Strain identifier

BacDive ID: 14064

Type strain: Yes

Species: Shewanella baltica

Strain history: CIP <- 1999, CECT <- NCTC <- K. Komagata: strain 63, Shewanella putrefaciens

NCBI tax ID(s): 62322 (species)

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General

@ref: 3572

BacDive-ID: 14064

DSM-Number: 9439

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

description: Shewanella baltica DSM 9439 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from oil-brine.

NCBI tax id

  • NCBI tax id: 62322
  • Matching level: species

strain history

@refhistory
3572<- LMG (Shewanella putrefaciens)
67770NCTC 10735 <-- K. Komagata AJ 2259.
116723CIP <- 1999, CECT <- NCTC <- K. Komagata: strain 63, Shewanella putrefaciens

doi: 10.13145/bacdive14064.20230509.8.1

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 baltica
  • full scientific name: Shewanella baltica Ziemke et al. 1998

@ref: 3572

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Alteromonadales

family: Shewanellaceae

genus: Shewanella

species: Shewanella baltica

full scientific name: Shewanella baltica Ziemke et al. 1998

type strain: yes

Morphology

cell morphology

  • @ref: 116723
  • gram stain: negative
  • cell shape: rod-shaped
  • motility: yes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
3572OXOID NUTRIENT BROTH (DSMZ Medium 948)yeshttps://mediadive.dsmz.de/medium/948Name: OXOID NUTRIENT BROTH (DSMZ Medium 948) Composition: Nutrient broth 13.0 g/l Distilled water
40255Marine agar (MA)yesDistilled water make up to (1000.000 ml);Marine agar (55.100 g)
116723CIP Medium 13yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=13

culture temp

@refgrowthtypetemperaturerange
40255positivegrowth25mesophilic
54761positivegrowth30mesophilic
67770positivegrowth30mesophilic
3572positivegrowth25mesophilic
116723positivegrowth5-30
116723nogrowth37mesophilic
116723nogrowth41thermophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
54761aerobe
116723facultative anaerobe

halophily

@refsaltgrowthtested relationconcentration
116723NaClpositivegrowth0-4 %
116723NaClnogrowth6 %
116723NaClnogrowth8 %
116723NaClnogrowth10 %

metabolite utilization

@refmetaboliteutilization activitykind of utilization testedChebi-ID
68371Potassium 5-ketogluconate-builds acid from
68371Potassium 2-ketogluconate-builds acid from
68371gluconate-builds acid from24265
68371L-arabitol-builds acid from18403
68371D-arabitol-builds acid from18333
68371L-fucose-builds acid from18287
68371D-fucose-builds acid from28847
68371D-tagatose-builds acid from16443
68371D-lyxose-builds acid from62318
68371turanose-builds acid from32528
68371gentiobiose-builds acid from28066
68371xylitol-builds acid from17151
68371glycogen-builds acid from28087
68371starch-builds acid from28017
68371raffinose-builds acid from16634
68371melezitose-builds acid from6731
68371inulin-builds acid from15443
68371trehalose-builds acid from27082
68371sucrose-builds acid from17992
68371melibiose-builds acid from28053
68371lactose-builds acid from17716
68371maltose-builds acid from17306
68371cellobiose-builds acid from17057
68371salicin-builds acid from17814
68371esculin-builds acid from4853
68371arbutin-builds acid from18305
68371amygdalin-builds acid from27613
68371N-acetylglucosamine-builds acid from59640
68371methyl alpha-D-glucopyranoside-builds acid from320061
68371methyl alpha-D-mannoside-builds acid from43943
68371D-sorbitol-builds acid from17924
68371D-mannitol-builds acid from16899
68371myo-inositol-builds acid from17268
68371galactitol-builds acid from16813
68371L-rhamnose-builds acid from62345
68371L-sorbose-builds acid from17266
68371D-mannose-builds acid from16024
68371D-fructose-builds acid from15824
68371D-glucose-builds acid from17634
68371D-galactose-builds acid from12936
68371methyl beta-D-xylopyranoside-builds acid from74863
68371ribitol-builds acid from15963
68371L-xylose-builds acid from65328
68371D-xylose-builds acid from65327
68371D-ribose-builds acid from16988
68371L-arabinose-builds acid from30849
68371D-arabinose-builds acid from17108
68371erythritol-builds acid from17113
68371glycerol-builds acid from17754
116723citrate+carbon source16947
116723esculin+hydrolysis4853
116723nitrate+reduction17632
116723nitrite+reduction16301
116723nitrate+respiration17632
68374ornithine-degradation18257
68374arginine-hydrolysis29016
68374lysine-degradation25094
68374urea-hydrolysis16199
68374L-arabitol-builds acid from18403
68374D-galacturonic acid-builds acid from18024
68374Potassium 5-ketogluconate-builds acid from
68374D-mannitol-builds acid from16899
68374maltose-builds acid from17306
68374ribitol-builds acid from15963
68374palatinose-builds acid from18394
68374malonate-assimilation15792
68374tryptophan-energy source27897
68374D-glucose-builds acid from17634
68374sucrose-builds acid from17992
68374L-arabinose-builds acid from30849
68374D-arabitol-builds acid from18333
68374trehalose-builds acid from27082
68374L-rhamnose-builds acid from62345
68374myo-inositol-builds acid from17268
68374cellobiose-builds acid from17057
68374sorbitol-builds acid from30911

