Strain identifier
BacDive ID: 2527
Type strain: 
Species: Caminicella sporogenes
Strain Designation: AM 1114
Strain history: <- E. Sargenton, IFREMER <- K. Alain; AM 1114 {2001}
NCBI tax ID(s): 1121266 (strain), 166485 (species)
version 8.1 (current version)
General
@ref: 5378
BacDive-ID: 2527
DSM-Number: 14501
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, spore-forming, thermophilic, Gram-positive
description: Caminicella sporogenes AM 1114 is an anaerobe, spore-forming, thermophilic bacterium that was isolated from Alvinella pompejana tubes, deep-sea hydrothermal vent.
NCBI tax id
| NCBI tax id | Matching level |
|---|---|
| 166485 | species |
| 1121266 | strain |
strain history
- @ref: 5378
- history: <- E. Sargenton, IFREMER <- K. Alain; AM 1114 {2001}
doi: 10.13145/bacdive2527.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacillota
- domain: Bacteria
- phylum: Bacillota
- class: Clostridia
- order: Eubacteriales
- family: Clostridiaceae
- genus: Caminicella
- species: Caminicella sporogenes
- full scientific name: Caminicella sporogenes Alain et al. 2002
@ref: 5378
domain: Bacteria
phylum: Firmicutes
class: Clostridia
order: Clostridiales
family: Clostridiaceae
genus: Caminicella
species: Caminicella sporogenes
full scientific name: Caminicella sporogenes Alain et al. 2002
strain designation: AM 1114
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: positive
- confidence: 100
Culture and growth conditions
culture medium
- @ref: 5378
- name: CAMINICELLA MEDIUM (DSMZ Medium 964)
- growth: yes
- link: https://mediadive.dsmz.de/medium/964
- composition: Name: CAMINICELLA MEDIUM (DSMZ Medium 964) Composition: Sea Salt 30.0 g/l Sulfur 12.0 g/l PIPES buffer 6.05 g/l D-Glucose 5.0 g/l Peptone 1.0 g/l Yeast extract 0.5 g/l Na2S x 9 H2O 0.5 g/l Sodium resazurin 0.0005 g/l Distilled water
culture temp
| @ref | growth | type | temperature | range | confidence |
|---|---|---|---|---|---|
| 5378 | positive | growth | 60 | thermophilic | |
| 69480 | thermophilic | 99.112 |
Physiology and metabolism
oxygen tolerance
| @ref | oxygen tolerance | confidence |
|---|---|---|
| 5378 | anaerobe | |
| 69480 | anaerobe | 100 |
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | yes | 99 |
| 69480 | yes | 99.508 |
Isolation, sampling and environmental information
isolation
- @ref: 5378
- sample type: Alvinella pompejana tubes, deep-sea hydrothermal vent
- host species: Alvinella pompejana
- geographic location: East-Pacific Rise, Elsa (HOT3)
- latitude: 12.8033
- longitude: -103.939
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Environmental | #Aquatic | #Hydrothermal vent |
| #Host | #Invertebrates (Other) | #Annelida |
| #Condition | #Thermophilic (>45°C) |
taxonmaps
- @ref: 69479
- File name: preview.99_5600.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15791;96_2700;97_3316;98_4178;99_5600&stattab=map
- Last taxonomy: Caminicella sporogenes subclade
- 16S sequence: AJ320233
- Sequence Identity:
- Total samples: 54
- soil counts: 2
- aquatic counts: 32
- animal counts: 18
- plant counts: 2
Safety information
risk assessment
- @ref: 5378
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 5378
- description: Caminibacillus sporogenes partial 16S rRNA gene, strain AM1114
- accession: AJ320233
- length: 1456
- database: ena
- NCBI tax ID: 166485
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Caminicella sporogenes AM 1114 | GCA_003609595 | contig | ncbi | 166485 |
| 66792 | Caminicella sporogenes DSM 14501 | GCA_900142285 | scaffold | ncbi | 1121266 |
| 66792 | Caminicella sporogenes DSM 14501 | 1121266.3 | wgs | patric | 1121266 |
| 66792 | Caminicella sporogenes strain AM 1114 | 166485.4 | wgs | patric | 166485 |
| 66792 | Caminicella sporogenes DSM 14501 | 2585428193 | draft | img | 1121266 |
| 66792 | Caminicella sporogenes AM 1114 | 2831514688 | draft | img | 1121266 |
GC content
- @ref: 5378
- GC-content: 24.2
- method: thermal denaturation, midpoint method (Tm)
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | yes | 99 | no |
| motile | yes | 79.352 | no |
| flagellated | no | 72.646 | no |
| gram-positive | no | 51.169 | no |
| anaerobic | yes | 99.55 | yes |
| aerobic | no | 97.635 | yes |
| halophile | no | 90.937 | no |
| spore-forming | yes | 77.908 | no |
| thermophile | yes | 99.719 | no |
| glucose-util | yes | 90.389 | no |
| glucose-ferment | yes | 65.654 | no |
External links
@ref: 5378
culture collection no.: DSM 14501, CIP 107141
straininfo link
- @ref: 72061
- straininfo: 100581
literature
- topic: Phylogeny
- Pubmed-ID: 12361265
- title: Caminicella sporogenes gen. nov., sp. nov., a novel thermophilic spore-forming bacterium isolated from an East-Pacific Rise hydrothermal vent.
- authors: Alain K, Pignet P, Zbinden M, Quillevere M, Duchiron F, Donval JP, Lesongeur F, Raguenes G, Crassous P, Querellou J, Cambon-Bonavita MA
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/00207713-52-5-1621
- year: 2002
- mesh: Base Composition, Base Sequence, Clostridium/classification, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/genetics, Gram-Negative Anaerobic Straight, Curved, and Helical Rods/*classification/genetics/*isolation & purification/metabolism, Microscopy, Electron, Molecular Sequence Data, Pacific Ocean, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Seawater/microbiology
- topic2: Genetics
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 5378 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 14501) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-14501 | |||
| 20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | 10.1099/ijsem.0.004332 | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | |||
| 66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
| 66794 | Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg | 10.1093/nar/gkaa1025 | BRENDA, the ELIXIR core data resource in 2021: new developments and updates | Nucleic Acids Res. 49: D498-D508 2020 | 33211880 | |
| 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. | https://microbeatlas.org/ | MicrobeAtlas 1.0 beta | |||
| 69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
| 69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | 10.21203/rs.3.rs-2527258/v1 | Predictions based on the model GenomeNet Sporulation v. 1 | |||
| 72061 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID100581.1 | StrainInfo: A central database for resolving microbial strain identifiers |