Strain identifier

BacDive ID: 14062

Type strain: Yes

Species: Shewanella algae

Strain Designation: OK-1

Strain history: CIP <- 2000, IAM <- U. Simidu <- Y. Kotaki, strain OK-1

NCBI tax ID(s): 1236544 (strain), 38313 (species)

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General

@ref: 3500

BacDive-ID: 14062

DSM-Number: 9167

keywords: genome sequence, 16S sequence, Bacteria, obligate aerobe, psychrophilic, motile, toxin production

description: Shewanella algae OK-1 is an obligate aerobe, psychrophilic, motile bacterium that produces toxins and was isolated from surface of a red alga Jania sp..

NCBI tax id

NCBI tax idMatching level
38313species
1236544strain

strain history

@refhistory
3500<- NCIMB <- IAM <- U. Simidu <- Y. Kotaki
67770IAM 14159 <-- U. Simidu OK-1.
116221CIP <- 2000, IAM <- U. Simidu <- Y. Kotaki, strain OK-1

doi: 10.13145/bacdive14062.20230509.8.1

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 algae
  • full scientific name: Shewanella algae corrig. Simidu et al. 1990

  • synonyms

    @refsynonym
    20215Shewanella haliotis
    20215Shewanella alga
    20215Shewanella upenei

@ref: 3500

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Alteromonadales

family: Shewanellaceae

genus: Shewanella

species: Shewanella algae

full scientific name: Shewanella algae Simidu et al. 1990 emend. Nozue et al. 1992 emend. Szeinbaum et al. 2018

strain designation: OK-1

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
69480yes98.818
6948099.981negative
116221yesnegativerod-shaped

colony morphology

  • @ref: 116221

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
3500BACTO 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
3500SEA WATER YEAST PEPTONE MEDIUM (DSMZ Medium 949)yeshttps://mediadive.dsmz.de/medium/949Name: SEA WATER YEAST PEPTONE MEDIUM (DSMZ Medium 949) Composition: Peptone 5.0 g/l Yeast extract 3.0 g/l Sea water Distilled water
39531Marine agar (MA)yesDistilled water make up to (1000.000 ml);Marine agar (55.100 g)
116221CIP Medium 13yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=13

culture temp

@refgrowthtypetemperaturerange
3500positivegrowth20psychrophilic
39531positivegrowth30mesophilic
67770positivegrowth25mesophilic
116221positivegrowth5-41

Physiology and metabolism

oxygen tolerance

  • @ref: 116221
  • oxygen tolerance: obligate aerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.4

compound production

  • @ref: 3500
  • compound: tetrodotoxin

halophily

  • @ref: 116221
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 0-10 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
11622116947citrate-carbon source
1162214853esculin-hydrolysis
11622117632nitrate+reduction
11622116301nitrite+reduction
11622117632nitrate-respiration

antibiotic resistance

  • @ref: 116221
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: no
  • is resistant: yes

metabolite production

@refChebi-IDmetaboliteproduction
677709506tetrodotoxinyes
11622135581indoleno

enzymes

@refvalueactivityec
116221oxidase+
116221beta-galactosidase-3.2.1.23
116221alcohol dehydrogenase-1.1.1.1
116221gelatinase+
116221amylase-
116221DNase+
116221caseinase+3.4.21.50
116221catalase+1.11.1.6
116221tween esterase-
116221lecithinase+
116221lipase+
116221lysine decarboxylase-4.1.1.18
116221ornithine decarboxylase+4.1.1.17
116221protease+
116221tryptophan deaminase-
116221urease-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
116221-+++-+--++++-----+--

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
116221+------------------------------------------------+---------+------------+--+++-++-----+-+----++-++-

Isolation, sampling and environmental information

isolation

@refsample typehost species
3500surface of a red alga Jania sp.Jania
54638Red alga,Jania sp.
67770Surface of a red alga Jania sp.Jania sp.
116221Red algae

isolation source categories

  • Cat1: #Host
  • Cat2: #Algae
  • Cat3: #Red algae

taxonmaps

  • @ref: 69479
  • File name: preview.99_1099.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_59;96_641;97_744;98_863;99_1099&stattab=map
  • Last taxonomy: Shewanella algae
  • 16S sequence: U91546
  • Sequence Identity:
  • Total samples: 4840
  • soil counts: 118
  • aquatic counts: 730
  • animal counts: 3902
  • plant counts: 90

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
35002Risk group (German classification)
1162211Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Shewanella algae strain ATCC 51192 16S ribosomal RNA gene, partial sequenceFJ971879799ena38313
20218Shewanella algae strain ATCC 51192 16S ribosomal RNA gene, partial sequenceHM0160871482ena38313
20218Shewanella alga 16S ribosomal RNA (rrs) gene, partial sequenceU915461354ena38313
20218Shewanella algae gene for 16S rRNA, partial sequence, strain: NBRC 103173AB6819801470ena38313
3500Shewanella algae strain ATCC 51192 16S ribosomal RNA gene, partial sequenceAF0052491538ena38313