antibiotic resistance

  • @ref: 116723
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: yes
  • is resistant: no

metabolite production

@refChebi-IDmetaboliteproduction
6837435581indoleno
11672335581indoleno

metabolite tests

  • @ref: 68374
  • Chebi-ID: 35581
  • metabolite: indole
  • indole test: -

enzymes

@refvalueactivityec
68374L-aspartate arylamidase+3.4.11.21
68374alpha-maltosidase-
68374alpha-galactosidase-3.2.1.22
68374alpha-glucosidase-3.2.1.20
68374beta-galactosidase-3.2.1.23
68374N-acetyl-beta-glucosaminidase+3.2.1.52
68374beta-glucuronidase-3.2.1.31
68374beta-glucosidase-3.2.1.21
68374lipase-
68374urease-3.5.1.5
68374lysine decarboxylase-4.1.1.18
68374arginine dihydrolase-3.5.3.6
68374ornithine decarboxylase-4.1.1.17
116723oxidase+
116723beta-galactosidase-3.2.1.23
116723alcohol dehydrogenase-1.1.1.1
116723gelatinase+/-
116723amylase-
116723caseinase+3.4.21.50
116723catalase+1.11.1.6
116723tween esterase+
116723lecithinase+
116723lipase+
116723lysine decarboxylase-4.1.1.18
116723ornithine decarboxylase+4.1.1.17
116723protease+
116723tryptophan deaminase-
116723urease-3.5.1.5
68382alkaline phosphatase+3.1.3.1
68382esterase (C 4)+
68382esterase lipase (C 8)+
68382leucine arylamidase+3.4.11.1
68382valine arylamidase-
68382cystine arylamidase-3.4.11.3
68382alpha-galactosidase-3.2.1.22
68382beta-galactosidase-3.2.1.23
68382beta-glucuronidase-3.2.1.31
68382beta-glucosidase-3.2.1.21
68382N-acetyl-beta-glucosaminidase+3.2.1.52
68382alpha-mannosidase-3.2.1.24
68382alpha-fucosidase-3.2.1.51

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
54761-+++-+-----------+--
116723-+++++--++++---+-+--

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
116723-------------------------------------------------

API ID32E

@refODCADH ArgLDC LysURELARLGAT5KGLIPRPbeta GLUMANMALADOPLEbeta GURMNTINDbeta NAGbeta GALGLUSACLARADARLalpha GLUalpha GALTRERHAINOCELSORalphaMALAspA
54761-----------------+-------------+

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
116723+------+-++----+---------------------------------++--+-----++-----------+--+--+++-+---+---+---+-+--

