Name: Flavobacterium gelidilacus R-8899
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 5532

Type strain:

Species: Flavobacterium gelidilacus

Strain Designation: R-8899

Culture col. no.: DSM 15343, LMG 21477, CIP 108171

Strain history: CIP <- 2003, DSMZ <- LMG

NCBI tax ID(s): 1121891 (strain), 206041 (species)

SI-ID 22679

LMG 21477, DSM 15343, CIP 108171

Section

Flavobacterium gelidilacus R-8899 is a psychrophilic, Gram-negative bacterium that was isolated from microbial mat.

Gram-negative
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 gelidilacus**
	Full Scientific Name (LPSN)	Flavobacterium gelidilacus Van Trappen et al. 2003

Information on morphological and physiological properties Morphology

[Ref.: #119565]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.993

[Ref.: #119565]	Cell shape	rod-shaped

[Ref.: #119565]	Motility	no

Information on culture and growth conditions Culture and growth conditions

[Ref.: #5858]

Culture medium

R2A MEDIUM (DSMZ Medium 830)

[Ref.: #5858]

Culture medium growth

[Ref.: #5858]

Culture medium link

Medium recipe at MediaDive

[Ref.: #5858]

Culture medium composition

expand / minimize

[Ref.: #41926]

Culture medium

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

[Ref.: #41926]

Culture medium growth

[Ref.: #41926]

Culture medium composition

expand / minimize

[Ref.: #119565]

Culture medium

CIP Medium 566

[Ref.: #119565]

Culture medium growth

[Ref.: #119565]

Culture medium link

Medium recipe provided by DSMZ

	Kind of temperature		Temperature
[Ref.: #5858]		growth	20 °C
[Ref.: #41926]		growth	20 °C
[Ref.: #119565]		growth	15-25 °C
[Ref.: #119565]	no	growth	5 °C
[Ref.: #119565]	no	growth	30 °C
[Ref.: #119565]	no	growth	41 °C
[Ref.: #119565]	no	growth	45 °C

[Ref.: #5858]	Temperature range	psychrophilic
[Ref.: #41926]	Temperature range	psychrophilic
[Ref.: #119565]	Temperature range	psychrophilic
[Ref.: #119565]	Temperature range	mesophilic
[Ref.: #119565]	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 %99.999

	Salt	Tested relation		Salt conc.
[Ref.: #119565]	NaCl	no	growth	0	%
[Ref.: #119565]	NaCl	no	growth	2	%
[Ref.: #119565]	NaCl	no	growth	4	%
[Ref.: #119565]	NaCl	no	growth	6	%
[Ref.: #119565]	NaCl	no	growth	8	%
[Ref.: #119565]	NaCl	no	growth	10	%

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #119565]	citrate ChEBI	-	carbon source
[Ref.: #119565]	esculin ChEBI	-	hydrolysis
[Ref.: #119565]	hippurate ChEBI	-	hydrolysis
[Ref.: #119565]	malonate ChEBI	-	assimilation
[Ref.: #119565]	nitrate ChEBI	-	builds gas from
[Ref.: #119565]	nitrate ChEBI	-	reduction
[Ref.: #119565]	nitrite ChEBI	-	builds gas from
[Ref.: #119565]	nitrite ChEBI	-	reduction

	Antibiotica	Metabolite	Antibiotic sensitivity	Antibiotic resistance
[Ref.: #119565]		0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)	yes	no

	Metabolite production	Metabolite	Production
[Ref.: #119565]		indole ChEBI	no

	Physiological tests	Metabolite	Voges-Proskauer-test	Methylred-test
[Ref.: #119565]		acetoin ChEBI	-
[Ref.: #119565]		glucose ChEBI		-

	Enzyme	Enzyme activity	EC number
[Ref.: #68382]	acid phosphatase	+	3.1.3.2	* from API zym
[Ref.: #119565]	alcohol dehydrogenase	-	1.1.1.1
[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.: #119565]	amylase	+
[Ref.: #119565]	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.: #119565]	caseinase	-	3.4.21.50
[Ref.: #119565]	catalase	+	1.11.1.6
[Ref.: #68382]	cystine arylamidase	+	3.4.11.3	* from API zym
[Ref.: #119565]	DNase	-
[Ref.: #68382]	esterase (C 4)	+		* from API zym
[Ref.: #68382]	esterase lipase (C 8)	+		* from API zym
[Ref.: #119565]	gamma-glutamyltransferase	-	2.3.2.2
[Ref.: #119565]	gelatinase	+
[Ref.: #119565]	lecithinase	-
[Ref.: #68382]	leucine arylamidase	+	3.4.11.1	* from API zym
[Ref.: #119565]	lipase	-
[Ref.: #68382]	lipase (C 14)	-		* from API zym
[Ref.: #119565]	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.: #119565]	ornithine decarboxylase	-	4.1.1.17
[Ref.: #119565]	oxidase	-
[Ref.: #119565]	phenylalanine ammonia-lyase	+	4.3.1.24
[Ref.: #68382]	trypsin	+	3.4.21.4	* from API zym
[Ref.: #119565]	tryptophan deaminase	-
[Ref.: #119565]	tween esterase	-
[Ref.: #119565]	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.: #119565]	10950	-	+	+	+	-	+	+	+	+	-	+	+	-	-	-	+	-	-	-	-

