Strain identifier

BacDive ID: 159740

Type strain: Yes

Species: Shewanella litoralis

Strain Designation: MMS16-UL482

Strain history: <- Seung Bum Kim, Chungnam National Univ.

NCBI tax ID(s): 2282700 (species)

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General

@ref: 66659

BacDive-ID: 159740

keywords: genome sequence, 16S sequence, Bacteria, aerobe, Gram-negative, motile, rod-shaped, colony-forming

description: Shewanella litoralis MMS16-UL482 is an aerobe, Gram-negative, motile bacterium that forms circular colonies and was isolated from surface seawater sample.

NCBI tax id

  • NCBI tax id: 2282700
  • Matching level: species

strain history

@refhistory
67770S. B. Kim; Chungnam Natl. Univ., South Korea; MMS16-UL482.
67771<- Seung Bum Kim, Chungnam National Univ.

doi: 10.13145/bacdive159740.20240916.9.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Alteromonadales
  • family: Shewanellaceae
  • genus: Shewanella
  • species: Shewanella litoralis
  • full scientific name: Shewanella litoralis Yun et al. 2018

@ref: 66659

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Alteromonadales

family: Shewanellaceae

genus: Shewanella

species: Shewanella litoralis

strain designation: MMS16-UL482

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityflagellum arrangementconfidence
66659negative2.1-3.3 µm0.9-1 µmrod-shapedyesgliding
69480yes90.409
69480negative98.5

colony morphology

  • @ref: 66659
  • colony color: pale pink
  • colony shape: circular
  • incubation period: 3 days
  • medium used: Marine agar (MA) 2216

Culture and growth conditions

culture medium

  • @ref: 66659
  • name: Marine agar (MA) 2216
  • growth: yes

culture temp

@refgrowthtypetemperature
66659positiveoptimum25
66659positivegrowth4-30
67770positivegrowth25
67771positivegrowth25

culture pH

@refabilitytypepHPH range
66659positiveoptimum7
66659positivegrowth6-10alkaliphile

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
66659aerobe
67771aerobe

spore formation

@refspore formationconfidence
69480no91.565
69481no100

halophily

@refsaltgrowthtested relationconcentration
66659NaClpositivegrowth0.5-6.5 %(w/v)
66659NaClpositiveoptimum2.5 %(w/v)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6665916024D-mannose-assimilation
6665916899D-mannitol-assimilation
6665917128adipate-assimilation
6665917306maltose-assimilation
6665917634D-glucose-assimilation
6665918401phenylacetate-assimilation
6665925115malate-assimilation
6665927689decanoate-assimilation
6665930849L-arabinose-assimilation
6665932032potassium gluconate-assimilation
6665953258sodium citrate-assimilation
6665959640N-acetylglucosamine-assimilation
6665917234glucose-fermentation
666595291gelatin-hydrolysis
66659O-nitrophenyl-beta-D-galactopyranosid-hydrolysis
666594853esculin+hydrolysis

metabolite production

  • @ref: 66659
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
66659alpha-fucosidase-3.2.1.51
66659arginine dihydrolase-3.5.3.6
66659beta-glucosidase-3.2.1.21
66659beta-glucuronidase-3.2.1.31
66659N-acetyl-beta-glucosaminidase-3.2.1.52
66659trypsin-3.4.21.4
66659urease-3.5.1.5
66659acid phosphatase+3.1.3.2
66659alkaline phosphatase+3.1.3.1
66659alpha-chymotrypsin+3.4.21.1
66659alpha-galactosidase+3.2.1.22
66659alpha-glucosidase+3.2.1.20
66659alpha-mannosidase+3.2.1.24
66659beta-galactosidase+3.2.1.23
66659catalase+1.11.1.6
66659cystine arylamidase+3.4.11.3
66659cytochrome oxidase+1.9.3.1
66659esterase (C 4)+
66659esterase Lipase (C 8)+
66659leucine arylamidase+3.4.11.1
66659lipase (C 14)+
66659naphthol-AS-BI-phosphohydrolase+
66659valine arylamidase+

Isolation, sampling and environmental information

isolation

@refsample typesampling dategeographic locationcountryorigin.countrycontinentlatitudelongitudeenrichment cultureenrichment culture durationenrichment culture temperatureisolation procedure
66659surface seawater sample2016-02Ulleung islandRepublic of KoreaKORAsia37.4707130.884marine agar 22161 week25dilution-plating technique
67770Coastal seawater from Ulleung islandRepublic of KoreaKORAsia
67771From soilUlleung-eup, Ulleung-gun, North Gyeongsang ProvinceRepublic of KoreaKORAsia

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Marine
#Environmental#Aquatic#Surface water

Sequence information

16S sequences

  • @ref: 66659
  • description: Shewanella litoralis strain MMS16-UL482 16S ribosomal RNA gene, partial sequence
  • accession: KX621128
  • length: 1392
  • database: nuccore
  • NCBI tax ID: 2282700

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Shewanella litoralis JCM 32306GCA_014648335scaffoldncbi2282700
66792Shewanella litoralis JCM 32306GCA_009828585scaffoldncbi2282700
66792Shewanella litoralis strain JCM 323062282700.8wgspatric2282700
66792Shewanella litoralis strain JCM 323062282700.5wgspatric2282700
66792Shewanella litoralis JCM 323062900453558draftimg2282700

GC content

  • @ref: 66659
  • GC-content: 43.7
  • method: Thermal denaturation, fluorometry

Genome-based predictions

predictions

@reftraitmodeldescriptionpredictionconfidencetraining_data
69481spore-formingspore-formingAbility to form endo- or exosporesno100no
69480gram-positivegram-positivePositive reaction to Gram-stainingno98.5yes
69480anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)no94.937yes
69480aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)yes61.974yes
69480spore-formingspore-formingAbility to form endo- or exosporesno91.565no
69480thermophilicthermophileAbility to grow at temperatures above or equal to 45°Cno97.45no
69480flagellatedmotile2+Ability to perform flagellated movementyes90.409no

External links

@ref: 66659

culture collection no.: KCTC 62129, JCM 32306

literature

  • topic: Phylogeny
  • Pubmed-ID: 30028285
  • title: Shewanella saliphila sp. nov., Shewanella ulleungensis sp. nov. and Shewanella litoralis sp. nov., isolated from coastal seawater.
  • authors: Yun BR, Park S, Kim MK, Park J, Kim SB
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.002929
  • year: 2018
  • mesh: Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Seawater/*microbiology, Sequence Analysis, DNA, Shewanella/*classification/genetics/isolation & purification, Vitamin K 2/analogs & derivatives/chemistry
  • topic2: Transcriptome

Reference

@idauthorstitledoi/urljournalpubmed
20215Parte, 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 DSMZ10.1099/ijsem.0.004332
66659Bo-Ram Yun, Sunjoo Park, Min-Kyeong Kim, Jisun Park, Seung Bum KimShewanella saliphila sp. Nov., Shewanella ulleungensis sp. nov. and Shewanella litoralis sp. nov., isolated from coastal seawater10.1099/ijsem.0.002929IJSEM 68: 2960-2966 201830028285
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
67771Curators of the KCTChttps://kctc.kribb.re.kr/En/Kctc
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. MünchPredictions based on the model GenomeNet Sporulation v. 110.21203/rs.3.rs-2527258/v1