Strain identifier
BacDive ID: 1562
Type strain: 
Species: Calditerricola satsumensis
Strain Designation: YMO81
Strain history: T. Oshima YMO81.
NCBI tax ID(s): 1294024 (strain), 373054 (species)
version 8.1 (current version)
General
@ref: 16167
BacDive-ID: 1562
DSM-Number: 45223
keywords: genome sequence, 16S sequence, Bacteria, aerobe, thermophilic, Gram-negative, rod-shaped
description: Calditerricola satsumensis YMO81 is an aerobe, thermophilic, Gram-negative bacterium that was isolated from high-temperature compost.
NCBI tax id
| NCBI tax id | Matching level |
|---|---|
| 1294024 | strain |
| 373054 | species |
strain history
| @ref | history |
|---|---|
| 16167 | <- T. Oshima; YMO 81 |
| 67770 | T. Oshima YMO81. |
doi: 10.13145/bacdive1562.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacillota
- domain: Bacteria
- phylum: Bacillota
- class: Bacilli
- order: Caryophanales
- family: Bacillaceae
- genus: Calditerricola
- species: Calditerricola satsumensis
- full scientific name: Calditerricola satsumensis Moriya et al. 2011
synonyms
- @ref: 20215
- synonym: Caldaterra satsumae
@ref: 16167
domain: Bacteria
phylum: Firmicutes
class: Bacilli
order: Bacillales
family: Bacillaceae
genus: Calditerricola
species: Calditerricola satsumensis
full scientific name: Calditerricola satsumensis Moriya et al. 2011
strain designation: YMO81
type strain: yes
Morphology
cell morphology
| @ref | gram stain | cell shape | motility | confidence |
|---|---|---|---|---|
| 29672 | negative | rod-shaped | ||
| 69480 | yes | 94.031 | ||
| 69480 | positive | 100 |
Culture and growth conditions
culture medium
- @ref: 16167
- name: CYS MEDIUM WITH MODIFIED NACL CONCENTRATION (DSMZ Medium 1108a)
- growth: yes
- link: https://mediadive.dsmz.de/medium/1108a
- composition: Name: CYS MEDIUM WITH MODIFIED NACL CONCENTRATION (DSMZ Medium 1108a) Composition: NaCl 20.0 g/l Na2MoO4 x 2 H2O 12.0 g/l Gelrite 8.0 g/l CoCl2 x 6 H2O 8.0 g/l MnCl2 x 4 H2O 5.0 g/l N-Z-Case 3.0 g/l Yeast extract 2.0 g/l VOSO4 x H2O 1.0 g/l Starch 1.0 g/l ZnSO4 x 7 H2O 0.6 g/l NiCl2 x 6 H2O 0.2 g/l CuSO4 x 5 H2O 0.15 g/l MgCl2 0.125 g/l CaCl2 0.025 g/l FeSO4 x 7 H2O 0.01 g/l Distilled water
culture temp
| @ref | growth | type | temperature | range | confidence |
|---|---|---|---|---|---|
| 16167 | positive | growth | 78 | thermophilic | |
| 29672 | positive | growth | 56-83 | hyperthermophilic | |
| 29672 | positive | optimum | 78 | thermophilic | |
| 67770 | positive | growth | 78 | thermophilic | |
| 69480 | thermophilic | 100 |
culture pH
| @ref | ability | type | pH |
|---|---|---|---|
| 29672 | positive | growth | 6.6-6.9 |
| 29672 | positive | optimum | 7.5 |
Physiology and metabolism
oxygen tolerance
- @ref: 29672
- oxygen tolerance: aerobe
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 29672 | no | |
| 69481 | yes | 100 |
| 69480 | yes | 100 |
halophily
| @ref | salt | growth | tested relation | concentration |
|---|---|---|---|---|
| 29672 | NaCl | positive | growth | 0.3-4.0 % |
| 29672 | NaCl | positive | optimum | 2 % |
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent |
|---|---|---|---|---|---|
| 16167 | high-temperature compost | Kagoshima prefecture | Japan | JPN | Asia |
| 67770 | High-temperature compost in the city of Kagoshima | Japan | JPN | Asia |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Engineered | #Biodegradation | #Composting |
| #Condition | #Thermophilic (>45°C) |
taxonmaps
- @ref: 69479
- File name: preview.99_6289.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_562;96_2993;97_3680;98_4660;99_6289&stattab=map
- Last taxonomy: Calditerricola satsumensis
- 16S sequence: AB250968
- Sequence Identity:
- Total samples: 2031
- soil counts: 560
- aquatic counts: 309
- animal counts: 812
- plant counts: 350
Safety information
risk assessment
- @ref: 16167
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 16167
- description: Calditerricola satsumensis gene for 16S rRNA, partial sequence
- accession: AB250968
- length: 1541
- database: ena
- NCBI tax ID: 1294024
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Calditerricola satsumensis JCM 14719 | GCA_014646935 | contig | ncbi | 373054 |
| 66792 | Calditerricola satsumensis JCM 14719 | 1294024.6 | wgs | patric | 1294024 |
| 66792 | Calditerricola satsumensis strain JCM 14719 | 373054.3 | wgs | patric | 373054 |
| 66792 | Calditerricola satsumensis JCM 14719 | 2728369700 | draft | img | 1294024 |
| 67770 | Calditerricola satsumensis JCM 14719 | GCA_001311905 | contig | ncbi | 1294024 |
GC content
| @ref | GC-content | method |
|---|---|---|
| 16167 | 70 | high performance liquid chromatography (HPLC) |
| 29672 | 70 |
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | yes | 100 | no |
| motile | yes | 90.502 | no |
| gram-positive | yes | 64.134 | yes |
| anaerobic | no | 85.616 | no |
| aerobic | yes | 86.57 | yes |
| halophile | no | 88.341 | no |
| spore-forming | yes | 89.022 | yes |
| glucose-util | yes | 89.967 | no |
| flagellated | no | 71.816 | no |
| thermophile | yes | 100 | no |
| glucose-ferment | no | 89.969 | no |
External links
@ref: 16167
culture collection no.: DSM 45223, ATCC BAA 1462, JCM 14719, FERM P-18598
straininfo link
- @ref: 71207
- straininfo: 403776
literature
- topic: Phylogeny
- Pubmed-ID: 20400666
- title: Calditerricola satsumensis gen. nov., sp. nov. and Calditerricola yamamurae sp. nov., extreme thermophiles isolated from a high-temperature compost.
- authors: Moriya T, Hikota T, Yumoto I, Ito T, Terui Y, Yamagishi A, Oshima T
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.018416-0
- year: 2010
- mesh: Bacillaceae/*classification/genetics/*isolation & purification/physiology, Base Composition, Cluster Analysis, Culture Media/chemistry, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Hot Temperature, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, Polyamines/analysis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil, *Soil Microbiology
- topic2: Stress
Reference
| @id | authors | catalogue | doi/url | title | ID_cross_reference | pubmed |
|---|---|---|---|---|---|---|
| 16167 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 45223) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-45223 | |||
| 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 | |||
| 29672 | 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 | 26058 | 28776041 | |
| 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) | |||
| 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 | |||
| 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 | |||
| 71207 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID403776.1 | StrainInfo: A central database for resolving microbial strain identifiers |