Strain identifier

BacDive ID: 130687

Type strain: Yes

Species: Spirochaeta psychrophila

Strain Designation: MO-SPC1

Strain history: M. Miyazaki MO-SPC1.

NCBI tax ID(s): 913100 (species)

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General

@ref: 21797

BacDive-ID: 130687

DSM-Number: 23951

keywords: 16S sequence, Bacteria, anaerobe, psychrophilic

description: Spirochaeta psychrophila MO-SPC1 is an anaerobe, psychrophilic bacterium that was isolated from marine subsurface sediment, 1180 m water depth.

NCBI tax id

  • NCBI tax id: 913100
  • Matching level: species

strain history

@refhistory
21797<- M. Miyazaki, Japan Agency for Marine-Earth Sci. and Technol. (JAMSTEC), Yokosuka; MO-SPC1 <- H. Imachi {2010}
67770M. Miyazaki MO-SPC1.

doi: 10.13145/bacdive130687.20230509.8.1

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 psychrophila
  • full scientific name: Spirochaeta psychrophila Miyazaki et al. 2014

@ref: 21797

domain: Bacteria

phylum: Spirochaetes

class: Spirochaetia

order: Spirochaetales

family: Spirochaetaceae

genus: Spirochaeta

species: Spirochaeta psychrophila

full scientific name: Spirochaeta psychrophila Miyazaki et al. 2014

strain designation: MO-SPC1

type strain: yes

Morphology

colony morphology

  • @ref: 21797
  • incubation period: 3-7 days

Culture and growth conditions

culture medium

  • @ref: 21797
  • name: PLEOMORPHOCHAETA MEDIUM (DSMZ Medium 1271)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/1271
  • composition: Name: PLEOMORPHOCHAETA MEDIUM (DSMZ Medium 1271; with strain-specific modifications) Composition: NaCl 24.9252 g/l MgCl2 x 6 H2O 3.98804 g/l Sucrose 1.99402 g/l Na2CO3 1.49551 g/l CaCl2 x 2 H2O 0.997009 g/l Yeast extract 0.997009 g/l NH4Cl 0.498504 g/l Na2S x 9 H2O 0.299103 g/l L-Cysteine HCl x H2O 0.299103 g/l KH2PO4 0.0997009 g/l FeCl2 x 4 H2O 0.00199402 g/l NaOH 0.000498504 g/l Na2-EDTA 0.000498504 g/l Sodium resazurin 0.000498504 g/l CoCl2 x 6 H2O 0.000189432 g/l Pyridoxine hydrochloride 9.97009e-05 g/l MnCl2 x 4 H2O 9.97009e-05 g/l ZnCl2 6.97906e-05 g/l p-Aminobenzoic acid 4.98504e-05 g/l (DL)-alpha-Lipoic acid 4.98504e-05 g/l Nicotinic acid 4.98504e-05 g/l Riboflavin 4.98504e-05 g/l Thiamine HCl 4.98504e-05 g/l Calcium D-(+)-pantothenate 4.98504e-05 g/l Na2MoO4 x 2 H2O 3.58923e-05 g/l NiCl2 x 6 H2O 2.39282e-05 g/l Folic acid 1.99402e-05 g/l Biotin 1.99402e-05 g/l AlCl3 9.97009e-06 g/l H3BO3 5.98205e-06 g/l Na2WO4 x 2 H2O 3.98804e-06 g/l Na2SeO3 x 5 H2O 2.99103e-06 g/l CuCl2 x 2 H2O 1.99402e-06 g/l Vitamin B12 9.97009e-07 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
21797positivegrowth15psychrophilic
67770positivegrowth15psychrophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 21797
  • oxygen tolerance: anaerobe

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentlatitudelongitude
21797marine subsurface sediment, 1180 m water depthnorth-west Pacific Ocean offshore Shimokita Peninsula (site C9001)JapanJPNAsia41.1773142.201
67770Marine subsurface sediments collected off the Shimokita Peninsula of Japan

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Marine
#Environmental#Aquatic#Sediment

taxonmaps

  • @ref: 69479
  • File name: preview.99_184502.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_4809;96_21993;97_55611;98_73612;99_184502&stattab=map
  • Last taxonomy: Spirochaeta psychrophila subclade
  • 16S sequence: AB598279
  • Sequence Identity:
  • Total samples: 4041
  • soil counts: 72
  • aquatic counts: 3832
  • animal counts: 38
  • plant counts: 99

Safety information

risk assessment

  • @ref: 21797
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 21797
  • description: Spirochaeta psychrophila gene for 16S rRNA, partial sequence
  • accession: AB598279
  • length: 1464
  • database: ena
  • NCBI tax ID: 913100

GC content

  • @ref: 21797
  • GC-content: 39.8
  • method: high performance liquid chromatography (HPLC)

External links

@ref: 21797

culture collection no.: DSM 23951, JCM 17280

straininfo link

  • @ref: 89194
  • straininfo: 398966

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

@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
21797Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-23951Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 23951)
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
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.MicrobeAtlas 1.0 betahttps://microbeatlas.org/
89194Reimer, 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-ID398966.1