Strain identifier
BacDive ID: 7203
Type strain: 
Species: Microvirga aerilata
Strain Designation: 5420S-16
Strain history: <- S.-W. Kwon, KACC; 5420S-16 <- H.-Y. Weon
NCBI tax ID(s): 670292 (species)
version 8.1 (current version)
General
@ref: 15629
BacDive-ID: 7203
DSM-Number: 21343
keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-negative, rod-shaped
description: Microvirga aerilata 5420S-16 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from air.
NCBI tax id
- NCBI tax id: 670292
- Matching level: species
strain history
- @ref: 15629
- history: <- S.-W. Kwon, KACC; 5420S-16 <- H.-Y. Weon
doi: 10.13145/bacdive7203.20230509.8.1
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 aerilata
- full scientific name: Microvirga aerilata Weon et al. 2010
@ref: 15629
domain: Bacteria
phylum: Proteobacteria
class: Alphaproteobacteria
order: Rhizobiales
family: Methylobacteriaceae
genus: Microvirga
species: Microvirga aerilata
full scientific name: Microvirga aerilata Weon et al. 2010
strain designation: 5420S-16
type strain: yes
Morphology
cell morphology
- @ref: 29689
- gram stain: negative
- cell length: 1.6-3.3 µm
- cell width: 1.2-1.5 µm
- cell shape: rod-shaped
- motility: no
pigmentation
- @ref: 29689
- production: yes
Culture and growth conditions
culture medium
- @ref: 15629
- name: R2A MEDIUM (DSMZ Medium 830)
- growth: yes
- link: https://mediadive.dsmz.de/medium/830
- composition: Name: R2A MEDIUM (DSMZ Medium 830) Composition: Agar 15.0 g/l Casamino acids 0.5 g/l Starch 0.5 g/l Glucose 0.5 g/l Proteose peptone 0.5 g/l Yeast extract 0.5 g/l K2HPO4 0.3 g/l Na-pyruvate 0.3 g/l MgSO4 x 7 H2O 0.05 g/l Distilled water
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 15629 | positive | growth | 28 | mesophilic |
| 29689 | positive | growth | 10-35 | |
| 29689 | positive | optimum | 30 | mesophilic |
culture pH
| @ref | ability | type | pH | PH range |
|---|---|---|---|---|
| 29689 | positive | growth | 07-10 | alkaliphile |
| 29689 | positive | optimum | 07-10 |
Physiology and metabolism
oxygen tolerance
- @ref: 29689
- oxygen tolerance: aerobe
spore formation
- @ref: 29689
- spore formation: no
halophily
| @ref | salt | growth | tested relation | concentration |
|---|---|---|---|---|
| 29689 | NaCl | positive | growth | 0-3 % |
| 29689 | NaCl | positive | optimum | 0-3 % |
observation
- @ref: 29689
- observation: aggregates in chains
enzymes
| @ref | value | activity | ec |
|---|---|---|---|
| 29689 | alkaline phosphatase | + | 3.1.3.1 |
| 29689 | catalase | + | 1.11.1.6 |
Isolation, sampling and environmental information
isolation
- @ref: 15629
- sample type: air
- geographic location: Suwon
- country: Republic of Korea
- origin.country: KOR
- continent: Asia
isolation source categories
- Cat1: #Environmental
- Cat2: #Air
taxonmaps
- @ref: 69479
- File name: preview.99_117409.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_86;96_1174;97_1377;98_21461;99_117409&stattab=map
- Last taxonomy: Microvirga aerilata
- 16S sequence: AB682368
- Sequence Identity:
- Total samples: 28
- soil counts: 19
- aquatic counts: 7
- animal counts: 2
Safety information
risk assessment
- @ref: 15629
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
| @ref | description | accession | length | database | NCBI tax ID |
|---|---|---|---|---|---|
| 20218 | Microvirga aerilata gene for 16S rRNA, partial sequence, strain: NBRC 106137 | AB682368 | 1412 | ena | 670292 |
| 15629 | Microvirga aerilata strain 5420S-16 16S ribosomal RNA gene, partial sequence | GQ421849 | 1439 | ena | 670292 |
Genome sequences
- @ref: 66792
- description: Microvirga aerilata 5420S-16
