Name: Gilvibacter sediminis Mok-1-36
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 134214

Type strain:

Species: Gilvibacter sediminis

Strain Designation: Mok-1-36

Culture col. no.: NBRC 101626, CIP 109286

NCBI tax ID(s): 379071 (species)

SI-ID 297216

CIP 109286, NBRC 101626

Section

Gilvibacter sediminis Mok-1-36 is a Gram-negative, rod-shaped bacterium that was isolated from marine sediment.

Gram-negative
rod-shaped
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	*Gilvibacter*
	Species	**Gilvibacter sediminis**
	Full Scientific Name (LPSN)	Gilvibacter sediminis Khan et al. 2007

Information on morphological and physiological properties Morphology

[Ref.: #31904]	Gram stain	negative

[Ref.: #31904]	Cell length	3.0-5.0 µm

[Ref.: #31904]	Cell width	0.5-0.7 µm

[Ref.: #31904]	Cell shape	rod-shaped

[Ref.: #31904]	Motility	no

[Ref.: #31904]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

	Temperatures	Kind of temperature		Temperature
[Ref.: #31904]			growth	15-37 °C
[Ref.: #31904]			optimum	27.5 °C

[Ref.: #31904]

Temperature range

mesophilic

Information on physiology and metabolism Physiology and metabolism

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #31904]		NaCl		growth	03-06	%
[Ref.: #31904]		NaCl		optimum	3.5	%

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #31904]	arabinose ChEBI	+	carbon source
[Ref.: #31904]	maltose ChEBI	+	carbon source
[Ref.: #31904]	nitrate ChEBI	+	reduction
[Ref.: #31904]	raffinose ChEBI	+	carbon source
[Ref.: #31904]	sucrose ChEBI	+	carbon source

	Enzyme	Enzyme activity	EC number
[Ref.: #31904]	catalase	+	1.11.1.6
[Ref.: #31904]	cytochrome oxidase	+	1.9.3.1
[Ref.: #31904]	gelatinase	+

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

[Ref.: #31904]	Sample type/isolated from	marine sediment
* marker position based on {}

Isolation sources categories

#Environmental	#Aquatic	#Marine
#Environmental	#Aquatic	#Sediment

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AB255368 (>99% sequence identity) for Gilvibacter sediminis subclade from Microbeatlas

Aquatic Samples	6468
Soil Samples	151
Animal Samples	429
Plant Samples	50
Total Samples	7098

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.: #31904]	Gilvibacter sediminis gene for 16S rRNA, partial sequence	AB255368	1461	GenBank	379071 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Gilvibacter sediminis NBRC 101626	GCA_028561565	scaffold	GenBank	379071 tax ID	*

[Ref.: #31904]

GC-content

43 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: Gilvibacter sediminis NBRC 101626 NCBI: GCA_028561565.1
[Ref.: #69480]	motile	no	90.395	yes
[Ref.: #69480]	flagellated	no	94.102	yes
[Ref.: #69480]	gram-positive	no	98.34	yes
[Ref.: #69480]	anaerobic	no	99.462	no
[Ref.: #69480]	aerobic	yes	91.749	no
[Ref.: #69480]	halophile	no	59.652	no
[Ref.: #69480]	spore-forming	no	97.103	no
[Ref.: #69480]	glucose-ferment	no	91.322	no
[Ref.: #69480]	thermophile	no	95.828	no
[Ref.: #69480]	glucose-util	yes	84.272	no

Availability in culture collections External links

[Ref.: #31904]

Culture collection no.

NBRC 101626, CIP 109286

[Ref.: #91809]

SI-ID 297216

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Sediminibacter furfurosus gen. nov., sp. nov. and Gilvibacter sediminis gen. nov., sp. nov., novel members of the family Flavobacteriaceae.	Khan ST, Nakagawa Y, Harayama S	Int J Syst Evol Microbiol	10.1099/ijs.0.64628-0	2007	*

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 )

#31904

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 #28162 (see below)

#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) .

#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) .

#91809

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-ID297216.1 )

#28162

IJSEM 265 2007 ( DOI 10.1099/ijs.0.64628-0 , PubMed 17267962 )

* These data were automatically processed and therefore are not curated

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Gilvibacter sediminis NBRC 101626

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