Strain identifier
BacDive ID: 10427
Type strain: 
Species: Caminibacter profundus
Strain Designation: CR
Strain history: M. Miroshnichenko strain CR.
NCBI tax ID(s): 217041 (species)
version 8.1 (current version)
General
@ref: 5669
BacDive-ID: 10427
DSM-Number: 15016
keywords: 16S sequence, Bacteria, anaerobe, thermophilic, Gram-negative, motile, rod-shaped
description: Caminibacter profundus CR is an anaerobe, thermophilic, Gram-negative bacterium that was isolated from content of a vent cap.
NCBI tax id
- NCBI tax id: 217041
- Matching level: species
strain history
| @ref | history |
|---|---|
| 5669 | <- C. Jeanthon; CR |
| 67770 | M. Miroshnichenko strain CR. |
doi: 10.13145/bacdive10427.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Epsilonproteobacteria
- order: Nautiliales
- family: Nautiliaceae
- genus: Caminibacter
- species: Caminibacter profundus
- full scientific name: Caminibacter profundus Miroshnichenko et al. 2004
@ref: 5669
domain: Bacteria
phylum: Proteobacteria
class: Epsilonproteobacteria
order: Nautiliales
family: Nautiliaceae
genus: Caminibacter
species: Caminibacter profundus
full scientific name: Caminibacter profundus Miroshnichenko et al. 2004
strain designation: CR
type strain: yes
Morphology
cell morphology
- @ref: 29965
- gram stain: negative
- cell length: 1.2-1.5 µm
- cell width: 0.5 µm
- cell shape: rod-shaped
- motility: yes
pigmentation
- @ref: 29965
- production: no
Culture and growth conditions
culture medium
- @ref: 5669
- name: DESULFUROBACTERIUM MEDIUM (DSMZ Medium 829)
- growth: yes
- link: https://mediadive.dsmz.de/medium/829
- composition: Name: DESULFUROBACTERIUM MEDIUM (DSMZ Medium 829) Composition: Sea Salt 29.8507 g/l Sulfur 9.95025 g/l MES [2-(N-morpholino) ethane sulfonic acid] 1.9403 g/l NH4Cl 0.995025 g/l Na2CO3 0.497512 g/l KH2PO4 0.348259 g/l Na2S2O4 0.0497512 g/l NaHCO3 0.0497512 g/l Succinic acid 0.00597015 g/l Isobutyric acid 0.00497512 g/l 2-Methylbutyric acid 0.00497512 g/l Valeric acid 0.00497512 g/l 3-Methylbutyric acid 0.00497512 g/l HCl 0.00248756 g/l Caproic acid 0.00199005 g/l FeCl2 x 4 H2O 0.00149254 g/l Sodium resazurin 0.000497512 g/l NaOH 0.000497512 g/l Pyridoxine hydrochloride 0.000298507 g/l Nicotinic acid 0.000199005 g/l Thiamine-HCl x 2 H2O 0.000199005 g/l CoCl2 x 6 H2O 0.000189055 g/l MnCl2 x 4 H2O 9.95025e-05 g/l Calcium pantothenate 9.95025e-05 g/l Vitamin B12 9.95025e-05 g/l p-Aminobenzoic acid 7.9602e-05 g/l ZnCl2 6.96517e-05 g/l Na2MoO4 x 2 H2O 3.58209e-05 g/l NiCl2 x 6 H2O 2.38806e-05 g/l D-(+)-biotin 1.99005e-05 g/l H3BO3 5.97015e-06 g/l Na2WO4 x 2 H2O 3.9801e-06 g/l Na2SeO3 x 5 H2O 2.98507e-06 g/l CuCl2 x 2 H2O 1.99005e-06 g/l Distilled water
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 5669 | positive | growth | 55 | thermophilic |
| 29965 | positive | growth | 45-65 | thermophilic |
| 29965 | positive | optimum | 55 | thermophilic |
| 67770 | positive | growth | 55 | thermophilic |
culture pH
| @ref | ability | type | pH |
|---|---|---|---|
| 29965 | positive | growth | 6.5-7.4 |
| 29965 | positive | optimum | 6.9-7.1 |
Physiology and metabolism
oxygen tolerance
| @ref | oxygen tolerance |
|---|---|
| 5669 | anaerobe |
| 29965 | anaerobe |
spore formation
- @ref: 29965
- spore formation: no
halophily
| @ref | salt | growth | tested relation | concentration |
|---|---|---|---|---|
| 29965 | NaCl | positive | growth | 0.5-5.0 % |
| 29965 | NaCl | positive | optimum | 3 % |
metabolite production
- @ref: 29965
- Chebi-ID: 16136
- metabolite: hydrogen sulfide
- production: yes
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | latitude | longitude |
|---|---|---|---|---|
| 5669 | content of a vent cap | Mid-Atlantic Ridge, Rainbow hydrothermal vent field | 36.2667 | -33.9 |
| 67770 | Deep-sea hydrothermal vent site on the Mid-Atlantic Ridge |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Engineered | #Built environment | |
| #Engineered | #Laboratory | #Lab enrichment |
| #Environmental | #Aquatic | #Hydrothermal vent |
| #Environmental | #Aquatic | #Marine |
taxonmaps
- @ref: 69479
- File name: preview.99_141375.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_250;96_54322;97_70061;98_93937;99_141375&stattab=map
- Last taxonomy: Caminibacter profundus subclade
- 16S sequence: AJ535664
- Sequence Identity:
- Total samples: 84
- aquatic counts: 69
- animal counts: 15
Safety information
risk assessment
- @ref: 5669
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 5669
- description: Caminibacter sp. CR 16S rRNA gene, strain CR
- accession: AJ535664
- length: 1485
- database: ena
- NCBI tax ID: 217041
GC content
| @ref | GC-content | method |
|---|---|---|
| 5669 | 32.1 | |
| 67770 | 32.1 | thermal denaturation, midpoint method (Tm) |
External links
@ref: 5669
culture collection no.: DSM 15016, JCM 11957
straininfo link
- @ref: 79709
- straininfo: 130836
literature
- topic: Phylogeny
- Pubmed-ID: 14742457
- title: Caminibacter profundus sp. nov., a novel thermophile of Nautiliales ord. nov. within the class 'Epsilonproteobacteria', isolated from a deep-sea hydrothermal vent.
- authors: Miroshnichenko ML, L'Haridon S, Schumann P, Spring S, Bonch-Osmolovskaya EA, Jeanthon C, Stackebrandt E
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.02753-0
- year: 2004
- mesh: Bacterial Typing Techniques, Epsilonproteobacteria/*classification/*isolation & purification/ultrastructure, Molecular Sequence Data, Phylogeny, Seawater/*microbiology, Temperature
- topic2: Genetics
Reference
| @id | authors | catalogue | doi/url | title | ID_cross_reference | pubmed |
|---|---|---|---|---|---|---|
| 5669 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 15016) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-15016 | |||
| 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 | |||
| 29965 | Barberan A, Caceres Velazquez H, Jones S, Fierer N. | 10.1128/mSphere.00237-17 | Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information | 26334 | 28776041 | |
| 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. | https://microbeatlas.org/ | MicrobeAtlas 1.0 beta | |||
| 79709 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID130836.1 | StrainInfo: A central database for resolving microbial strain identifiers |