Strain identifier
BacDive ID: 6170
Type strain: 
Species: Devosia chinhatensis
Strain history: <- CCM <- R. Lal, Department of Zoology, Univ. of Delhi; IPL18
NCBI tax ID(s): 429727 (species)
version 8.1 (current version)
General
@ref: 17808
BacDive-ID: 6170
DSM-Number: 24953
keywords: genome sequence, 16S sequence, Bacteria, aerobe, Gram-negative, motile, rod-shaped
description: Devosia chinhatensis DSM 24953 is an aerobe, Gram-negative, motile bacterium that was isolated from hexachlorocyclohexane dump site.
NCBI tax id
- NCBI tax id: 429727
- Matching level: species
strain history
- @ref: 17808
- history: <- CCM <- R. Lal, Department of Zoology, Univ. of Delhi; IPL18
doi: 10.13145/bacdive6170.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Alphaproteobacteria
- order: Hyphomicrobiales
- family: Devosiaceae
- genus: Devosia
- species: Devosia chinhatensis
- full scientific name: Devosia chinhatensis Kumar et al. 2008
@ref: 17808
domain: Bacteria
phylum: Proteobacteria
class: Alphaproteobacteria
order: Rhizobiales
family: Hyphomicrobiaceae
genus: Devosia
species: Devosia chinhatensis
full scientific name: Devosia chinhatensis Kumar et al. 2008
type strain: yes
Morphology
cell morphology
| @ref | gram stain | cell shape | motility | confidence |
|---|---|---|---|---|
| 32491 | negative | rod-shaped | yes | |
| 69480 | yes | 91.499 | ||
| 69480 | negative | 99.979 |
Culture and growth conditions
culture temp
- @ref: 32491
- growth: positive
- type: growth
- temperature: 05-40
culture pH
- @ref: 32491
- ability: positive
- type: growth
- pH: 05-09
- PH range: alkaliphile
Physiology and metabolism
oxygen tolerance
- @ref: 32491
- oxygen tolerance: aerobe
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 32491 | no | |
| 69481 | no | 100 |
| 69480 | no | 99.991 |
halophily
- @ref: 32491
- salt: NaCl
- growth: positive
- tested relation: growth
- concentration: 0-3 %
metabolite utilization
| @ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
|---|---|---|---|---|
| 32491 | 22599 | arabinose | + | carbon source |
| 32491 | 17234 | glucose | + | carbon source |
| 32491 | 17306 | maltose | + | carbon source |
| 32491 | 29864 | mannitol | + | carbon source |
| 32491 | 37684 | mannose | + | carbon source |
| 32491 | 4853 | esculin | + | hydrolysis |
enzymes
| @ref | value | activity | ec |
|---|---|---|---|
| 32491 | catalase | + | 1.11.1.6 |
| 32491 | cytochrome oxidase | + | 1.9.3.1 |
| 32491 | urease | + | 3.5.1.5 |
Isolation, sampling and environmental information
isolation
- @ref: 17808
- sample type: hexachlorocyclohexane dump site
- geographic location: Lucknow
- country: India
- origin.country: IND
- continent: Asia
isolation source categories
- Cat1: #Engineered
- Cat2: #Built environment
taxonmaps
- @ref: 69479
- File name: preview.99_7587.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_5;96_1058;97_4243;98_5557;99_7587&stattab=map
- Last taxonomy: Devosia chinhatensis subclade
- 16S sequence: EF433462
- Sequence Identity:
- Total samples: 384
- soil counts: 137
- aquatic counts: 121
- animal counts: 112
- plant counts: 14
Safety information
risk assessment
- @ref: 17808
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 17808
- description: Devosia chinhatensis strain IPL18 16S ribosomal RNA gene, partial sequence
- accession: EF433462
- length: 1394
- database: ena
- NCBI tax ID: 429727
Genome sequences
- @ref: 66792
- description: Devosia chinhatensis strain IPL18
- accession: 429727.3
- assembly level: wgs
- database: patric
- NCBI tax ID: 429727
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 100 | no |
| gram-positive | no | 96.591 | yes |
| anaerobic | no | 98.241 | yes |
| halophile | no | 89.682 | no |
| spore-forming | no | 96.721 | no |
| glucose-util | yes | 88.627 | no |
| aerobic | yes | 93.692 | no |
| flagellated | no | 64.443 | no |
| thermophile | no | 98.553 | no |
| motile | yes | 83.919 | yes |
| glucose-ferment | no | 89.28 | no |
External links
@ref: 17808
culture collection no.: DSM 24953, CCM 7426, MTCC 8593, IPL 18
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 18398183 | Devosia chinhatensis sp. nov., isolated from a hexachlorocyclohexane (HCH) dump site in India. | Kumar M, Verma M, Lal R | Int J Syst Evol Microbiol | 10.1099/ijs.0.65574-0 | 2008 | Base Sequence, DNA Primers/genetics, DNA, Bacterial/genetics, Fatty Acids/metabolism, Genes, Bacterial, Hexachlorocyclohexane/metabolism, Hyphomicrobiaceae/*classification/genetics/*isolation & purification/metabolism, India, Microscopy, Electron, Transmission, Molecular Sequence Data, Phenotype, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Soil Microbiology, Soil Pollutants/metabolism, Terminology as Topic | Metabolism |
