Strain identifier
BacDive ID: 130687
Type strain:
Species: Spirochaeta psychrophila
Strain Designation: MO-SPC1
Strain history: M. Miyazaki MO-SPC1.
NCBI tax ID(s): 913100 (species)
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
@ref | history |
---|---|
21797 | <- M. Miyazaki, Japan Agency for Marine-Earth Sci. and Technol. (JAMSTEC), Yokosuka; MO-SPC1 <- H. Imachi {2010} |
67770 | M. 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
@ref | growth | type | temperature | range |
---|---|---|---|---|
21797 | positive | growth | 15 | psychrophilic |
67770 | positive | growth | 15 | psychrophilic |
Physiology and metabolism
oxygen tolerance
- @ref: 21797
- oxygen tolerance: anaerobe
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent | latitude | longitude |
---|---|---|---|---|---|---|---|
21797 | marine subsurface sediment, 1180 m water depth | north-west Pacific Ocean offshore Shimokita Peninsula (site C9001) | Japan | JPN | Asia | 41.1773 | 142.201 |
67770 | Marine subsurface sediments collected off the Shimokita Peninsula of Japan |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#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
@id | authors | title | doi/url | catalogue |
---|---|---|---|---|
20215 | Parte, 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 DSMZ | 10.1099/ijsem.0.004332 | |
21797 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-23951 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 23951) | |
67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||
69479 | João 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 beta | https://microbeatlas.org/ | |
89194 | Reimer, 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 identifiers | 10.60712/SI-ID398966.1 |