Strain identifier
BacDive ID: 164138
Type strain: 
Species: Halorubrum amylolyticum
Strain history: S. Chen; Honghe Univ., China; ZC67.
NCBI tax ID(s): 2508724 (species)
version 8.1 (current version)
General
@ref: 67770
BacDive-ID: 164138
keywords: genome sequence, 16S sequence, Archaea, mesophilic, Gram-negative
description: Halorubrum amylolyticum JCM 31850 is a mesophilic, Gram-negative archaeon that was isolated from Yuanyongjing Salt Mine.
NCBI tax id
- NCBI tax id: 2508724
- Matching level: species
strain history
- @ref: 67770
- history: S. Chen; Honghe Univ., China; ZC67.
doi: 10.13145/bacdive164138.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/archaea
- keyword: phylum/methanobacteriota
- domain: Archaea
- phylum: Methanobacteriota
- class: Halobacteria
- order: Haloferacales
- family: Halorubraceae
- genus: Halorubrum
- species: Halorubrum amylolyticum
- full scientific name: Halorubrum amylolyticum Sun et al. 2020
@ref: 67770
domain: Archaea
phylum: Euryarchaeota
class: Halobacteria
order: Haloferacales
family: Halorubraceae
genus: Halorubrum
species: Halorubrum amylolyticum
full scientific name: Halorubrum amylolyticum Sun et al.
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: negative
- confidence: 99.938
Culture and growth conditions
culture temp
- @ref: 67770
- growth: positive
- type: growth
- temperature: 37
- range: mesophilic
Physiology and metabolism
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69480 | no | 99.979 |
| 69481 | no | 99 |
Isolation, sampling and environmental information
isolation
- @ref: 67770
- sample type: Yuanyongjing Salt Mine
- geographic location: Yunnan
- country: China
- origin.country: CHN
- continent: Asia
Sequence information
16S sequences
- @ref: 67770
- description: Halorubrum amylolyticum 16S ribosomal RNA gene, partial sequence
- accession: KX376720
- length: 1470
- database: ena
- NCBI tax ID: 2508724
Genome sequences
- @ref: 67770
- description: Halorubrum amylolyticum ZC67
- accession: GCA_004114995
- assembly level: scaffold
- database: ncbi
- NCBI tax ID: 2508724
GC content
- @ref: 67770
- GC-content: 66.3
- method: genome sequence analysis
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 99 | no |
| motile | no | 74.798 | no |
| flagellated | no | 95.766 | no |
| gram-positive | no | 97.259 | no |
| anaerobic | no | 94.105 | no |
| aerobic | yes | 86.705 | no |
| halophile | yes | 82.55 | no |
| spore-forming | no | 94.838 | no |
| thermophile | no | 90.757 | yes |
| glucose-util | yes | 90.814 | no |
| glucose-ferment | no | 76.478 | no |
External links
@ref: 67770
culture collection no.: JCM 31850, CGMCC 1.15718
literature
- topic: Phylogeny
- Pubmed-ID: 31401696
- title: Halorubrum amylolyticum sp. nov., a novel halophilic archaeon isolated from a salt mine.
- authors: Sun S, Chen F, Xu Y, Liu J, Chen S
- journal: Antonie Van Leeuwenhoek
- DOI: 10.1007/s10482-019-01313-4
- year: 2019
- mesh: Base Composition, China, Cluster Analysis, Cytosol/chemistry, DNA, Archaeal/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Halorubrum/*classification/genetics/*isolation & purification, Locomotion, Nucleic Acid Hybridization, Phospholipids/analysis, Phylogeny, Pigments, Biological/analysis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology
- topic2: Transcriptome
Reference
| @id | authors | title | doi/url |
|---|---|---|---|
| 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 |
| 67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | |
| 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 |