Strain identifier
BacDive ID: 132877
Type strain: 
Species: Microvirga arabica
Strain Designation: SV2184P
Strain history: <- Nevzat Sahin, Ondokuz Mayis Univ., Turkey
NCBI tax ID(s): 1128671 (species)
version 8.1 (current version)
General
@ref: 24665
BacDive-ID: 132877
DSM-Number: 25393
keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-negative
description: Microvirga arabica SV2184P is an aerobe, mesophilic, Gram-negative bacterium that was isolated from arid soil.
NCBI tax id
- NCBI tax id: 1128671
- Matching level: species
strain history
| @ref | history |
|---|---|
| 24665 | <- N. Sahin, Ondokuz Mayis Univ., Dept. of Biology, Samsun, Turkey; SV2184P <- M. Camas |
| 67771 | <- Nevzat Sahin, Ondokuz Mayis Univ., Turkey |
doi: 10.13145/bacdive132877.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Alphaproteobacteria
- order: Hyphomicrobiales
- family: Methylobacteriaceae
- genus: Microvirga
- species: Microvirga arabica
- full scientific name: Microvirga arabica Veyisoglu et al. 2017
@ref: 24665
domain: Bacteria
phylum: Proteobacteria
class: Alphaproteobacteria
order: Rhizobiales
family: Methylobacteriaceae
genus: Microvirga
species: Microvirga arabica
full scientific name: Microvirga arabica Veyisoglu et al. 2017
strain designation: SV2184P
type strain: yes
Morphology
cell morphology
- @ref: 67771
- gram stain: negative
Culture and growth conditions
culture medium
- @ref: 24665
- name: GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)
- growth: yes
- link: https://mediadive.dsmz.de/medium/65
- composition: Name: GYM STREPTOMYCES MEDIUM (DSMZ Medium 65) Composition: Agar 18.0 g/l Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l CaCO3 2.0 g/l Distilled water
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 24665 | positive | growth | 28 | mesophilic |
| 67771 | positive | growth | 28 | mesophilic |
Physiology and metabolism
oxygen tolerance
- @ref: 67771
- oxygen tolerance: aerobe
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent | latitude | longitude |
|---|---|---|---|---|---|---|---|
| 24665 | arid soil | Makkah (Mekka), Hira Cave (21° 27' 25.69'' N 39° 51' 33.04'' E) | Saudi Arabia | SAU | Asia | 21.4571 | 39.8592 |
| 67771 | From Mekke arid soil | Saudi Arabia | SAU | Asia |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Environmental | #Terrestrial | #Soil |
| #Condition | #Xerophilic |
taxonmaps
- @ref: 69479
- File name: preview.99_162456.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_86;96_1174;97_1377;98_21461;99_162456&stattab=map
- Last taxonomy: Microvirga arabica
- 16S sequence: JN989301
- Sequence Identity:
- Total samples: 307
- soil counts: 99
- aquatic counts: 102
- animal counts: 59
- plant counts: 47
Safety information
risk assessment
- @ref: 24665
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 24665
- description: Microvirga arabica strain SV2184P 16S ribosomal RNA gene, partial sequence
- accession: JN989301
- length: 1434
- database: ena
- NCBI tax ID: 1128671
Genome sequences
- @ref: 66792
- description: Microvirga arabica SV2184P
- accession: GCA_016811235
- assembly level: contig
- database: ncbi
- NCBI tax ID: 1128671
GC content
- @ref: 24665
- GC-content: 62.1
- method: fluorimetric
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| flagellated | no | 79.657 | no |
| gram-positive | no | 98.069 | no |
| anaerobic | no | 97.767 | no |
| aerobic | yes | 91.759 | yes |
| halophile | no | 85.313 | no |
| spore-forming | no | 92.931 | no |
| thermophile | no | 93.893 | no |
| glucose-util | yes | 89.656 | no |
| motile | yes | 63.621 | no |
| glucose-ferment | no | 89.843 | no |
External links
@ref: 24665
culture collection no.: DSM 25393, KCTC 23864, NRRL B-24874
straininfo link
- @ref: 91159
- straininfo: 396597
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 26671415 | Microvirga makkahensis sp. nov., and Microvirga arabica sp. nov., isolated from sandy arid soil. | Veyisoglu A, Tatar D, Saygin H, Inan K, Cetin D, Guven K, Tuncer M, Sahin N | Antonie Van Leeuwenhoek | 10.1007/s10482-015-0631-z | 2015 | Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry/metabolism, Methylobacteriaceae/classification/genetics/*isolation & purification/metabolism, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Soil/chemistry, *Soil Microbiology | Metabolism |
| Phylogeny | 35389143 | Microvirga splendida sp. nov., bacteria isolated from soil. | Park Y, Maeng S, Damdintogtokh T, Oh H, Bang M, Bai J, Kim MK | Antonie Van Leeuwenhoek | 10.1007/s10482-022-01715-x | 2022 | *Alphaproteobacteria/genetics, Bacterial Typing Techniques, DNA, Bacterial/genetics, Fatty Acids/analysis, *Methylobacteriaceae/genetics, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Soil, Soil Microbiology | Transcriptome |
Reference
| @id | authors | title | doi/url | catalogue |
|---|---|---|---|---|
| 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 | |
| 24665 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-25393 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 25393) | |
| 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 | |
| 67771 | Curators of the KCTC | https://kctc.kribb.re.kr/En/Kctc | ||
| 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/ | |
| 91159 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | StrainInfo: A central database for resolving microbial strain identifiers | 10.60712/SI-ID396597.1 |