Strain identifier

BacDive ID: 134489

Type strain: Yes

Species: Shewanella amazonensis

Strain Designation: SB2B

Strain history: CIP <- 1998, K. Venkateswaran, Environ. Eng. Sci., Pasadena, California, USA: strain SB2B

NCBI tax ID(s): 60478 (species)

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General

@ref: 32842

BacDive-ID: 134489

keywords: genome sequence, Bacteria, facultative anaerobe, mesophilic, motile

description: Shewanella amazonensis SB2B is a facultative anaerobe, mesophilic, motile bacterium of the family Shewanellaceae.

NCBI tax id

  • NCBI tax id: 60478
  • Matching level: species

strain history

@refhistory
328421998, K. Venkateswaran, Environ. Eng. Sci., Pasadena, USA: strain SB2B
32842CIP <- 1998, K. Venkateswaran, Environ. Eng. Sci., Pasadena, California, USA: strain SB2B

doi: 10.13145/bacdive134489.20230509.8.1

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 amazonensis
  • full scientific name: Shewanella amazonensis Venkateswaran et al. 1998

@ref: 32842

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Alteromonadales

family: Shewanellaceae

genus: Shewanella

species: Shewanella amazonensis

strain designation: SB2B

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
69480yes98.646
6948099.984negative
32842yesnegativerod-shaped

Culture and growth conditions

culture medium

@refnamegrowthcompositionlink
32842MEDIUM 3 - Columbia agaryesColumbia agar (39.000 g);distilled water (1000.000 ml)
32842CIP Medium 3yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=3
32842CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
32842positivegrowth25mesophilic
32842positivegrowth5-41

Physiology and metabolism

oxygen tolerance

  • @ref: 32842
  • oxygen tolerance: facultative anaerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.989

halophily

@refsaltgrowthtested relationconcentration
32842NaClpositivegrowth0-6 %
32842NaClnogrowth8 %
32842NaClnogrowth10 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3284216947citrate-carbon source
328424853esculin+hydrolysis
3284217632nitrate+reduction
3284216301nitrite+reduction
3284217632nitrate+respiration

antibiotic resistance

  • @ref: 32842
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: no
  • is resistant: yes

metabolite production

  • @ref: 32842
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
32842oxidase+
32842beta-galactosidase-3.2.1.23
32842alcohol dehydrogenase-1.1.1.1
32842gelatinase+/-
32842amylase-
32842DNase+
32842caseinase+3.4.21.50
32842catalase+1.11.1.6
32842tween esterase+
32842lecithinase+
32842lipase-
32842lysine decarboxylase-4.1.1.18
32842ornithine decarboxylase+4.1.1.17
32842protease+
32842tryptophan deaminase-
32842urease-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
32842-+++-++-++++---+-+--

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
32842+---+----++----+--+------------------------------+---------+------------+--+--+++-----+---+--++-++-

Isolation, sampling and environmental information

isolation

@refcountryorigin.countrycontinentsample typeisolation date
32842BrazilBRAMiddle and South America
32842BrazilBRAMiddle and South AmericaEnvironment, Mud hat sediment1996

Safety information

risk assessment

  • @ref: 32842
  • biosafety level: 1
  • biosafety level comment: Risk group (French classification)

Sequence information

Genome sequences

  • @ref: 66792
  • description: Shewanella amazonensis SB2B
  • accession: 326297.10
  • assembly level: complete
  • database: patric
  • NCBI tax ID: 326297

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
gram-positiveno99.197no
anaerobicno96.435no
halophileno71.956no
spore-formingno95.928no
glucose-utilyes88.453no
flagellatedyes92.658no
aerobicno50no
motileyes92.843no
thermophileno98.899yes
glucose-fermentno66.896no

External links

@ref: 32842

culture collection no.: CIP 105786, ATCC 700329

straininfo link

  • @ref: 92008
  • straininfo: 45420

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny9734053Shewanella amazonensis sp. nov., a novel metal-reducing facultative anaerobe from Amazonian shelf muds.Venkateswaran K, Dollhopf ME, Aller R, Stackebrandt E, Nealson KHInt J Syst Bacteriol10.1099/00207713-48-3-9651998Base Sequence, Fatty Acids/analysis, *Geologic Sediments, Metals/*metabolism, Molecular Sequence Data, Oxidation-Reduction, Phylogeny, Vibrionaceae/*classification/genetics/metabolism, *Water MicrobiologyMetabolism
Phylogeny22660951Shewanella litorisediminis sp. nov., a gammaproteobacterium isolated from a tidal flat sediment.Lee MH, Yoon JHAntonie Van Leeuwenhoek10.1007/s10482-012-9754-72012Aerobiosis, Anaerobiosis, Bacterial Typing Techniques, Base Composition, Cluster Analysis, DNA Gyrase/genetics, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Geologic Sediments/*microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, Shewanella/*classification/genetics/*isolation & purification/physiologyGenetics

Reference

@idauthorstitledoi/urlcatalogue
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
32842Curators of the CIPhttps://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20105786Collection of Institut Pasteur (CIP 105786)
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
68382Automatically annotated from API zym
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
92008Reimer, 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 identifiers10.60712/SI-ID45420.1