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Shewanella algae JCM 21037 = NBRC 103173GCA_000615045contigncbi1236544
66792Shewanella algae JCM 210371236544.3wgspatric1236544
66792Shewanella algae JCM 21037 = NBRC 1031731236544.7wgspatric1236544
66792Shewanella algae strain ATCC 5119238313.84wgspatric38313
66792Shewanella algae JCM 210372585427912draftimg1236544
66792Shewanella algae NBRC 1031732731957717draftimg1236544
67770Shewanella algae ATCC 51192GCA_012396675contigncbi38313
66792Shewanella algae JCM 21037 = NBRC 103173GCA_001598875contigncbi1236544

GC content

  • @ref: 67770
  • GC-content: 54
  • method: high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileyes94.592no
gram-positiveno99.088no
anaerobicno94.443no
aerobicyes53.406no
halophileno67.899no
spore-formingno96.297no
glucose-utilyes91.65no
flagellatedyes92.049no
thermophileno99.539yes
glucose-fermentno60.481no

External links

@ref: 3500

culture collection no.: DSM 9167, ATCC 51192, IAM 14159, NCIMB 13178, CCUG 39064, JCM 21037, BCRC 80907, CIP 106454, NBRC 103173

straininfo link

  • @ref: 83231
  • straininfo: 11992

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny2275851Taxonomy of four marine bacterial strains that produce tetrodotoxin.Simidu U, Kita-Tsukamoto K, Yasumoto T, Yotsu MInt J Syst Bacteriol10.1099/00207713-40-4-3311990Animals, Base Composition, Base Sequence, Fishes/*genetics/microbiology, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/chemistry, Rhodophyta/*genetics/ultrastructure, Tetrodotoxin/biosynthesis/*genetics, *Water MicrobiologyGenetics
Phylogeny9172338Differentiation of Shewanella putrefaciens and Shewanella alga on the basis of whole-cell protein profiles, ribotyping, phenotypic characterization, and 16S rRNA gene sequence analysis.Vogel BF, Jorgensen K, Christensen H, Olsen JE, Gram LAppl Environ Microbiol10.1128/aem.63.6.2189-2199.19971997Animals, Bacterial Proteins/isolation & purification, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/chemistry/genetics, Fishes/microbiology, Fuel Oils, Genes, Bacterial, Gram-Negative Facultatively Anaerobic Rods/chemistry/*classification/genetics, Humans, Molecular Sequence Data, Phenotype, Phylogeny, RNA, Bacterial/*genetics, RNA, Ribosomal, 16S/*genetics, Species Specificity, Water MicrobiologyPathogenicity
Phylogeny17158990Shewanella irciniae sp. nov., a novel member of the family Shewanellaceae, isolated from the marine sponge Ircinia dendroides in the Bay of Villefranche, Mediterranean Sea.Lee OO, Lau SCK, Tsoi MMY, Li X, Plakhotnikova I, Dobretsov S, Wu MCS, Wong PK, Weinbauer M, Qian PYInt J Syst Evol Microbiol10.1099/ijs.0.64562-02006Animals, Bacterial Typing Techniques, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Genes, rRNA, Mediterranean Sea, Molecular Sequence Data, Phenotype, Phylogeny, Porifera/*microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Shewanella/chemistry/*classification/genetics/isolation & purificationGenetics
Phylogeny17158991Shewanella spongiae sp. nov., isolated from a marine sponge.Yang SH, Kwon KK, Lee HS, Kim SJInt J Syst Evol Microbiol10.1099/ijs.0.64540-02006Animals, Bacterial Typing Techniques, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Fatty Acids/analysis, Genes, rRNA, Korea, Marine Biology, Molecular Sequence Data, Phylogeny, Porifera/*microbiology, RNA, Ribosomal, 16S, Sequence Analysis, DNA, Shewanella/*classification/genetics/isolation & purification/physiologyGenetics
Phylogeny18048751Shewanella haliotis sp. nov., isolated from the gut microflora of abalone, Haliotis discus hannai.Kim D, Baik KS, Kim MS, Jung BM, Shin TS, Chung GH, Rhee MS, Seong CNInt J Syst Evol Microbiol10.1099/ijs.0.65257-02007Aerobiosis/physiology, Anaerobiosis/physiology, Animals, Bacterial Typing Techniques, Base Composition, Catalase/analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Gastrointestinal Tract/microbiology, Gastropoda/*microbiology, Genes, rRNA, Korea, Locomotion/physiology, Molecular Sequence Data, Nucleic Acid Hybridization, Oxidoreductases/analysis, Phylogeny, Pigments, Biological/metabolism, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sequence Homology, Nucleic Acid, Shewanella/chemistry/*classification/genetics/*isolation & purificationGenetics
Phylogeny19567571Shewanella marina sp. nov., isolated from seawater.Park SC, Baik KS, Kim MS, Kim D, Seong CNInt J Syst Evol Microbiol10.1099/ijs.0.005470-02009Anaerobiosis, Bacterial Typing Techniques, Base Composition, Catalase/metabolism, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Korea, Locomotion, Molecular Sequence Data, Oxidoreductases/metabolism, Phylogeny, Pigments, Biological/biosynthesis, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, Shewanella/*classification/genetics/*isolation & purification/physiologyMetabolism
