Strain identifier
BacDive ID: 16807
Type strain: 
Species: Carboxydothermus ferrireducens
Strain Designation: JW/AS-Y7
Strain history: <- J. Wiegel, University of Georgia, Department of Microbiology, Athens, USA; JW/AS-Y7 <- A. Slobodkin {1996}
NCBI tax ID(s): 1119529 (strain), 54265 (species)
version 8.1 (current version)
General
@ref: 4262
BacDive-ID: 16807
DSM-Number: 11255
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, spore-forming, thermophilic, Gram-positive
description: Carboxydothermus ferrireducens JW/AS-Y7 is an anaerobe, spore-forming, thermophilic bacterium that was isolated from mixed sample of sediment, water and biomass of hot spring.
NCBI tax id
| NCBI tax id | Matching level |
|---|---|
| 1119529 | strain |
| 54265 | species |
strain history
- @ref: 4262
- history: <- J. Wiegel, University of Georgia, Department of Microbiology, Athens, USA; JW/AS-Y7 <- A. Slobodkin {1996}
doi: 10.13145/bacdive16807.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacillota
- domain: Bacteria
- phylum: Bacillota
- class: Clostridia
- order: Thermoanaerobacterales
- family: Thermoanaerobacteraceae
- genus: Carboxydothermus
- species: Carboxydothermus ferrireducens
- full scientific name: Carboxydothermus ferrireducens (Slobodkin et al. 1997) Slobodkin et al. 2006
synonyms
- @ref: 20215
- synonym: Thermoterrabacterium ferrireducens
@ref: 4262
domain: Bacteria
phylum: Firmicutes
class: Clostridia
order: Clostridiales
family: Thermoanaerobacteraceae
genus: Carboxydothermus
species: Carboxydothermus ferrireducens
full scientific name: Carboxydothermus ferrireducens (Slobodkin et al. 1997) Slobodkin et al. 2006
strain designation: JW/AS-Y7
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: positive
- confidence: 100
Culture and growth conditions
culture medium
- @ref: 4262
- name: THERMOTERRABACTERIUM MEDIUM (DSMZ Medium 778)
- growth: yes
- link: https://mediadive.dsmz.de/medium/778
- composition: Name: THERMOTERRABACTERIUM MEDIUM (DSMZ Medium 778) Composition: Na2-9,10-anthraquinone-2,6-disulfonate 8.2008 g/l NaHCO3 2.48509 g/l Yeast extract 0.994036 g/l KH2PO4 0.328032 g/l CaCl2 x 2 H2O 0.328032 g/l MgCl2 x 6 H2O 0.328032 g/l KCl 0.328032 g/l NH4Cl 0.328032 g/l HCl 0.00248509 g/l FeCl2 x 4 H2O 0.00149105 g/l NaOH 0.000497018 g/l NiCl2 x 6 H2O 0.000198807 g/l CoCl2 x 6 H2O 0.000188867 g/l MnCl2 x 4 H2O 9.94036e-05 g/l Pyridoxine hydrochloride 9.94036e-05 g/l ZnCl2 6.95825e-05 g/l (DL)-alpha-Lipoic acid 4.97018e-05 g/l p-Aminobenzoic acid 4.97018e-05 g/l Calcium D-(+)-pantothenate 4.97018e-05 g/l Nicotinic acid 4.97018e-05 g/l Riboflavin 4.97018e-05 g/l Thiamine HCl 4.97018e-05 g/l Na2MoO4 x 2 H2O 3.57853e-05 g/l Folic acid 1.98807e-05 g/l Biotin 1.98807e-05 g/l H3BO3 5.96421e-06 g/l Na2WO4 x 2 H2O 3.97614e-06 g/l Na2SeO3 x 5 H2O 2.98211e-06 g/l CuCl2 x 2 H2O 1.98807e-06 g/l Vitamin B12 9.94036e-07 g/l Glycerol Distilled water
culture temp
| @ref | growth | type | temperature | range | confidence |
|---|---|---|---|---|---|
| 4262 | positive | growth | 65 | thermophilic | |
| 69480 | thermophilic | 100 |
Physiology and metabolism
oxygen tolerance
| @ref | oxygen tolerance | confidence |
|---|---|---|
| 4262 | anaerobe | |
| 69480 | anaerobe | 99.054 |
spore formation
- @ref: 69480
- spore formation: yes
- confidence: 99.999
Isolation, sampling and environmental information
isolation
- @ref: 4262
- sample type: mixed sample of sediment, water and biomass of hot spring
- geographic location: Yellowstone National Park, Calcite Spring area
- country: USA
- origin.country: USA
- continent: North America
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Environmental | #Aquatic | #Thermal spring |
| #Condition | #Thermophilic (>45°C) |
taxonmaps
- @ref: 69479
- File name: preview.99_4353.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_16249;96_2183;97_2641;98_3274;99_4353&stattab=map
- Last taxonomy: Carboxydothermus
- 16S sequence: LT547827
- Sequence Identity:
- Total samples: 37
- soil counts: 3
- aquatic counts: 17
- animal counts: 16
- plant counts: 1
Safety information
risk assessment
- @ref: 4262
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
