Strain identifier
BacDive ID: 160974
Type strain: 
Species: Clostridium sp.
Strain history: M. Ohkuma NkU-1.
NCBI tax ID(s): 1095009 (species)
version 9.3 (current version)
General
@ref: 67770
BacDive-ID: 160974
keywords: genome sequence, 16S sequence, Bacteria, spore-forming, mesophilic
description: Clostridium sp. JCM 10519 is a spore-forming, mesophilic bacterium that was isolated from Termite gut.
NCBI tax id
- NCBI tax id: 1095009
- Matching level: species
strain history
- @ref: 67770
- history: M. Ohkuma NkU-1.
doi: 10.13145/bacdive160974.20250331.9.3
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacillota
- domain: Bacteria
- phylum: Bacillota
- class: Clostridia
- order: Eubacteriales
- family: Clostridiaceae
- genus: Clostridium
- species: Clostridium sp.
- full scientific name: Clostridium Prazmowski 1880 (Approved Lists 1980)
synonyms
@ref synonym 20215 Anaerobacter 20215 Inflabilis 20215 Tyzzerella 20215 Pseudoclostridium 20215 Lachnoclostridium
@ref: 67770
domain: Bacteria
phylum: Firmicutes
class: Clostridia
order: Eubacteriales
family: Clostridiaceae
genus: Clostridium
species: Clostridium sp.
full scientific name: Clostridium sp.
type strain: no
Culture and growth conditions
culture temp
- @ref: 67770
- growth: positive
- type: growth
- temperature: 30
Physiology and metabolism
oxygen tolerance
- @ref: 125439
- oxygen tolerance: anaerobe
- confidence: 99.6
Isolation, sampling and environmental information
isolation
- @ref: 67770
- sample type: Termite gut
Sequence information
16S sequences
- @ref: 67770
- description: Clostridium sp. NkU-1 gene for 16S rRNA, partial sequence
- accession: AB673451
- length: 1479
- database: nuccore
- NCBI tax ID: 1095009
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Clostridium sp. NkU-1 JCM 10519 | GCA_001312405 | contig | ncbi | 1095009 |
| 66792 | Clostridium sp. NkU-1 strain JCM 10519 | 1095009.4 | wgs | patric | 1095009 |
| 66792 | Clostridium sp. JCM 10519 | 2728369723 | draft | img | 1095009 |
Genome-based predictions
predictions
| @ref | model | trait | description | prediction | confidence | training_data |
|---|---|---|---|---|---|---|
| 125439 | BacteriaNet | oxygen_tolerance | Oxygenic conditions needed for growth | anaerobe | 99.6 | |
| 125439 | BacteriaNet | gram_stain | Reaction to gram-staining | variable | 79.4 | |
| 125439 | BacteriaNet | motility | Ability to perform movement | yes | 82.7 | |
| 125439 | BacteriaNet | spore_formation | Ability to form endo- or exospores | yes | 79.3 | |
| 125438 | gram-positive | gram-positive | Positive reaction to Gram-staining | yes | 65.097 | no |
| 125438 | anaerobic | anaerobic | Ability to grow under anoxygenic conditions (including facultative anaerobes) | yes | 88.476 | no |
| 125438 | spore-forming | spore-forming | Ability to form endo- or exospores | yes | 61.96 | no |
| 125438 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | no | 95.572 | no |
| 125438 | thermophile | thermophilic | Ability to grow at temperatures above or equal to 45°C | no | 95.74 | yes |
| 125438 | motile2+ | flagellated | Ability to perform flagellated movement | yes | 74.015 | no |
External links
@ref: 67770
culture collection no.: JCM 10519
Reference
| @id | authors | title | doi/url |
|---|---|---|---|
| 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 |
| 66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | https://diaspora-project.de/progress.html#genomes |
| 67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | |
| 125438 | Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann | Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets | 10.1101/2024.08.12.607695 |
| 125439 | Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy | deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 | https://github.com/GenomeNet/deepG |