Strain identifier

BacDive ID: 14066

Type strain: Yes

Species: Shewanella frigidimarina

Strain history: CIP <- 1998, ACAM <- J. Bowman and D. Nichols

NCBI tax ID(s): 56812 (species)

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General

@ref: 4655

BacDive-ID: 14066

DSM-Number: 12253

keywords: 16S sequence, Bacteria, obligate aerobe, psychrophilic, Gram-negative, rod-shaped

description: Shewanella frigidimarina DSM 12253 is an obligate aerobe, psychrophilic, Gram-negative bacterium that was isolated from sea ice.

NCBI tax id

  • NCBI tax id: 56812
  • Matching level: species

strain history

@refhistory
4655<- ACAM <- J. P. Bowman <- D. Nichols
119463CIP <- 1998, ACAM <- J. Bowman and D. Nichols

doi: 10.13145/bacdive14066.20230509.8.1

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 frigidimarina
  • full scientific name: Shewanella frigidimarina Bowman et al. 1997

  • synonyms

    • @ref: 20215
    • synonym: Shewanella arctica

@ref: 4655

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Alteromonadales

family: Shewanellaceae

genus: Shewanella

species: Shewanella frigidimarina

full scientific name: Shewanella frigidimarina Bowman et al. 1997

type strain: yes

Morphology

cell morphology

  • @ref: 119463
  • gram stain: negative
  • cell shape: rod-shaped
  • motility: no

pigmentation

  • @ref: 119463
  • production: no
  • name: Pyocyanin

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
4655BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)yeshttps://mediadive.dsmz.de/medium/514Name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514) Composition: NaCl 19.45 g/l MgCl2 5.9 g/l Bacto peptone 5.0 g/l Na2SO4 3.24 g/l CaCl2 1.8 g/l Yeast extract 1.0 g/l KCl 0.55 g/l NaHCO3 0.16 g/l Fe(III) citrate 0.1 g/l KBr 0.08 g/l SrCl2 0.034 g/l H3BO3 0.022 g/l Na2HPO4 0.008 g/l Na-silicate 0.004 g/l NaF 0.0024 g/l (NH4)NO3 0.0016 g/l Distilled water
35835Marine agar (MA)yesDistilled water make up to (1000.000 ml);Marine agar (55.100 g)
119463CIP Medium 13yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=13

culture temp

@refgrowthtypetemperaturerange
4655positivegrowth20psychrophilic
35835positivegrowth20psychrophilic
119463positivegrowth5-25psychrophilic
119463nogrowth30mesophilic
119463nogrowth37mesophilic
119463nogrowth41thermophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 119463
  • oxygen tolerance: obligate aerobe

halophily

@refsaltgrowthtested relationconcentration
119463NaClpositivegrowth0-8 %
119463NaClnogrowth10 %

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
68371salicin+builds acid from17814
68371arbutin+builds acid from18305
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
119463citrate-carbon source16947
119463esculin-hydrolysis4853
119463nitrate+reduction17632
119463nitrite+reduction16301
119463nitrate+respiration17632

antibiotic resistance

  • @ref: 119463
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: no
  • is resistant: yes

metabolite production

  • @ref: 119463
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
119463oxidase+
119463beta-galactosidase-3.2.1.23
119463alcohol dehydrogenase-1.1.1.1
119463gelatinase+/-
119463amylase-
119463DNase-
119463caseinase-3.4.21.50
119463catalase+1.11.1.6
119463tween esterase+
119463lecithinase+
119463lipase-
119463lysine decarboxylase-4.1.1.18
119463ornithine decarboxylase-4.1.1.17
119463protease+
119463tryptophan deaminase-
119463urease-3.5.1.5
68382alkaline phosphatase+3.1.3.1
68382esterase (C 4)+
68382esterase lipase (C 8)+
68382lipase (C 14)+
68382leucine arylamidase+3.4.11.1
68382valine arylamidase-
68382cystine arylamidase-3.4.11.3
68382trypsin-3.4.21.4
68382alpha-chymotrypsin-3.4.21.1
68382acid phosphatase+3.1.3.2
68382naphthol-AS-BI-phosphohydrolase+
68382alpha-galactosidase-3.2.1.22
68382beta-galactosidase-3.2.1.23
68382beta-glucuronidase-3.2.1.31
68382alpha-glucosidase-3.2.1.20
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
119463-+++++----++--------

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
119463----+-----+++----+---++/-++/-++/-+--++--+++-+----------

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
119463+--+---+-++----+--++-------------+--------------------------------------+--+---++-+-----+-+--++-+++

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcontinentlatitudelongitudecountryorigin.countryisolation date
4655sea iceO'Gorman Rocks, Vestfold Hills, 68°33'S, 77°57EAustralia and Oceania-68.5577.95
119463Environment, Sea iceAntarcticaAntarcticaATA1994

