Name: Shewanella chilikensis JC5
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 133524

Type strain:

Species: Shewanella chilikensis

Strain Designation: JC5

Culture col. no.: CCUG 57101, NBRC 105217, KCC 22540, KCTC 22540

NCBI tax ID(s): 558541 (species)

SI-ID 410127

CCUG 57101

Section

Shewanella chilikensis JC5 is a facultative anaerobe, Gram-negative, motile bacterium that was isolated from estuarine water.

Gram-negative
motile
rod-shaped
facultative anaerobe
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	*Pseudomonadota*
	Class	*Gammaproteobacteria*
	Order	*Alteromonadales*
	Family	*Shewanellaceae*
	Genus	*Shewanella*
	Species	**Shewanella chilikensis**
	Full Scientific Name (LPSN)	Shewanella chilikensis Sucharita et al. 2009

Information on morphological and physiological properties Morphology

[Ref.: #29325]	Gram stain	negative

[Ref.: #29325]	Cell length	1.75 µm

[Ref.: #29325]	Cell width	0.75 µm

[Ref.: #29325]	Cell shape	rod-shaped

[Ref.: #29325]	Motility	yes

Information on culture and growth conditions Culture and growth conditions

	Temperatures	Kind of temperature		Temperature
[Ref.: #29325]			growth	25-42 °C
[Ref.: #29325]			optimum	28-30 °C

[Ref.: #29325]

Temperature range

mesophilic

	pH	Kind of pH		pH
[Ref.: #29325]			optimum	8
[Ref.: #29325]			growth	07-10

Information on physiology and metabolism Physiology and metabolism

[Ref.: #29325]	Oxygen tolerance	facultative anaerobe
[Ref.: #61191]	Oxygen tolerance	aerobe

[Ref.: #29325]

Ability of spore formation

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #29325]		NaCl		growth	0-8	%

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #29325]	acetate ChEBI	+	carbon source
[Ref.: #29325]	alanine ChEBI	+	carbon source
[Ref.: #29325]	aspartate ChEBI	+	carbon source
[Ref.: #29325]	citrate ChEBI	+	carbon source
[Ref.: #29325]	formate ChEBI	+	carbon source
[Ref.: #29325]	glucose ChEBI	+	carbon source
[Ref.: #29325]	glutamate ChEBI	+	carbon source
[Ref.: #29325]	glycogen ChEBI	+	carbon source
[Ref.: #29325]	inosine ChEBI	+	carbon source
[Ref.: #29325]	lactose ChEBI	+	carbon source
[Ref.: #29325]	leucine ChEBI	+	carbon source
[Ref.: #29325]	malate ChEBI	+	carbon source
[Ref.: #29325]	ornithine ChEBI	+	carbon source
[Ref.: #29325]	proline ChEBI	+	carbon source
[Ref.: #29325]	propionate ChEBI	+	carbon source
[Ref.: #29325]	pyruvate ChEBI	+	carbon source
[Ref.: #29325]	serine ChEBI	+	carbon source
[Ref.: #29325]	succinate ChEBI	+	carbon source
[Ref.: #29325]	threonine ChEBI	+	carbon source
[Ref.: #29325]	thymidine ChEBI	+	carbon source
[Ref.: #29325]	tween 40 ChEBI	+	carbon source
[Ref.: #29325]	tween 80 ChEBI	+	carbon source
[Ref.: #29325]	urea ChEBI	+	carbon source
[Ref.: #29325]	uridine ChEBI	+	carbon source
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #29325]		hydrogen sulfide ChEBI	yes

	Enzyme	Enzyme activity	EC number
[Ref.: #29325]	catalase	+	1.11.1.6
[Ref.: #29325]	cytochrome oxidase	+	1.9.3.1
[Ref.: #29325]	urease	+	3.5.1.5

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

[Ref.: #29325]	Sample type/isolated from	estuarine water

[Ref.: #61191]	Sampling date	2007-05-11
[Ref.: #61191]	Country	India
[Ref.: #61191]	Country ISO 3 Code	IND
[Ref.: #61191]	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 FM210033 (>99% sequence identity) for Shewanella chilikensis subclade from Microbeatlas

Aquatic Samples	25
Soil Samples	68
Animal Samples	60
Plant Samples	1
Total Samples	154

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.: #29325]	Shewanella chilikensis partial 16S rRNA gene, type strain JC5T	FM210033	1467	GenBank	558541 tax ID

Genome sequence information:

Only first 5 entries are displayed. Click here to see all.

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Shewanella chilikensis JC5	GCA_002836945	scaffold	GenBank	558541 tax ID	*
[Ref.: #66792]	Shewanella chilikensis KCTC 22540	GCA_014651975	scaffold	GenBank	558541 tax ID	*
[Ref.: #66792]	Shewanella chilikensis JC5	GCA_003217175	scaffold	GenBank	558541 tax ID	*
[Ref.: #66792]	Shewanella chilikensis strain KCTC 22540	558541.9	wgs	PATRIC	558541 tax ID	*
[Ref.: #66792]	Shewanella chilikensis JC5	2740891837	draft	JGI IMG/M	558541 tax ID	*
[Ref.: #66792]	Shewanella chilikensis JC5	2859028064	draft	JGI IMG/M	558541 tax ID	*

[Ref.: #29325]

GC-content

54.6 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: Shewanella chilikensis JC5 NCBI: GCA_002836945.1
[Ref.: #69480]	flagellated	yes	94.205	no
[Ref.: #69480]	gram-positive	no	99.104	yes
[Ref.: #69480]	anaerobic	no	95.351	yes
[Ref.: #69480]	halophile	no	62.104	no
[Ref.: #69480]	spore-forming	no	96.107	yes
[Ref.: #69480]	thermophile	no	99.237	yes
[Ref.: #69480]	glucose-util	yes	90.619	yes
[Ref.: #69480]	aerobic	yes	50.702	no
[Ref.: #69480]	motile	yes	94.091	yes
[Ref.: #69480]	glucose-ferment	no	65.419	no

Availability in culture collections External links

[Ref.: #29325]

Culture collection no.

CCUG 57101, NBRC 105217, KCC 22540, KCTC 22540

[Ref.: #91486]

SI-ID 410127

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Shewanella chilikensis sp. nov., a moderately alkaliphilic gammaproteobacterium isolated from a lagoon.	Sucharita K, Sasikala Ch, Park SC, Baik KS, Seong CN, Ramana ChV	Int J Syst Evol Microbiol	10.1099/ijs.0.010918-0	2009	*

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 )

#29325

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 #25737 (see below)

#61191 Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 57101

#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) .

#91486

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-ID410127.1 )

#25737

IJSEM 3111 2009 ( DOI 10.1099/ijs.0.010918-0 , PubMed 19643885 )

* These data were automatically processed and therefore are not curated

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