Strain identifier

BacDive ID: 14318

Type strain: Yes

Species: Spirochaeta isovalerica

Strain Designation: MA-2

Strain history: <- C. S. Harwood; MA-2 <- C. S. Harwood {1974}

NCBI tax ID(s): 150 (species)

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General

@ref: 1086

BacDive-ID: 14318

DSM-Number: 2461

keywords: genome sequence, 16S sequence, Bacteria, anaerobe, mesophilic, Gram-negative

description: Spirochaeta isovalerica MA-2 is an anaerobe, mesophilic, Gram-negative bacterium that was isolated from marine intertidal mud.

NCBI tax id

  • NCBI tax id: 150
  • Matching level: species

strain history

  • @ref: 1086
  • history: <- C. S. Harwood; MA-2 <- C. S. Harwood {1974}

doi: 10.13145/bacdive14318.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/spirochaetota
  • domain: Bacteria
  • phylum: Spirochaetota
  • class: Spirochaetia
  • order: Spirochaetales
  • family: Spirochaetaceae
  • genus: Spirochaeta
  • species: Spirochaeta isovalerica
  • full scientific name: Spirochaeta isovalerica Harwood and Canale-Parola 1983

@ref: 1086

domain: Bacteria

phylum: Spirochaetes

class: Spirochaetia

order: Spirochaetales

family: Spirochaetaceae

genus: Spirochaeta

species: Spirochaeta isovalerica

full scientific name: Spirochaeta isovalerica Harwood and Canale-Parola 1983

strain designation: MA-2

type strain: yes

Morphology

cell morphology

  • @ref: 69480
  • gram stain: negative
  • confidence: 99.807

Culture and growth conditions

culture medium

  • @ref: 1086
  • name: OCEANISPIROCHAETA LITORALIS MEDIUM (DSMZ Medium 173)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/173
  • composition: Name: OCEANISPIROCHAETA LITORALIS MEDIUM (DSMZ Medium 173) Composition: D-Glucose 2.0 g/l Yeast extract 1.0 g/l Trypticase peptone 1.0 g/l L-Cysteine HCl x H2O 0.5 g/l Sodium resazurin 0.0005 g/l Sea water Tris-HCl buffer Distilled water

culture temp

  • @ref: 1086
  • growth: positive
  • type: growth
  • temperature: 30
  • range: mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
1086anaerobe
69480anaerobe100

spore formation

@refspore formationconfidence
69481no100
69480no99.946

Isolation, sampling and environmental information

isolation

  • @ref: 1086
  • sample type: marine intertidal mud
  • geographic location: Massachusetts, Woods Hole
  • country: USA
  • origin.country: USA
  • continent: North America

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Marine
#Environmental#Terrestrial#Mud (Sludge)
#Environmental#Terrestrial#Tidal flat

Safety information

risk assessment

  • @ref: 1086
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Spirochaeta isovalerica partial 16S rRNA gene, type strain DSM 2461T, clone 1FR7499301533ena150
20218Spirochaeta isovalerica 16S ribosomal RNAM887201569ena150
1086Spirochaeta isovalerica partial 16S rRNA gene, type strain DSM 2461T, clone 2FR7499311534ena150

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Spirochaeta isovalerica DSM 2461GCA_014207565scaffoldncbi150
66792Spirochaeta isovalerica strain DSM 2461150.10wgspatric150
66792Spirochaeta isovalerica DSM 24612861426075draftimg150

GC content

  • @ref: 1086
  • GC-content: 64.5

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
flagellatedno76.841no
gram-positiveno94.357no
anaerobicyes95.497no
aerobicno95.958yes
halophileno81.663no
spore-formingno80.874no
glucose-utilyes88.072no
thermophileno85.428yes
motileyes75.949no
glucose-fermentyes56.749no

External links

@ref: 1086

culture collection no.: DSM 2461, ATCC 33939

straininfo link

  • @ref: 83468
  • straininfo: 46771

literature

  • topic: Phylogeny
  • Pubmed-ID: 24860115
  • title: Spirochaeta psychrophila sp. nov., a psychrophilic spirochaete isolated from subseafloor sediment, and emended description of the genus Spirochaeta.
  • authors: Miyazaki M, Sakai S, Yamanaka Y, Saito Y, Takai K, Imachi H
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.062463-0
  • year: 2014
  • mesh: Bacterial Typing Techniques, Base Composition, Bioreactors/*microbiology, DNA, Bacterial/genetics, Fatty Acids/chemistry, Geologic Sediments/*microbiology, Japan, Molecular Sequence Data, Phospholipids/chemistry, Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/microbiology, Sequence Analysis, DNA, Spirochaeta/*classification/genetics/isolation & purification
  • topic2: Genetics

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
1086Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 2461)https://www.dsmz.de/collection/catalogue/details/culture/DSM-2461
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
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)
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
83468Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID46771.1StrainInfo: A central database for resolving microbial strain identifiers