Strain identifier
BacDive ID: 24103
Type strain: 
Species: Tepidiphilus thermophilus
Strain Designation: JHK 30
Strain history: S. K. Das JHK30.
NCBI tax ID(s): 876478 (species)
version 8.1 (current version)
General
@ref: 20851
BacDive-ID: 24103
DSM-Number: 27220
keywords: genome sequence, 16S sequence, Bacteria, thermophilic, motile
description: Tepidiphilus thermophilus JHK 30 is a thermophilic, motile bacterium that was isolated from terrestrial hot spring.
NCBI tax id
- NCBI tax id: 876478
- Matching level: species
strain history
| @ref | history |
|---|---|
| 20851 | <- S. K. Das, Inst. Life Sci., Bhubaneswar, India; JHK 30 |
| 67770 | S. K. Das JHK30. |
doi: 10.13145/bacdive24103.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Hydrogenophilia
- order: Hydrogenophilales
- family: Hydrogenophilaceae
- genus: Tepidiphilus
- species: Tepidiphilus thermophilus
- full scientific name: Tepidiphilus thermophilus Poddar et al. 2014
@ref: 20851
domain: Bacteria
phylum: Proteobacteria
class: Hydrogenophilalia
order: Hydrogenophilales
family: Hydrogenophilaceae
genus: Tepidiphilus
species: Tepidiphilus thermophilus
full scientific name: Tepidiphilus thermophilus Poddar et al. 2014
strain designation: JHK 30
type strain: yes
Morphology
cell morphology
| @ref | motility | confidence | gram stain |
|---|---|---|---|
| 69480 | yes | 98.327 | |
| 69480 | 100 | negative |
Culture and growth conditions
culture temp
- @ref: 67770
- growth: positive
- type: growth
- temperature: 55
- range: thermophilic
Physiology and metabolism
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | no | 97 |
| 69480 | no | 99.994 |
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent |
|---|---|---|---|---|---|
| 20851 | terrestrial hot spring | Jharkhand, Surajkund | India | IND | Asia |
| 67770 | Sediment from terrestrial hot spring at Surajkund | Jharkhand | India | IND | Asia |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Environmental | #Aquatic | #Thermal spring |
| #Environmental | #Terrestrial | |
| #Condition | #Thermophilic (>45°C) |
taxonmaps
- @ref: 69479
- File name: preview.99_27867.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_16099;96_612;97_715;98_834;99_27867&stattab=map
- Last taxonomy: Tepidiphilus
- 16S sequence: HM543264
- Sequence Identity:
- Total samples: 1628
- soil counts: 118
- aquatic counts: 442
- animal counts: 1041
- plant counts: 27
Safety information
risk assessment
- @ref: 20851
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 20851
- description: Tepidiphilus thermophilus strain JHK30 16S ribosomal RNA gene, partial sequence
- accession: HM543264
- length: 1404
- database: ena
- NCBI tax ID: 876478
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Tepidiphilus thermophilus strain JCM 19170 | 876478.8 | wgs | patric | 876478 |
| 66792 | Tepidiphilus thermophilus strain JCM 19170 | 876478.7 | wgs | patric | 876478 |
| 66792 | Tepidiphilus thermophilus JCM 19170 | 2615840611 | draft | img | 876478 |
| 67770 | Tepidiphilus thermophilus JCM 19170 | GCA_001517365 | scaffold | ncbi | 876478 |
| 67770 | Tepidiphilus thermophilus JCM 19170 | GCA_001418245 | scaffold | ncbi | 876478 |
GC content
- @ref: 20851
- GC-content: 66.1
- method: high performance liquid chromatography (HPLC)
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 97 | no |
| motile | yes | 92.405 | no |
| flagellated | yes | 74.278 | no |
| gram-positive | no | 98.942 | no |
| anaerobic | no | 84.164 | no |
| halophile | no | 91.487 | no |
| spore-forming | no | 95.788 | no |
| thermophile | yes | 99.654 | yes |
| glucose-util | no | 83.667 | no |
| aerobic | no | 66.392 | no |
| glucose-ferment | no | 87.963 | no |
External links
@ref: 20851
culture collection no.: DSM 27220, JCM 19170, LMG 27587
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 24048864 | Taxonomic study of the genus Tepidiphilus: transfer of Petrobacter succinatimandens to the genus Tepidiphilus as Tepidiphilus succinatimandens comb. nov., emended description of the genus Tepidiphilus and description of Tepidiphilus thermophilus sp. nov., isolated from a terrestrial hot spring. | Poddar A, Lepcha RT, Das SK | Int J Syst Evol Microbiol | 10.1099/ijs.0.056424-0 | 2013 | Bacterial Typing Techniques, Base Composition, Betaproteobacteria/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Geologic Sediments/microbiology, Hot Springs/*microbiology, India, Molecular Sequence Data, Nucleic Acid Hybridization, Peptidoglycan/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA | Genetics |
| Genetics | 27516519 | Draft Genome Sequence of Tepidiphilus thermophilus Strain JHK30T (JCM 19170T) Isolated from a Terrestrial Hot Spring in India. | Poddar A, Lepcha RT, Whitman WB, Das SK | Genome Announc | 10.1128/genomeA.00832-16 | 2016 | Phylogeny | |
| Phylogeny | 32579101 | Tepidiphilus olei sp. nov., isolated from the production water of a water-flooded oil reservoir in PR China. | Wang XT, Shan JJ, Li XZ, Lin W, Xiu JL, Li DA, Zhang YZ, Wang L | Int J Syst Evol Microbiol | 10.1099/ijsem.0.004297 | 2020 | Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Hydrogenophilaceae/*classification/isolation & purification, Nucleic Acid Hybridization, Oil and Gas Fields/*microbiology, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Ubiquinone/chemistry, Water/analysis | Transcriptome |
Reference
| @id | authors | title | doi/url | catalogue | journal | pubmed |
|---|---|---|---|---|---|---|
| 20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | 10.1099/ijsem.0.004332 | |||
| 20851 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-27220 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 27220) | |||
| 66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | https://diaspora-project.de/progress.html#genomes | |||
| 66794 | Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg | BRENDA, the ELIXIR core data resource in 2021: new developments and updates | 10.1093/nar/gkaa1025 | Nucleic Acids Res. 49: D498-D508 2020 | 33211880 | |
| 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. | MicrobeAtlas 1.0 beta | https://microbeatlas.org/ | |||
| 69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | https://diaspora-project.de/progress.html#genomes | |||
| 69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | Predictions based on the model GenomeNet Sporulation v. 1 | 10.21203/rs.3.rs-2527258/v1 |