- accession: GCA_016743775
- assembly level: contig
- database: ncbi
- NCBI tax ID: 670292
GC content
| @ref | GC-content | method |
|---|---|---|
| 15629 | 61.5 | high performance liquid chromatography (HPLC) |
| 29689 | 61.5 |
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| flagellated | no | 94.709 | no |
| gram-positive | no | 97.14 | yes |
| anaerobic | no | 98.394 | no |
| aerobic | yes | 92.561 | yes |
| halophile | no | 91.08 | no |
| spore-forming | no | 93.621 | no |
| thermophile | no | 95.57 | yes |
| glucose-util | yes | 89.101 | no |
| motile | no | 83.605 | no |
| glucose-ferment | no | 90.64 | no |
External links
@ref: 15629
culture collection no.: DSM 21343, KACC 12744, NBRC 106137
straininfo link
- @ref: 76656
- straininfo: 403973
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 20023055 | Description of Microvirga aerophila sp. nov. and Microvirga aerilata sp. nov., isolated from air, reclassification of Balneimonas flocculans Takeda et al. 2004 as Microvirga flocculans comb. nov. and emended description of the genus Microvirga. | Weon HY, Kwon SW, Son JA, Jo EH, Kim SJ, Kim YS, Kim BY, Ka JO | Int J Syst Evol Microbiol | 10.1099/ijs.0.018770-0 | 2009 | *Air Microbiology, Base Composition, Bradyrhizobiaceae/*classification/genetics/*isolation & purification/metabolism, DNA, Bacterial/genetics, Fatty Acids/metabolism, Methylobacteriaceae/*classification/genetics/*isolation & purification/metabolism, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics | Metabolism |
| Phylogeny | 22199210 | Microvirga lupini sp. nov., Microvirga lotononidis sp. nov. and Microvirga zambiensis sp. nov. are alphaproteobacterial root-nodule bacteria that specifically nodulate and fix nitrogen with geographically and taxonomically separate legume hosts. | Ardley JK, Parker MA, De Meyer SE, Trengove RD, O'Hara GW, Reeve WG, Yates RJ, Dilworth MJ, Willems A, Howieson JG | Int J Syst Evol Microbiol | 10.1099/ijs.0.035097-0 | 2011 | Bacterial Typing Techniques, DNA, Bacterial/genetics, Fabaceae/*microbiology, Fatty Acids/analysis, Methylobacteriaceae/*classification/genetics/isolation & purification, Molecular Sequence Data, Nitrogen Fixation, *Phylogeny, Plant Root Nodulation, Plant Roots/microbiology, RNA, Ribosomal, 16S/genetics, Texas, Zambia | Genetics |
| 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 | 35260993 | Microvirga jeongseonensis sp. nov., isolated from soil in South Korea. | Maeng S, Park Y, Oh H, Bang M, Baigalmaa J, Bai J, Kim MK | Arch Microbiol | 10.1007/s00203-022-02791-3 | 2022 | Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/analysis, *Methylobacteriaceae, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil, Soil Microbiology | Transcriptome |
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed | ID_cross_reference |
|---|---|---|---|---|---|---|---|
| 15629 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 21343) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-21343 | ||||
| 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 | ||||
| 20218 | Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P. | 10.1016/j.syapm.2013.11.002 | StrainInfo introduces electronic passports for microorganisms. | Syst Appl Microbiol. 37: 42-50 2014 | 24321274 | ||
| 29689 | 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 | 28776041 | 26074 | ||
| 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) | ||||
| 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 | ||||
| 76656 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID403973.1 | StrainInfo: A central database for resolving microbial strain identifiers |