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinent
3572oil-brineJapanJPNAsia
54761Oil-brineJapanJPNAsia
67770Oil-brines in Japan
116723Food, Oil-brineJapanJPNAsia

isolation source categories

Cat1Cat2Cat3
#Engineered#Industrial#Oil reservoir
#Condition#Saline

taxonmaps

  • @ref: 69479
  • File name: preview.99_4365.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_59;96_126;97_134;98_151;99_4365&stattab=map
  • Last taxonomy: Shewanella
  • 16S sequence: AJ000214
  • Sequence Identity:
  • Total samples: 1113
  • soil counts: 28
  • aquatic counts: 516
  • animal counts: 559
  • plant counts: 10

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
35721Risk group (German classification)
1167231Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Shewanella baltica strain CECT 323 16S ribosomal RNA gene, partial sequenceFJ971880799ena62322
20218Shewanella baltica NCTC10735 16S rRNA geneAJ0002141531ena62322

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Shewanella baltica strain NCTC1073562322.8wgspatric62322
66792Shewanella baltica NCTC 107352855995563draftimg62322
67770Shewanella baltica NCTC10735GCA_900456975contigncbi62322

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
gram-positiveno98.808no
anaerobicno94.642yes
halophileno61.565no
spore-formingno94.915no
glucose-utilyes90.648no
flagellatedyes90.671no
aerobicyes64.556yes
thermophileno99.811yes
motileyes91.746no
glucose-fermentno70.575no

External links

@ref: 3572

culture collection no.: DSM 9439, CECT 323, IAM 1477, LMG 2250, NCTC 10735, CCUG 39356, JCM 16449, CIP 105850, AJ 2258

straininfo link

  • @ref: 83233
  • straininfo: 4963

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny9542087Reclassification of Shewanella putrefaciens Owen's genomic group II as Shewanella baltica sp. nov.Ziemke F, Hofle MG, Lalucat J, Rossello-Mora RInt J Syst Bacteriol10.1099/00207713-48-1-1791998DNA, Bacterial/analysis, Fresh Water/*microbiology, Genome, Bacterial, Gram-Negative Facultatively Anaerobic Rods/*classification/genetics, Molecular Sequence Data, Nucleic Acid Hybridization, Phenotype, Phylogeny, RNA, Bacterial/analysis, RNA, Ribosomal, 16S/analysis, Seawater/*microbiologyGenetics
Phylogeny15653901Shewanella decolorationis sp. nov., a dye-decolorizing bacterium isolated from activated sludge of a waste-water treatment plant.Xu M, Guo J, Cen Y, Zhong X, Cao W, Sun GInt J Syst Evol Microbiol10.1099/ijs.0.63157-02005Bacterial Typing Techniques, China, Coloring Agents/*metabolism, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Genes, rRNA, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Sewage/*microbiology, Shewanella/*classification/genetics/isolation & purification/physiology, *Textile Industry, Waste Disposal, Fluid/*methodsGenetics
Phylogeny35861494Shewanella oncorhynchi sp. nov., a novel member of the genus Shewanella, isolated from Rainbow Trout (Oncorhynchus mykiss).Altun S, Duman M, Ay H, Saticioglu IBInt J Syst Evol Microbiol10.1099/ijsem.0.0054602022Animals, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, *Oncorhynchus mykiss, Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater, Sequence Analysis, DNA, *Shewanella, UbiquinoneTranscriptome

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
3572Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 9439)https://www.dsmz.de/collection/catalogue/details/culture/DSM-9439
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.10.1099/ijsem.0.004332List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
20218Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.10.1016/j.syapm.2013.11.002StrainInfo introduces electronic passports for microorganisms.Syst Appl Microbiol. 37: 42-50 201424321274
40255Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/17915
54761Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 39356)https://www.ccug.se/strain?id=39356
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68371Automatically annotated from API 50CH acid
68374Automatically annotated from API ID32E
68382Automatically annotated from API zym
69479João 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.https://microbeatlas.org/MicrobeAtlas 1.0 beta
83233Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID4963.1StrainInfo: A central database for resolving microbial strain identifiers
116723Curators of the CIPCollection of Institut Pasteur (CIP 105850)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20105850