Strain identifier
BacDive ID: 16708
Type strain:
Species: Meiothermus rufus
Strain Designation: CAL-4
Strain history: <- M. da Costa, Univ. Coimbra, Portugal <- L. Albuquerque; CAL-4
NCBI tax ID(s): 604331 (strain), 604332 (species)
General
@ref: 16217
BacDive-ID: 16708
DSM-Number: 22234
keywords: genome sequence, 16S sequence, Bacteria, thermophilic, Gram-negative
description: Meiothermus rufus CAL-4 is a thermophilic, Gram-negative bacterium that was isolated from water from a hot spring.
NCBI tax id
NCBI tax id | Matching level |
---|---|
604331 | strain |
604332 | species |
strain history
- @ref: 16217
- history: <- M. da Costa, Univ. Coimbra, Portugal <- L. Albuquerque; CAL-4
doi: 10.13145/bacdive16708.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/deinococcota
- domain: Bacteria
- phylum: Deinococcota
- class: Deinococci
- order: Thermales
- family: Thermaceae
- genus: Meiothermus
- species: Meiothermus rufus
- full scientific name: Meiothermus rufus Albuquerque et al. 2010
@ref: 16217
domain: Bacteria
phylum: Deinococcus-Thermus
class: Deinococci
order: Thermales
family: Thermaceae
genus: Meiothermus
species: Meiothermus rufus
full scientific name: Meiothermus rufus Albuquerque et al. 2010
strain designation: CAL-4
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: negative
- confidence: 99.777
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
16217 | MODIFIED THERMUS 162 MEDIUM (DSMZ Medium 630) | yes | https://mediadive.dsmz.de/medium/630 | Name: MODIFIED THERMUS 162 MEDIUM (DSMZ Medium 630) Composition: Agar 28.0 g/l Na2HPO4 x 12 H2O 4.3 g/l Yeast extract 2.5 g/l Tryptone 2.5 g/l KH2PO4 0.544 g/l MgCl2 x 6 H2O 0.2 g/l CaSO4 x 2 H2O 0.04 g/l Nitrilotriacetic acid 0.0064 g/l Fe(III) citrate 0.00122472 g/l FeCl2 x 4 H2O 0.0005 g/l MnCl2 x 4 H2O 0.00025 g/l CoCl2 x 4 H2O 0.00015 g/l CuCl2 x 2 H2O 2.5e-05 g/l Na2MoO4 x 2 H2O 2.5e-05 g/l H3BO3 1e-05 g/l NiCl2 x 6 H2O 1e-05 g/l Distilled water |
16217 | THERMUS 162 MEDIUM (DSMZ Medium 878) | yes | https://mediadive.dsmz.de/medium/878 | Name: THERMUS 162 MEDIUM (DSMZ Medium 878) Composition: Agar 28.0 g/l Na2HPO4 x 12 H2O 4.3 g/l Yeast extract 1.0 g/l Tryptone 1.0 g/l KH2PO4 0.544 g/l MgCl2 x 6 H2O 0.2 g/l Nitrilotriacetic acid 0.1 g/l CaSO4 x 2 H2O 0.04 g/l Fe(III) citrate 0.00122472 g/l MnSO4 x H2O 0.00114 g/l ZnSO4 x 7 H2O 0.00025 g/l H3BO3 0.00025 g/l CoCl2 x 6 H2O 2.25e-05 g/l CuSO4 x 5 H2O 1.25e-05 g/l Na2MoO4 x 2 H2O 1.25e-05 g/l H2SO4 Distilled water |
culture temp
@ref | growth | type | temperature | range | confidence |
---|---|---|---|---|---|
16217 | positive | growth | 55 | thermophilic | |
69480 | thermophilic | 99.605 |
Physiology and metabolism
spore formation
@ref | spore formation | confidence |
---|---|---|
69481 | no | 100 |
69480 | no | 99.986 |
Isolation, sampling and environmental information
isolation
- @ref: 16217
- sample type: water from a hot spring
- geographic location: Auvergne, Chaudes-Aigues hydrothermal area, Lavoire fountain
- country: France
- origin.country: FRA
- continent: Europe
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Environmental | #Aquatic | #Thermal spring |
#Condition | #Thermophilic (>45°C) |
taxonmaps
- @ref: 69479
- File name: preview.99_8314.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_137;96_3814;97_4704;98_6050;99_8314&stattab=map
- Last taxonomy: Meiothermus rufus subclade
- 16S sequence: FN178496
- Sequence Identity:
- Total samples: 105
- soil counts: 7
- aquatic counts: 92
- animal counts: 5
- plant counts: 1
Safety information
risk assessment
- @ref: 16217
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 16217
- description: Meiothermus rufus DSM 22234 partial 16S rRNA gene, strain CAL-4
- accession: FN178496
- length: 1487
- database: ena
- NCBI tax ID: 604331
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Meiothermus rufus DSM 22234 | GCA_000423425 | scaffold | ncbi | 604331 |
66792 | Meiothermus rufus DSM 22234 | 604331.3 | wgs | patric | 604331 |
66792 | Meiothermus rufus DSM 22234 | 2522572180 | draft | img | 604331 |
GC content
- @ref: 16217
- GC-content: 64.1±0.4
- method: high performance liquid chromatography (HPLC)
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 100 | no |
motile | no | 86.994 | no |
flagellated | no | 96.191 | no |
gram-positive | no | 93.24 | no |
anaerobic | no | 96.416 | no |
aerobic | yes | 88.11 | no |
halophile | no | 86.456 | no |
spore-forming | no | 95.801 | no |
thermophile | yes | 100 | no |
glucose-util | yes | 84.212 | no |
glucose-ferment | no | 89.038 | no |
External links
@ref: 16217
culture collection no.: DSM 22234, LMG 24878
straininfo link
- @ref: 85727
- straininfo: 360702
literature
- topic: Phylogeny
- Pubmed-ID: 19577874
- title: Meiothermus rufus sp. nov., a new slightly thermophilic red-pigmented species and emended description of the genus Meiothermus.
- authors: Albuquerque L, Ferreira C, Tomaz D, Tiago I, Verissimo A, da Costa MS, Nobre MF
- journal: Syst Appl Microbiol
- DOI: 10.1016/j.syapm.2009.05.002
- year: 2009
- mesh: Bacteria/chemistry/*classification/growth & development/*isolation & purification, Bacterial Physiological Phenomena, Bacterial Typing Techniques, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, France, Glycolipids/analysis, Hot Springs/*microbiology, Hydrogen-Ion Concentration, Molecular Sequence Data, Phylogeny, Pigments, Biological/biosynthesis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Temperature
- topic2: Genetics
Reference
@id | authors | catalogue | doi/url | title |
---|---|---|---|---|
16217 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 22234) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-22234 | |
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) | |
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 | |
85727 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID360702.1 | StrainInfo: A central database for resolving microbial strain identifiers |