| Phylogeny | 19654342 | Devosia yakushimensis sp. nov., isolated from root nodules of Pueraria lobata (Willd.) Ohwi. | Bautista VV, Monsalud RG, Yokota A | Int J Syst Evol Microbiol | 10.1099/ijs.0.011254-0 | 2009 | DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/chemistry/metabolism, Hyphomicrobiaceae/*classification/genetics/*isolation & purification/metabolism, Molecular Sequence Data, Phylogeny, Pueraria/*microbiology, RNA, Ribosomal, 16S/genetics, Root Nodules, Plant/*microbiology | Metabolism |
| Phylogeny | 24037653 | Devosia lucknowensis sp. nov., a bacterium isolated from hexachlorocyclohexane (HCH) contaminated pond soil. | Dua A, Malhotra J, Saxena A, Khan F, Lal R | J Microbiol | 10.1007/s12275-013-2705-9 | 2013 | Base Composition, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Geologic Sediments/*microbiology, Hexachlorocyclohexane/analysis, Hyphomicrobiaceae/*classification/genetics/*isolation & purification/physiology, India, Locomotion, Molecular Sequence Data, Phospholipids/analysis, Phylogeny, Pigments, Biological/metabolism, Polyamines/analysis, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Water Pollutants/analysis | Genetics |
| Phylogeny | 26391996 | Devosia honganensis sp. nov., isolated from the soil of a chemical factory. | Zhang L, Song M, Chen XL, Xu RJ, Chen K, Li SP, Xia ZY, Jiang JD | Antonie Van Leeuwenhoek | 10.1007/s10482-015-0582-4 | 2015 | Aerobiosis, Base Composition, China, Cluster Analysis, Cytosol/chemistry, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Glycolipids/analysis, Hydrogen-Ion Concentration, Hyphomicrobiaceae/*classification/genetics/*isolation & purification/physiology, Industrial Waste, Molecular Sequence Data, Phospholipids/analysis, Phylogeny, Pigments, Biological/analysis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sodium Chloride/metabolism, *Soil Microbiology, Temperature | Genetics |
| Phylogeny | 26475689 | Methyloterrigena soli gen. nov., sp. nov., a methanol-utilizing bacterium isolated from chloroethylene-contaminated soil. | Kim HS, Srinivasan S, Lee SS | Int J Syst Evol Microbiol | 10.1099/ijsem.0.000680 | 2015 | Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Hyphomicrobiaceae/*classification/genetics/isolation & purification, Methanol/*metabolism, Molecular Sequence Data, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, *Soil Microbiology, Soil Pollutants, Ubiquinone/analogs & derivatives/chemistry, Vinyl Chloride | Genetics |
| Phylogeny | 27902276 | Devosia elaeis sp. nov., isolated from oil palm rhizospheric soil. | Mohd Nor MN, Sabaratnam V, Tan GYA | Int J Syst Evol Microbiol | 10.1099/ijsem.0.001683 | 2017 | Arecaceae/*microbiology, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Glycolipids/chemistry, Hyphomicrobiaceae/*classification/genetics/isolation & purification, Malaysia, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, *Rhizosphere, Sequence Analysis, DNA, *Soil Microbiology, Ubiquinone/chemistry | Transcriptome |
| Phylogeny | 31596199 | Devosia indica sp. nov., isolated from surface seawater in the Indian Ocean. | Lin D, Huang Y, Chen Y, Zhu S, Yang J, Chen J | Int J Syst Evol Microbiol | 10.1099/ijsem.0.003759 | 2020 | Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Glycolipids/chemistry, Hyphomicrobiaceae/*classification/isolation & purification, Indian Ocean, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, Ubiquinone/analogs & derivatives/chemistry, *Water Microbiology | Transcriptome |
| Phylogeny | 32228770 | Devosia ginsengisoli sp. nov., isolated from ginseng cultivation soil. | Quan XT, Siddiqi MZ, Liu QZ, Lee SM, Im WT | Int J Syst Evol Microbiol | 10.1099/ijsem.0.003843 | 2020 | Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Hyphomicrobiaceae/*classification/isolation & purification, Nucleic Acid Hybridization, Panax/*microbiology, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, *Soil Microbiology, Ubiquinone/analogs & derivatives/chemistry | Transcriptome |
| Phylogeny | 33963447 | Devosia aurantiaca sp. nov., Isolated from Mountain Soil and Proposal of Albitalea gen. nov. to Replace the Illegitimate Prokaryotic Genus Name Geomonas Khan et al. 2020. | Khan SA, Kim HM, Chun BH, Jeon CO | Curr Microbiol | 10.1007/s00284-021-02515-8 | 2021 | Bacterial Typing Techniques, DNA, Bacterial/genetics, Fatty Acids/analysis, Hyphomicrobiaceae, *Phospholipids/analysis, Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, *Soil, Ubiquinone | Transcriptome |
Reference
| @id | authors | catalogue | doi/url | title | ID_cross_reference | pubmed | journal |
|---|---|---|---|---|---|---|---|
| 17808 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 24953) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-24953 | ||||
| 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 | ||||
| 32491 | 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 | 28711 | 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) | ||||
| 66794 | Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg | 10.1093/nar/gkaa1025 | BRENDA, the ELIXIR core data resource in 2021: new developments and updates | 33211880 | Nucleic Acids Res. 49: D498-D508 2020 | ||
| 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 |