Name: Nibribacter koreensis GSR3061
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 134066

Type strain:

Species: Nibribacter koreensis

Strain Designation: GSR3061

Culture col. no.: KACC 16450, JCM 17917

Strain history: K. Y. Jahng GSR3061.

NCBI tax ID(s): 1084519 (species)

Section

Nibribacter koreensis GSR3061 is an aerobe, Gram-negative, rod-shaped bacterium that was isolated from estuarine water.

Gram-negative
rod-shaped
aerobe
16S sequence
Bacteria

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	*Cytophagia*
	Order	*Cytophagales*
	Family	*Hymenobacteraceae*
	Genus	*Nibribacter*
	Species	**Nibribacter koreensis**
	Full Scientific Name (LPSN)	Nibribacter koreensis Kang et al. 2013

Information on morphological and physiological properties Morphology

[Ref.: #31165]	Gram stain	negative

[Ref.: #31165]	Cell length	1.75 µm

[Ref.: #31165]	Cell width	0.55 µm

[Ref.: #31165]	Cell shape	rod-shaped

[Ref.: #31165]	Motility	no

[Ref.: #31165]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

		Temperature
[Ref.: #31165]	growth	15-37 °C
[Ref.: #31165]	optimum	25 °C
[Ref.: #67770]	growth	25 °C

[Ref.: #31165]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #31165]			optimum	7.5
[Ref.: #31165]			growth	6.5-9.5

Information on physiology and metabolism Physiology and metabolism

[Ref.: #31165]

Oxygen tolerance

aerobe

[Ref.: #31165]

Ability of spore formation

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #31165]		NaCl		growth	0-1	%

[Ref.: #31165]

Observation

aggregates in clumps

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #31165]	2,3-butanediol ChEBI	+	carbon source
[Ref.: #31165]	2-oxopentanoate ChEBI	+	carbon source
[Ref.: #31165]	acetate ChEBI	+	carbon source
[Ref.: #31165]	alanine ChEBI	+	carbon source
[Ref.: #31165]	arabinose ChEBI	+	carbon source
[Ref.: #31165]	asparagine ChEBI	+	carbon source
[Ref.: #31165]	aspartate ChEBI	+	carbon source
[Ref.: #31165]	dextrin ChEBI	+	carbon source
[Ref.: #31165]	DL-carnitine ChEBI	+	carbon source
[Ref.: #31165]	fructose ChEBI	+	carbon source
[Ref.: #31165]	fucose ChEBI	+	carbon source
[Ref.: #31165]	galacturonate ChEBI	+	carbon source
[Ref.: #31165]	gluconate ChEBI	+	carbon source
[Ref.: #31165]	glucosamine ChEBI	+	carbon source
[Ref.: #31165]	glucuronamide ChEBI	+	carbon source
[Ref.: #31165]	glutamate ChEBI	+	carbon source
[Ref.: #31165]	glycogen ChEBI	+	carbon source
[Ref.: #31165]	itaconate ChEBI	+	carbon source
[Ref.: #31165]	L-alaninamide ChEBI	+	carbon source
[Ref.: #31165]	L-arabitol ChEBI	+	carbon source
[Ref.: #31165]	lactate ChEBI	+	carbon source
[Ref.: #31165]	lactose ChEBI	+	carbon source
[Ref.: #31165]	leucine ChEBI	+	carbon source
[Ref.: #31165]	malonate ChEBI	+	carbon source
[Ref.: #31165]	maltose ChEBI	+	carbon source
[Ref.: #31165]	mannitol ChEBI	+	carbon source
[Ref.: #31165]	methyl D-glucoside ChEBI	+	carbon source
[Ref.: #31165]	methyl pyruvate ChEBI	+	carbon source
[Ref.: #31165]	myo-inositol ChEBI	+	carbon source
[Ref.: #31165]	ornithine ChEBI	+	carbon source
[Ref.: #31165]	proline ChEBI	+	carbon source
[Ref.: #31165]	propionate ChEBI	+	carbon source
[Ref.: #31165]	quinate ChEBI	+	carbon source
[Ref.: #31165]	raffinose ChEBI	+	carbon source
[Ref.: #31165]	rhamnose ChEBI	+	carbon source
[Ref.: #31165]	ribitol ChEBI	+	carbon source
[Ref.: #31165]	serine ChEBI	+	carbon source
[Ref.: #31165]	sorbitol ChEBI	+	carbon source
[Ref.: #31165]	succinate ChEBI	+	carbon source
[Ref.: #31165]	sucrose ChEBI	+	carbon source
[Ref.: #31165]	threonine ChEBI	+	carbon source
[Ref.: #31165]	trehalose ChEBI	+	carbon source
[Ref.: #31165]	tween 40 ChEBI	+	carbon source
[Ref.: #31165]	xylitol ChEBI	+	carbon source
	Only first 10 entries are displayed. Click here to see all.

	Enzyme	Enzyme activity	EC number
[Ref.: #31165]	acid phosphatase	+	3.1.3.2
[Ref.: #31165]	alkaline phosphatase	+	3.1.3.1
[Ref.: #31165]	catalase	+	1.11.1.6
[Ref.: #31165]	cytochrome oxidase	+	1.9.3.1

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

[Ref.: #31165]	Sample type/isolated from	estuarine water

[Ref.: #67770]	Sample type/isolated from	Seawater of the Mangyung estuary enclosed by the Saemangeum Embankment in Jeollabuk-do
[Ref.: #67770]	Country	Republic of Korea
[Ref.: #67770]	Country ISO 3 Code	KOR
[Ref.: #67770]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Environmental	#Aquatic	#Brackish
#Environmental	#Aquatic	#Estuary

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence JN607156 (>99% sequence identity) for Nibribacter koreensis from Microbeatlas

Aquatic Samples	5
Soil Samples	5
Animal Samples	5
Plant Samples	1
Total Samples	16

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.: #31165]	Nibribacter koreensis strain GSR3061 16S ribosomal RNA gene, partial sequence	JN607156	1350	GenBank	1084519 tax ID

[Ref.: #31165]

GC-content

44.9 mol%

Availability in culture collections External links

[Ref.: #31165]

Culture collection no.

KACC 16450, JCM 17917

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Nibribacter flagellatus sp. nov., isolated from rhizosphere of Hibiscus syriacus and emended description of the genus Nibribacter.	Lin P, Yan ZF, Li CT, Kook M, Yi TH	Antonie Van Leeuwenhoek	10.1007/s10482-018-1065-1	2018	*
Phylogeny	Nibribacter koreensis gen. nov., sp. nov., isolated from estuarine water.	Kang JY, Chun J, Jahng KY	Int J Syst Evol Microbiol	10.1099/ijs.0.054569-0	2013	*

References

#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 )

#31165

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 #27493 (see below)

#67770 Japan Collection of Microorganism (JCM) ; Curators of the JCM;

#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 .

#27493

IJSEM 4663 2013 ( DOI 10.1099/ijs.0.054569-0 , PubMed 23934250 )

* These data were automatically processed and therefore are not curated

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