Strain identifier
BacDive ID: 13824
Type strain:
Species: Rhodobacter megalophilus
Strain Designation: JA194
Strain history: Arunasri, K. JNT University
NCBI tax ID(s): 418630 (subspecies)
General
@ref: 7795
BacDive-ID: 13824
DSM-Number: 18937
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, Gram-negative, ovoid-shaped
description: Rhodobacter megalophilus JA194 is an anaerobe, Gram-negative, ovoid-shaped bacterium that was isolated from soil sample collected from Suraj tal near Sarchu .
NCBI tax id
- NCBI tax id: 418630
- Matching level: subspecies
strain history
@ref | history |
---|---|
7795 | <- C. Sasikala, Centre Environment, Inst. Sci. and Technol., J. N. T. Univ., Hyderabad, India; JA194 <- K. Arunasri |
67770 | Ch. Sasikala JA194. |
67772 | Arunasri, K. JNT University |
doi: 10.13145/bacdive13824.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Alphaproteobacteria
- order: Rhodobacterales
- family: Paracoccaceae
- genus: Rhodobacter
- species: Rhodobacter megalophilus
- full scientific name: Rhodobacter megalophilus Arunasri et al. 2008
synonyms
- @ref: 20215
- synonym: Luteovulum sphaeroides subsp. megalophilum
@ref: 7795
domain: Bacteria
phylum: Proteobacteria
class: Alphaproteobacteria
order: Rhodobacterales
family: Rhodobacteraceae
genus: Rhodobacter
species: Rhodobacter megalophilus
full scientific name: Rhodobacter megalophilus Arunasri et al. 2008
strain designation: JA194
type strain: yes
Morphology
cell morphology
@ref | gram stain | cell length | cell width | cell shape | motility | confidence |
---|---|---|---|---|---|---|
32531 | negative | 1.5-2 µm | 1.2-1.5 µm | ovoid-shaped | no | |
69480 | negative | 99.998 |
pigmentation
- @ref: 32531
- production: yes
Culture and growth conditions
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
32531 | positive | growth | 05-40 | |
32531 | positive | optimum | 30-35 | mesophilic |
67770 | positive | growth | 30 | mesophilic |
67772 | positive | minimum | 5 | psychrophilic |
67772 | positive | optimum | 30 | mesophilic |
67772 | positive | maximum | 40 | thermophilic |
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance |
---|---|
7795 | anaerobe |
32531 | aerobe |
spore formation
@ref | spore formation | confidence |
---|---|---|
32531 | no | |
69480 | no | 99.964 |
observation
- @ref: 32531
- observation: aggregates in chains
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
32531 | 30089 | acetate | + | carbon source |
32531 | 35391 | aspartate | + | carbon source |
32531 | 16947 | citrate | + | carbon source |
32531 | 16236 | ethanol | + | carbon source |
32531 | 15740 | formate | + | carbon source |
32531 | 28757 | fructose | + | carbon source |
32531 | 29987 | glutamate | + | carbon source |
32531 | 17754 | glycerol | + | carbon source |
32531 | 25115 | malate | + | carbon source |
32531 | 17272 | propionate | + | carbon source |
32531 | 30911 | sorbitol | + | carbon source |
32531 | 31011 | valerate | + | carbon source |
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent | sampling date | latitude | longitude |
---|---|---|---|---|---|---|---|---|
7795 | soil sample collected from Suraj tal near Sarchu (34° 17' N 77° 58' E, 11 975 feet above sea level) | Indian Himalayas, between Jammu and Kashmir | India | IND | Asia | |||
67770 | Soil of the Indian Himalaya | |||||||
67772 | Soil of the Indian Himalaya | Ladakh | India | IND | Asia | 2006 | 34.2833 | 77.9167 |
isolation source categories
- Cat1: #Environmental
- Cat2: #Terrestrial
- Cat3: #Soil
taxonmaps
- @ref: 69479
- File name: preview.99_1809.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_19;96_1024;97_1194;98_1430;99_1809&stattab=map
- Last taxonomy: Luteovulum
- 16S sequence: AM421024
- Sequence Identity:
- Total samples: 17229
- soil counts: 1540
- aquatic counts: 10335
- animal counts: 4862
- plant counts: 492
Safety information
risk assessment
@ref | biosafety level | biosafety level comment |
---|---|---|
7795 | 1 | Risk group (German classification) |
67772 | 1 |
Sequence information
16S sequences
- @ref: 7795
- description: Rhodobacter aflagellatum partial 16S rRNA gene, type strain JA194T
- accession: AM421024
- length: 1406
- database: ena
- NCBI tax ID: 418630
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Rhodobacter megalophilus strain DSM 18937 | 418630.3 | wgs | patric | 418630 |
66792 | Luteovulum sphaeroides megalophilum DSM 18937 | 2681813553 | draft | img | 418630 |
67772 | [Luteovulum] sphaeroides subsp. megalophilum DSM 18937 | GCA_900188265 | scaffold | ncbi | 418630 |
GC content
@ref | GC-content | method |
---|---|---|
7795 | 66.67 | high performance liquid chromatography (HPLC) |
32531 | 66.67 |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 68 | no |
gram-positive | no | 98.674 | yes |
anaerobic | no | 51.739 | no |
halophile | no | 90.224 | no |
spore-forming | no | 95.505 | yes |
glucose-util | yes | 87.992 | no |
aerobic | no | 56.848 | no |
flagellated | no | 70.42 | no |
motile | yes | 79.05 | yes |
thermophile | no | 99.363 | no |
glucose-ferment | no | 87.963 | no |
External links
@ref: 7795
culture collection no.: DSM 18937, JCM 14598, KCTC 5602, UCCCB23
literature
- topic: Phylogeny
- Pubmed-ID: 18676458
- title: Rhodobacter megalophilus sp. nov., a phototroph from the Indian Himalayas possessing a wide temperature range for growth.
- authors: Arunasri K, Venkata Ramana V, Sproer C, Sasikala Ch, Ramana ChV
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.65642-0
- year: 2008
- mesh: *Altitude, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Fourier Analysis, Genes, rRNA, Genotype, India, Molecular Sequence Data, Nucleic Acid Hybridization, Phenotype, *Phototrophic Processes, Phylogeny, RNA, Ribosomal, 16S/genetics, Rhodobacter/*classification/genetics/*growth & development/isolation & purification, Sequence Analysis, DNA, *Soil Microbiology, Species Specificity, Temperature
- topic2: Genetics
Reference
@id | authors | catalogue | doi/url | title | ID_cross_reference | pubmed |
---|---|---|---|---|---|---|
7795 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 18937) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-18937 | |||
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 | |||
32531 | 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 | 28749 | 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/ | ||||
67772 | Curators of the UCCCB | https://ucccb.uc.pt/ | ||||
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) |