Name: Flavobacterium psychrolimnae R-7582
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 5540

Type strain:

Species: Flavobacterium psychrolimnae

Strain Designation: R-7582

Culture col. no.: DSM 16141, CIP 108326, LMG 22018, KCTC 22843

Strain history: CIP <- 2004, S. Van Trappen, Ghent Univ., Ghent, Belgium <- J. Mergaert, Ghent Univ., Ghent, Belgium: strain R-7582

NCBI tax ID(s): 249351 (species)

SI-ID 127240

LMG 22018, CIP 108326, DSM 16141, NBRC 102679, KCTC 22843

Section

Flavobacterium psychrolimnae R-7582 is a psychrophilic, Gram-negative, rod-shaped bacterium that was isolated from microbial mats.

Gram-negative
rod-shaped
psychrophilic
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 psychrolimnae**
	Full Scientific Name (LPSN)	Flavobacterium psychrolimnae Van Trappen et al. 2005

Information on morphological and physiological properties Morphology

[Ref.: #30197]	Gram stain	negative
[Ref.: #122018]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.995

[Ref.: #30197]	Cell length	2 µm

[Ref.: #30197]	Cell width	0.5 µm

[Ref.: #30197]	Cell shape	rod-shaped
[Ref.: #122018]	Cell shape	rod-shaped

[Ref.: #30197]	Motility	no
[Ref.: #122018]	Motility	no

[Ref.: #30197]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #6310]

Culture medium

R2A MEDIUM (DSMZ Medium 830)

[Ref.: #6310]

Culture medium growth

[Ref.: #6310]

Culture medium link

Medium recipe at MediaDive

[Ref.: #6310]

Culture medium composition

expand / minimize

[Ref.: #33230]

Culture medium

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

[Ref.: #33230]

Culture medium growth

[Ref.: #33230]

Culture medium composition

expand / minimize

[Ref.: #122018]

Culture medium

CIP Medium 566

[Ref.: #122018]

Culture medium growth

[Ref.: #122018]

Culture medium link

Medium recipe provided by DSMZ

	Kind of temperature		Temperature
[Ref.: #6310]		growth	20 °C
[Ref.: #30197]		growth	05-25 °C
[Ref.: #30197]		optimum	20 °C
[Ref.: #33230]		growth	20 °C
[Ref.: #122018]		growth	5-25 °C
[Ref.: #122018]	no	growth	30 °C
[Ref.: #122018]	no	growth	37 °C
[Ref.: #122018]	no	growth	41 °C
[Ref.: #122018]	no	growth	45 °C

[Ref.: #6310]	Temperature range	psychrophilic
[Ref.: #30197]	Temperature range	psychrophilic
[Ref.: #33230]	Temperature range	psychrophilic
[Ref.: #122018]	Temperature range	psychrophilic
[Ref.: #122018]	Temperature range	mesophilic
[Ref.: #122018]	Temperature range	thermophilic

Information on physiology and metabolism Physiology and metabolism

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

	Salt	Tested relation		Salt conc.
[Ref.: #30197]	NaCl		growth	0-2	%
[Ref.: #30197]	NaCl		optimum	1	%
[Ref.: #122018]	NaCl		growth	0	%
[Ref.: #122018]	NaCl	no	growth	2	%
[Ref.: #122018]	NaCl	no	growth	4	%
[Ref.: #122018]	NaCl	no	growth	6	%
[Ref.: #122018]	NaCl	no	growth	8	%
[Ref.: #122018]	NaCl	no	growth	10	%

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #122018]	citrate ChEBI	-	carbon source
[Ref.: #122018]	esculin ChEBI	+	hydrolysis
[Ref.: #30197]	glucose ChEBI	+	carbon source
[Ref.: #122018]	glucose ChEBI	-	degradation
[Ref.: #122018]	hippurate ChEBI	-	hydrolysis
[Ref.: #122018]	malonate ChEBI	-	assimilation
[Ref.: #30197]	maltose ChEBI	+	carbon source
[Ref.: #30197]	mannose ChEBI	+	carbon source
[Ref.: #122018]	nitrate ChEBI	-	reduction
[Ref.: #122018]	nitrite ChEBI	-	reduction

	Antibiotica	Metabolite	Antibiotic sensitivity	Antibiotic resistance
[Ref.: #122018]		0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)	yes	no

	Metabolite production	Metabolite	Production
[Ref.: #122018]		indole ChEBI	no

	Physiological tests	Metabolite	Voges-Proskauer-test	Methylred-test
[Ref.: #122018]		acetoin ChEBI	-
[Ref.: #122018]		glucose ChEBI		-