Phylogeny19643885Shewanella chilikensis sp. nov., a moderately alkaliphilic gammaproteobacterium isolated from a lagoon.Sucharita K, Sasikala Ch, Park SC, Baik KS, Seong CN, Ramana ChVInt J Syst Evol Microbiol10.1099/ijs.0.010918-02009Alkalies/*metabolism, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/chemistry/metabolism, Geologic Sediments/*microbiology, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Shewanella/*classification/genetics/*isolation & purification/metabolismMetabolism
Phylogeny20851908Shewanella indica sp. nov., isolated from sediment of the Arabian Sea.Verma P, Pandey PK, Gupta AK, Kim HJ, Baik KS, Seong CN, Patole MS, Shouche YSInt J Syst Evol Microbiol10.1099/ijs.0.026310-02010Aerobiosis, Anaerobiosis, Bacterial Typing Techniques, Base Composition, Catalase/metabolism, Cluster Analysis, DNA Gyrase/genetics, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Flagella/physiology, Hemolysin Proteins/metabolism, Hydrogen-Ion Concentration, India, Locomotion, Molecular Sequence Data, Nucleic Acid Hybridization, Oxidoreductases/metabolism, Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, Shewanella/*classification/genetics/*isolation & purification/physiology, Sodium Chloride/metabolism, TemperatureMetabolism
Phylogeny21717322Shewanella upenei sp. nov., a lipolytic bacterium isolated from bensasi goatfish Upeneus bensasi.Kim KK, Kim YO, Park S, Kang SJ, Nam BH, Kim DN, Oh TK, Yoon JHJ Microbiol10.1007/s12275-011-0175-52011Animals, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/analysis, Genes, rRNA, Lipolysis, Molecular Sequence Data, Perciformes/*microbiology, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Shewanella/*classification/genetics/*isolation & purification/physiology, Species SpecificityGenetics
Phylogeny21890724Shewanella dokdonensis sp. nov., isolated from seawater.Sung HR, Yoon JH, Ghim SYInt J Syst Evol Microbiol10.1099/ijs.0.032995-02011Aerobiosis, Anaerobiosis, Bacterial Typing Techniques, Base Composition, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Hydrogen-Ion Concentration, Locomotion, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, Pigments, Biological/metabolism, RNA, Ribosomal, 16S/genetics, Republic of Korea, Seawater/*microbiology, Sequence Analysis, DNA, Shewanella/*classification/genetics/*isolation & purification/physiology, Sodium Chloride/metabolism, Temperature, Ubiquinone/analysis, Vitamin K 2/analysisGenetics
Phylogeny29504926Whole-genome sequencing reveals that Shewanella haliotis Kim et al. 2007 can be considered a later heterotypic synonym of Shewanella algae Simidu et al. 1990.Szeinbaum N, Kellum CE, Glass JB, Janda JM, DiChristina TJInt J Syst Evol Microbiol10.1099/ijsem.0.0026782018Bacterial Typing Techniques, DNA, Bacterial/genetics, *Genome, Bacterial, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Shewanella/*classification, Whole Genome SequencingGenetics
Genetics34351223Complete Genome Sequence and Methylome of the Type Strain of Shewanella algae.Tellgren-Roth C, Thorell K, Galperin MY, Krell T, Romling U, Sjoling A, Martin-Rodriguez AJMicrobiol Resour Announc10.1128/MRA.00559-212021

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
3500Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 9167)https://www.dsmz.de/collection/catalogue/details/culture/DSM-9167
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
39531Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/18586
54638Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 39064)https://www.ccug.se/strain?id=39064
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)
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg10.1093/nar/gkaa1025BRENDA, the ELIXIR core data resource in 2021: new developments and updatesNucleic Acids Res. 49: D498-D508 202033211880
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
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
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch10.21203/rs.3.rs-2527258/v1Predictions based on the model GenomeNet Sporulation v. 1
83231Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID11992.1StrainInfo: A central database for resolving microbial strain identifiers
116221Curators of the CIPCollection of Institut Pasteur (CIP 106454)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20106454