| @ref | description | accession | length | database | NCBI tax ID |
|---|---|---|---|---|---|
| 20218 | Carboxydothermus ferrireducens strain JW/AS-Y7 16S small subunit ribosomal RNA gene, partial sequence | U76363 | 1503 | ena | 54265 |
| 4262 | Carboxydothermus ferrireducens partial 16S rRNA gene, strain DSM 11255T, clone 4 | LT547827 | 1533 | ena | 54265 |
| 4262 | Carboxydothermus ferrireducens partial 16S rRNA gene, strain DSM 11255T, clone 3 | LT547826 | 1534 | ena | 54265 |
| 4262 | Carboxydothermus ferrireducens partial 16S rRNA gene, strain DSM 11255T, clone 2 | LT547825 | 1562 | ena | 54265 |
| 4262 | Carboxydothermus ferrireducens partial 16S rRNA gene, strain DSM 11255T, clone 1 | LT547824 | 1562 | ena | 54265 |
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Carboxydothermus ferrireducens DSM 11255 | GCA_000427565 | scaffold | ncbi | 1119529 |
| 66792 | Carboxydothermus ferrireducens DSM 11255 | GCA_013409775 | contig | ncbi | 1119529 |
| 66792 | Carboxydothermus ferrireducens DSM 11255 | 1119529.9 | wgs | patric | 1119529 |
| 66792 | Carboxydothermus ferrireducens DSM 11255 | 1119529.5 | wgs | patric | 1119529 |
| 66792 | Carboxydothermus ferrireducens DSM 11255 Genome sequencing | 2844895905 | draft | img | 1119529 |
| 66792 | Carboxydothermus ferrireducens DSM 11255 | 2510065088 | draft | img | 1119529 |
GC content
- @ref: 4262
- GC-content: 41.9
- method: sequence analysis
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 71 | no |
| motile | yes | 84.576 | no |
| flagellated | no | 95.255 | no |
| gram-positive | no | 75.821 | no |
| anaerobic | yes | 99.48 | yes |
| aerobic | no | 97.655 | yes |
| halophile | no | 95.562 | no |
| spore-forming | yes | 80.956 | no |
| glucose-util | yes | 86.517 | no |
| thermophile | yes | 100 | no |
| glucose-ferment | no | 81.333 | no |
External links
@ref: 4262
culture collection no.: DSM 11255, VKM B-2392
straininfo link
- @ref: 85820
- straininfo: 49059
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 9103646 | Thermoterrabacterium ferrireducens gen. nov., sp. nov., a thermophilic anaerobic dissimilatory Fe(III)-reducing bacterium from a continental hot spring. | Slobodkin A, Reysenbach AL, Strutz N, Dreier M, Wiegel J | Int J Syst Bacteriol | 10.1099/00207713-47-2-541 | 1997 | Bacillus/classification, Bacteria, Anaerobic/*classification/genetics/*metabolism, Base Sequence, Clostridium/classification, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/genetics, Drug Resistance, Microbial, Electron Transport, Fresh Water/microbiology, Gram-Positive Rods/*classification/genetics/*metabolism, Hot Temperature, Hydrogen-Ion Concentration, Iron/*metabolism, Microscopy, Electron, Molecular Sequence Data, Oxidation-Reduction, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics | Metabolism |
| Phylogeny | 17012560 | Reclassification of Thermoterrabacterium ferrireducens as Carboxydothermus ferrireducens comb. nov., and emended description of the genus Carboxydothermus. | Slobodkin AI, Sokolova TG, Lysenko AM, Wiegel J | Int J Syst Evol Microbiol | 10.1099/ijs.0.64503-0 | 2006 | Carbon Monoxide/metabolism, DNA, Bacterial/analysis, Ferric Compounds/metabolism, Genes, rRNA, Nucleic Acid Hybridization, Oxidation-Reduction, Peptococcaceae/*classification/genetics/metabolism/physiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA | Metabolism |
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 4262 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 11255) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-11255 | |||
| 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 | |||
| 20218 | Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P. | 10.1016/j.syapm.2013.11.002 | StrainInfo introduces electronic passports for microorganisms. | Syst Appl Microbiol. 37: 42-50 2014 | 24321274 | |
| 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) | |||
| 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) | |||
| 85820 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID49059.1 | StrainInfo: A central database for resolving microbial strain identifiers |