	Enzyme	Enzyme activity	EC number
[Ref.: #30197]	acid phosphatase	+	3.1.3.2
[Ref.: #68382]	acid phosphatase	+	3.1.3.2	* from API zym
[Ref.: #122018]	alcohol dehydrogenase	-	1.1.1.1
[Ref.: #30197]	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.: #122018]	amylase	+
[Ref.: #122018]	beta-galactosidase	+	3.2.1.23
[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.: #122018]	caseinase	-	3.4.21.50
[Ref.: #30197]	catalase	+	1.11.1.6
[Ref.: #122018]	catalase	+	1.11.1.6
[Ref.: #68382]	cystine arylamidase	+	3.4.11.3	* from API zym
[Ref.: #30197]	cytochrome oxidase	+	1.9.3.1
[Ref.: #122018]	DNase	+
[Ref.: #68382]	esterase (C 4)	+		* from API zym
[Ref.: #68382]	esterase lipase (C 8)	+		* from API zym
[Ref.: #122018]	gamma-glutamyltransferase	+	2.3.2.2
[Ref.: #122018]	gelatinase	-
[Ref.: #122018]	lecithinase	-
[Ref.: #68382]	leucine arylamidase	+	3.4.11.1	* from API zym
[Ref.: #122018]	lipase	-
[Ref.: #68382]	lipase (C 14)	+		* from API zym
[Ref.: #122018]	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.: #122018]	ornithine decarboxylase	-	4.1.1.17
[Ref.: #122018]	oxidase	-
[Ref.: #122018]	phenylalanine ammonia-lyase	-	4.3.1.24
[Ref.: #122018]	protease	-
[Ref.: #68382]	trypsin	+	3.4.21.4	* from API zym
[Ref.: #122018]	tryptophan deaminase	-
[Ref.: #122018]	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.: #122018]	11091	+	+	+	+	+	+	+	+	+	-	+	+	-	-	-	+	+	+	-	-

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

[Ref.: #6310]	Sample type/isolated from	microbial mats
[Ref.: #6310]	Geographic location (country and/or sea, region)	freshwater lakes Fryxell and Hoare in the McMurdo Dry Valleys
[Ref.: #6310]	Continent	Australia and Oceania

[Ref.: #122018]	Sample type/isolated from	Microbial material
[Ref.: #122018]	Geographic location (country and/or sea, region)	Fryxell lake, McMurdo dry valleys
[Ref.: #122018]	Country	Antarctica
[Ref.: #122018]	Country ISO 3 Code	ATA
[Ref.: #122018]	Continent	Antarctica
[Ref.: #122018]	Isolation date	1999
* marker position based on {}

Isolation sources categories

#Environmental

#Microbial community

#Microbial mat

What are isolation sources categories?

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

[Ref.: #6310]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #122018]	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.: #6310]	Flavobacterium psychrolimnae 16S rRNA gene, type strain LMG 22018	AJ585428	1466	ENA	249351 tax ID
[Ref.: #20218]	Flavobacterium psychrolimnae strain CIP108326 16S ribosomal RNA gene, partial sequence	JX657052	1264	ENA	249351 tax ID	*

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Flavobacterium psychrolimnae LMG 22018	GCA_003312425	contig	GenBank	249351 tax ID	*
[Ref.: #66792]	Flavobacterium psychrolimnae strain LMG 22018	249351.3	wgs	PATRIC	249351 tax ID	*
[Ref.: #66792]	Flavobacterium psychrolimnae LMG 22018	2879198178	draft	JGI IMG/M	249351 tax ID	*

[Ref.: #6310]	GC-content	34.5 mol%
[Ref.: #30197]	GC-content	34.15 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: Flavobacterium psychrolimnae strain LMG 22018 PATRIC: 249351.3
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Flavobacterium psychrolimnae strain LMG 22018 PATRIC: 249351.3
[Ref.: #69480]	motile	no	89.209	yes
[Ref.: #69480]	gram-positive	no	98.157	yes
[Ref.: #69480]	anaerobic	no	99.569	no
[Ref.: #69480]	aerobic	yes	93.435	no
[Ref.: #69480]	halophile	no	93.142	yes
[Ref.: #69480]	spore-forming	no	95.541	no
[Ref.: #69480]	glucose-util	yes	86.951	yes
[Ref.: #69480]	flagellated	no	94.695	yes
[Ref.: #69480]	thermophile	no	99.174	yes
[Ref.: #69480]	glucose-ferment	no	94.432	no

Availability in culture collections External links

[Ref.: #6310]

Culture collection no.

DSM 16141, CIP 108326, LMG 22018, KCTC 22843

[Ref.: #75023]

SI-ID 127240

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Flavobacterium sandaracinum sp. nov., Flavobacterium caseinilyticum sp. nov., and Flavobacterium hiemivividum sp. nov., novel psychrophilic bacteria isolated from Arctic soil.	Chaudhary DK, Dahal RH, Kim DU, Kim J	Int J Syst Evol Microbiol	10.1099/ijsem.0.004031	2020	*
Phylogeny	Flavobacterium petrolei sp. nov., a novel psychrophilic, diesel-degrading bacterium isolated from oil-contaminated Arctic soil.	Chaudhary DK, Kim DU, Kim D, Kim J	Sci Rep	10.1038/s41598-019-40667-7	2019	*
Phylogeny	Flavobacterium fryxellicola sp. nov. and Flavobacterium psychrolimnae sp. nov., novel psychrophilic bacteria isolated from microbial mats in Antarctic lakes.	Van Trappen S, Vandecandelaere I, Mergaert J, Swings J	Int J Syst Evol Microbiol	10.1099/ijs.0.03056-0	2005	*

References

#6310

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 16141

#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 )

#20218

Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.: StrainInfo introduces electronic passports for microorganisms.. Syst Appl Microbiol. 37: 42 - 50 2014 ( DOI 10.1016/j.syapm.2013.11.002 , PubMed 24321274 )

#30197

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 #26543 (see below)

#33230 ; 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 )

#75023

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-ID127240.1 )

#122018 Collection of Institut Pasteur ; Curators of the CIP; CIP 108326

#26543

IJSEM 769 2005 ( DOI 10.1099/ijs.0.03056-0 , PubMed 15774660 )

* These data were automatically processed and therefore are not curated

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Flavobacterium psychrolimnae strain LMG 22018

Flavobacterium psychrolimnae strain LMG 22018

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