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

[Ref.: #5858]	Sample type/isolated from	microbial mat
[Ref.: #5858]	Geographic location (country and/or sea, region)	Ace Lake, Vestfold Hills
[Ref.: #5858]	Country	Antarctica
[Ref.: #5858]	Country ISO 3 Code	ATA
[Ref.: #5858]	Continent	Australia and Oceania

[Ref.: #119565]	Sample type/isolated from	Microbial material
[Ref.: #119565]	Geographic location (country and/or sea, region)	Vestfold hills
[Ref.: #119565]	Country	Antarctica
[Ref.: #119565]	Country ISO 3 Code	ATA
[Ref.: #119565]	Continent	Antarctica
[Ref.: #119565]	Isolation date	1999
* marker position based on {}

Isolation sources categories

#Environmental

#Microbial community

#Microbial mat

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence NR_025538 (>99% sequence identity) for Flavobacterium gelidilacus from Microbeatlas

Aquatic Samples	1009
Soil Samples	68
Animal Samples	123
Plant Samples	26
Total Samples	1226

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

[Ref.: #5858]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #119565]	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.: #5858]	Flavobacterium gelidilacus strain R-8899 16S ribosomal RNA, partial sequence	NR_025538	1469	GenBank	206041 tax ID
[Ref.: #5858]	Flavobacterium gelidilacus partial 16S rRNA gene, type strain LMG 21477	AJ440996	1469	ENA	1121891 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Flavobacterium gelidilacus DSM 15343	GCA_000422685	scaffold	GenBank	1121891 tax ID	*
[Ref.: #66792]	Flavobacterium gelidilacus DSM 15343	1121891.3	wgs	PATRIC	1121891 tax ID	*
[Ref.: #66792]	Flavobacterium gelidilacus DSM 15343	2523533607	draft	JGI IMG/M	1121891 tax ID	*

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 gelidilacus DSM 15343 DSM 15343 NCBI: GCA_000422685.1
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Flavobacterium gelidilacus DSM 15343 DSM 15343 NCBI: GCA_000422685.1
[Ref.: #69480]	motile	no	87.138	no
[Ref.: #69480]	flagellated	no	94.167	no
[Ref.: #69480]	gram-positive	no	98.551	no
[Ref.: #69480]	anaerobic	no	99.227	no
[Ref.: #69480]	aerobic	yes	86.308	no
[Ref.: #69480]	halophile	no	82.251	no
[Ref.: #69480]	spore-forming	no	95.779	no
[Ref.: #69480]	thermophile	no	99.368	yes
[Ref.: #69480]	glucose-util	yes	84.121	no
[Ref.: #69480]	glucose-ferment	no	91.915	no

Availability in culture collections External links

[Ref.: #5858]

Culture collection no.

DSM 15343, LMG 21477, CIP 108171

[Ref.: #75015]

SI-ID 22679

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Flavobacterium maris sp. nov. isolated from shallow sediments of the Sea of Japan.	Romanenko LA, Tanaka N, Svetashev VI, Kurilenko VV, Mikhailov VV	Arch Microbiol	10.1007/s00203-015-1128-x	2015	*
Phylogeny	Flavobacterium jumunjinense sp. nov., isolated from a lagoon, and emended descriptions of Flavobacterium cheniae, Flavobacterium dongtanense and Flavobacterium gelidilacus.	Joung Y, Kim H, Joh K	Int J Syst Evol Microbiol	10.1099/ijs.0.045286-0	2013	*
Phylogeny	Flavobacterium beibuense sp. nov., isolated from marine sediment.	Fu Y, Tang X, Lai Q, Zhang C, Zhong H, Li W, Liu Y, Chen L, Sun F, Shao Z	Int J Syst Evol Microbiol	10.1099/ijs.0.018846-0	2010	*
Phylogeny	Flavobacterium ponti sp. nov., isolated from seawater.	Yoon JH, Park S, Kang SJ, Oh SJ, Myung SC, Kim W	Int J Syst Evol Microbiol	10.1099/ijs.0.017582-0	2010	*
Phylogeny	Flavobacterium gelidilacus sp. nov., isolated from microbial mats in Antarctic lakes.	Van Trappen S, Mergaert J, Swings J	Int J Syst Evol Microbiol	10.1099/ijs.0.02583-0	2003	*

References

#5858

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 15343

#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 )

#41926 ; 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) .

#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 )

#75015

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-ID22679.1 )

#119565 Collection of Institut Pasteur ; Curators of the CIP; CIP 108171
* These data were automatically processed and therefore are not curated

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Flavobacterium gelidilacus DSM 15343 DSM 15343

Flavobacterium gelidilacus DSM 15343 DSM 15343

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