Name: Nibrella viscosa GYR3121
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 134054

Type strain:

Species: Nibrella viscosa

Strain Designation: GYR3121

Culture col. no.: KACC 16447, JCM 17925

Strain history: K. Y. Jahng GYR3121.

NCBI tax ID(s): 1084524 (species)

Section

Nibrella viscosa GYR3121 is a Gram-negative, rod-shaped bacterium that was isolated from seawater.

Gram-negative
rod-shaped
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	*Spirosomataceae*
	Genus	*Nibrella*
	Species	**Nibrella viscosa**
	Full Scientific Name (LPSN)	Nibrella viscosa Kang et al. 2013

Information on morphological and physiological properties Morphology

[Ref.: #31145]	Gram stain	negative

[Ref.: #31145]	Cell length	9.1 µm

[Ref.: #31145]	Cell width	0.95 µm

[Ref.: #31145]	Cell shape	rod-shaped

[Ref.: #31145]	Motility	no

[Ref.: #31145]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

		Temperature
[Ref.: #31145]	growth	15-37 °C
[Ref.: #31145]	optimum	25 °C
[Ref.: #67770]	growth	25 °C

[Ref.: #31145]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #31145]			optimum	7.5
[Ref.: #31145]			growth	5.5-9.5

Information on physiology and metabolism Physiology and metabolism

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #31145]		NaCl		growth	0-1.0	%

[Ref.: #31145]

Observation

aggregates in clumps

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #31145]	alanine ChEBI	+	carbon source
[Ref.: #31145]	cellobiose ChEBI	+	carbon source
[Ref.: #31145]	esculin ChEBI	+	hydrolysis
[Ref.: #31145]	fructose ChEBI	+	carbon source
[Ref.: #31145]	galactose ChEBI	+	carbon source
[Ref.: #31145]	gluconate ChEBI	+	carbon source
[Ref.: #31145]	glucose ChEBI	+	carbon source
[Ref.: #31145]	glutamate ChEBI	+	carbon source
[Ref.: #31145]	glycogen ChEBI	+	carbon source
[Ref.: #31145]	L-alaninamide ChEBI	+	carbon source
[Ref.: #31145]	lactate ChEBI	+	carbon source
[Ref.: #31145]	lactose ChEBI	+	carbon source
[Ref.: #31145]	maltose ChEBI	+	carbon source
[Ref.: #31145]	mannose ChEBI	+	carbon source
[Ref.: #31145]	melibiose ChEBI	+	carbon source
[Ref.: #31145]	methyl D-glucoside ChEBI	+	carbon source
[Ref.: #31145]	methyl pyruvate ChEBI	+	carbon source
[Ref.: #31145]	N-acetylglucosamine ChEBI	+	carbon source
[Ref.: #31145]	raffinose ChEBI	+	carbon source
[Ref.: #31145]	sucrose ChEBI	+	carbon source
[Ref.: #31145]	trehalose ChEBI	+	carbon source
[Ref.: #31145]	tween 40 ChEBI	+	carbon source
	Only first 10 entries are displayed. Click here to see all.

	Enzyme	Enzyme activity	EC number
[Ref.: #31145]	acid phosphatase	+	3.1.3.2
[Ref.: #31145]	alkaline phosphatase	+	3.1.3.1
[Ref.: #31145]	alpha-galactosidase	+	3.2.1.22
[Ref.: #31145]	catalase	+	1.11.1.6
[Ref.: #31145]	cytochrome oxidase	+	1.9.3.1

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

[Ref.: #31145]	Sample type/isolated from	seawater

[Ref.: #67770]	Sample type/isolated from	Seawater of 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

#Marine

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence JN607161 (>99% sequence identity) for Nibrella viscosa subclade from Microbeatlas

Aquatic Samples	88
Soil Samples	181
Animal Samples	41
Plant Samples	71
Total Samples	381

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.: #31145]	Nibrella viscosa strain GYR3121 16S ribosomal RNA gene, partial sequence	JN607161	1358	GenBank	1084524 tax ID

[Ref.: #31145]

GC-content

54.5 mol%

Availability in culture collections External links

[Ref.: #31145]

Culture collection no.

KACC 16447, JCM 17925

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Nibrella saemangeumensis gen. nov., sp. nov. and Nibrella viscosa sp. nov., novel members of the family Cytophagaceae, isolated from seawater.	Kang JY, Chun J, Choi A, Cho JC, Jahng KY	Int J Syst Evol Microbiol	10.1099/ijs.0.053439-0	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 )

#31145

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 #27473 (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 .

#27473

IJSEM 4508 2013 ( DOI 10.1099/ijs.0.053439-0 , PubMed 23907222 )

* These data were automatically processed and therefore are not curated

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