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Ice
#Environmental#Aquatic#Marine

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
46551Risk group (German classification)
1194631Risk group (French classification)

Sequence information

16S sequences

  • @ref: 4655
  • description: Shewanella frigidimarina ACAM 591T 16S ribosomal RNA gene, partial sequence
  • accession: U85903
  • length: 1505
  • database: ena
  • NCBI tax ID: 56812

External links

@ref: 4655

culture collection no.: DSM 12253, ACAM 591, CIP 105515

straininfo link

  • @ref: 83235
  • straininfo: 92609

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny9336903Shewanella gelidimarina sp. nov. and Shewanella frigidimarina sp. nov., novel Antarctic species with the ability to produce eicosapentaenoic acid (20:5 omega 3) and grow anaerobically by dissimilatory Fe(III) reduction.Bowman JP, McCammon SA, Nichols DS, Skerratt JH, Rea SM, Nichols PD, McMeekin TAInt J Syst Bacteriol10.1099/00207713-47-4-10401997Antarctic Regions, Base Composition, DNA, Bacterial/*analysis, Eicosapentaenoic Acid/biosynthesis, Fatty Acids/analysis, Gram-Negative Facultatively Anaerobic Rods/chemistry/*classification/*genetics/metabolism, Iron/chemistry, Molecular Sequence Data, Nucleic Acid Hybridization, Phenotype, *Phylogeny, RNA, Ribosomal, 16S/*analysis, Water MicrobiologyGenetics
Enzymology10479620Crystallization and preliminary X-ray analysis of flavocytochrome c(3), the fumarate reductase from Shewanella frigidimarina.Pealing SL, Lysek DA, Taylor P, Alexeev D, Reid GA, Chapman SK, Walkinshaw MDJ Struct Biol10.1006/jsbi.1999.41391999Base Sequence, Crystallization, Crystallography, X-Ray, Cytochrome c Group/*chemistry, Ferric Compounds, Gram-Negative Facultatively Anaerobic Rods/chemistry/enzymology, Heme, Protein Conformation, Sequence Analysis, DNA, Succinate Dehydrogenase/*chemistryTranscriptome
Phylogeny21724958Shewanella arctica sp. nov., an iron-reducing bacterium isolated from Arctic marine sediment.Kim SJ, Park SJ, Oh YS, Lee SA, Shin KS, Roh DH, Rhee SKInt J Syst Evol Microbiol10.1099/ijs.0.031401-02011Anaerobiosis, Arctic Regions, Bacterial Typing Techniques, Base Composition, Catalase/analysis, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Flagella/physiology, Geologic Sediments/*microbiology, Hydrogen-Ion Concentration, Iron/*metabolism, Lactates/*metabolism, Locomotion, Molecular Sequence Data, Nucleic Acid Hybridization, Oxidation-Reduction, Oxidoreductases/analysis, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Shewanella/*classification/genetics/*isolation & purification/physiology, Sodium Chloride/metabolism, TemperatureMetabolism
Metabolism32931876Efficient production of 1,3-propanediol by psychrophile-based simple biocatalysts in Shewanella livingstonensis Ac10 and Shewanella frigidimarina DSM 12253.Mojarrad M, Hirai K, Fuki K, Tajima T, Hida A, Kato JJ Biotechnol10.1016/j.jbiotec.2020.09.0072020Coenzymes, Gene Expression, Gene Expression Regulation, Bacterial, Genes, Bacterial/genetics, Glycerol/metabolism, Hot Temperature, Klebsiella pneumoniae/metabolism, Metabolic Networks and Pathways, NAD, Propylene Glycols/*metabolism, Shewanella/*genetics/*metabolism, UltrasonicsStress
Stress33624773Psychrophile-based simple biocatalysts for effective coproduction of 3-hydroxypropionic acid and 1,3-propanediol.Mojarrad M, Tajima T, Hida A, Kato JBiosci Biotechnol Biochem10.1093/bbb/zbaa0812021Biocatalysis, Hot Temperature, Klebsiella pneumoniae/enzymology, Lactic Acid/*analogs & derivatives/metabolism, Propylene Glycols/*metabolism, Shewanella/enzymologyEnzymology

Reference

@idauthorscataloguedoi/urltitle
4655Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 12253)https://www.dsmz.de/collection/catalogue/details/culture/DSM-12253
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
35835Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/17543
68371Automatically annotated from API 50CH acid
68382Automatically annotated from API zym
83235Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID92609.1StrainInfo: A central database for resolving microbial strain identifiers
119463Curators of the CIPCollection of Institut Pasteur (CIP 105515)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20105515