.3	* from API zym
[Ref.: #32203]	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.: #119785]	oxidase	+
[Ref.: #68382]	trypsin	-	3.4.21.4	* from API zym
[Ref.: #119785]	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.: #119785]	12412	-	+	+	+	-	+	+	+	-	-	+	+	-	+	-	-	-	-	-	-

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

[Ref.: #7786]	Sample type/isolated from	raw milk
[Ref.: #7786]	Country	Israel
[Ref.: #7786]	Country ISO 3 Code	ISR
[Ref.: #7786]	Continent	Asia

[Ref.: #119785]	Sample type/isolated from	Food, Raw milk
[Ref.: #119785]	Country	Israel
[Ref.: #119785]	Country ISO 3 Code	ISR
[Ref.: #119785]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Host Body Product	#Fluids	#Milk
#Host	#Mammals	-

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence EF204450 (>99% sequence identity) for Weeksellaceae from Microbeatlas

Aquatic Samples	207
Soil Samples	137
Animal Samples	578
Plant Samples	31
Total Samples	953

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

[Ref.: #7786]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #119785]	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.: #7786]	Chryseobacterium haifense strain H38 16S ribosomal RNA gene, partial sequence	EF204450	1480	ENA	421525 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Kaistella haifensis DSM 19056	GCA_000735695	contig	GenBank	1450526 tax ID	*
[Ref.: #66792]	Chryseobacterium haifense DSM 19056	1450526.3	wgs	PATRIC	1450526 tax ID	*
[Ref.: #66792]	Chryseobacterium haifense DSM 19056	2600255101	draft	JGI IMG/M	1450526 tax ID	*

[Ref.: #7786]

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 Diaspora project based on: Chryseobacterium haifense DSM 19056 PATRIC: 1450526.3
[Ref.: #69480]	motile	no	91.14	yes
[Ref.: #69480]	gram-positive	no	98.092	yes
[Ref.: #69480]	anaerobic	no	98.723	no
[Ref.: #69480]	halophile	no	88.444	yes
[Ref.: #69480]	spore-forming	no	97.273	no
[Ref.: #69480]	thermophile	no	99.193	yes
[Ref.: #69480]	glucose-util	yes	85.246	yes
[Ref.: #69480]	aerobic	yes	87.63	yes
[Ref.: #69480]	flagellated	no	96.946	yes
[Ref.: #69480]	glucose-ferment	no	92.264	no

Availability in culture collections External links

[Ref.: #7786]

Culture collection no.

DSM 19056, LMG 24029, CIP 110174

[Ref.: #75169]

SI-ID 310967

Literature:

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

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Chryseobacterium faecale sp. nov., isolated from camel feces.	Son Y, Min J, Park W	Int J Syst Evol Microbiol	10.1099/ijsem.0.005405	2022	*
Phylogeny	Kaistella soli sp. nov., isolated from oil-contaminated experimental soil.	Chaudhary DK, Dahal RH, Park JH, Hong Y	Arch Microbiol	10.1007/s00203-021-02734-4	2022	*
Phylogeny	Chryseobacterium montanum sp. nov. isolated from mountain soil.	Guo W, Li J, Shi M, Yuan K, Li N, Wang G	Int J Syst Evol Microbiol	10.1099/ijsem.0.001309	2016	*
Phylogeny	Chryseobacterium solincola sp. nov., isolated from soil.	Benmalek Y, Cayol JL, Bouanane NA, Hacene H, Fauque G, Fardeau ML	Int J Syst Evol Microbiol	10.1099/ijs.0.008631-0	2009	*
Phylogeny	Description of Chryseobacterium anthropi sp. nov. to accommodate clinical isolates biochemically similar to Kaistella koreensis and Chryseobacterium haifense, proposal to reclassify Kaistella koreensis as Chryseobacterium koreense comb. nov. and emended description of the genus Chryseobacterium.	Kampfer P, Vaneechoutte M, Lodders N, De Baere T, Avesani V, Janssens M, Busse HJ, Wauters G	Int J Syst Evol Microbiol	10.1099/ijs.0.008250-0	2009	*
Phylogeny	Chryseobacterium haifense sp. nov., a psychrotolerant bacterium isolated from raw milk.	Hantsis-Zacharov E, Halpern M	Int J Syst Evol Microbiol	10.1099/ijs.0.65115-0	2007	*

References

#7786

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 19056

#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 )

#32203

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 #28445 (see below)

#37588 ; 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 .

#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) .

#75169

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-ID310967.1 )

#119785 Collection of Institut Pasteur ; Curators of the CIP; CIP 110174

#28445

IJSEM 2344 2007 ( DOI 10.1099/ijs.0.65115-0 , PubMed 17911308 )

* These data were automatically processed and therefore are not curated

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Chryseobacterium haifense DSM 19056

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