Strain identifier
BacDive ID: 7222
Type strain:
Species: Methylopila capsulata
Strain history: <- VKM (Methylomicrobium capsulatus) <- N. V. Doronina, IM1, IBPhM
NCBI tax ID(s): 61654 (species)
version 8.1 (current version)
General
@ref: 2496
BacDive-ID: 7222
DSM-Number: 6130
keywords: genome sequence, 16S sequence, Bacteria, mesophilic, motile
description: Methylopila capsulata DSM 6130 is a mesophilic, motile bacterium that was isolated from soil.
NCBI tax id
- NCBI tax id: 61654
- Matching level: species
strain history
- @ref: 2496
- history: <- VKM (Methylomicrobium capsulatus) <- N. V. Doronina, IM1, IBPhM
doi: 10.13145/bacdive7222.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Alphaproteobacteria
- order: Hyphomicrobiales
- family: Methylocystaceae
- genus: Methylopila
- species: Methylopila capsulata
- full scientific name: Methylopila capsulata Doronina et al. 1998
@ref: 2496
domain: Bacteria
phylum: Proteobacteria
class: Alphaproteobacteria
order: Rhizobiales
family: Methylocystaceae
genus: Methylopila
species: Methylopila capsulata
full scientific name: Methylopila capsulata Doronina et al. 1998
type strain: yes
Morphology
cell morphology
@ref | motility | confidence | gram stain |
---|---|---|---|
69480 | yes | 92.869 | |
69480 | 99.998 | negative |
Culture and growth conditions
culture medium
- @ref: 2496
- name: NUTRIENT AGAR (DSMZ Medium 1)
- growth: yes
- link: https://mediadive.dsmz.de/medium/1
- composition: Name: NUTRIENT AGAR (DSMZ Medium 1; with strain-specific modifications) Composition: Agar 15.0 g/l Methanol 10.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water
culture temp
- @ref: 2496
- growth: positive
- type: growth
- temperature: 30
- range: mesophilic
Physiology and metabolism
spore formation
@ref | spore formation | confidence |
---|---|---|
69481 | no | 100 |
69480 | no | 99.997 |
Isolation, sampling and environmental information
isolation
- @ref: 2496
- sample type: soil
- geographic location: Uzbekistan, Tashkent
- country: USSR
- origin.country: UZB
- continent: Asia
isolation source categories
- Cat1: #Environmental
- Cat2: #Terrestrial
- Cat3: #Soil
taxonmaps
- @ref: 69479
- File name: preview.99_1985.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_5;96_1101;97_1289;98_1553;99_1985&stattab=map
- Last taxonomy: Methylopila
- 16S sequence: AF004844
- Sequence Identity:
- Total samples: 274
- soil counts: 79
- aquatic counts: 89
- animal counts: 81
- plant counts: 25
Safety information
risk assessment
- @ref: 2496
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 20218
- description: Methylopila capsulata 16S ribosomal RNA gene, partial sequence
- accession: AF004844
- length: 1331
- database: ena
- NCBI tax ID: 61654
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Methylopila capsulata DSM 6130 | GCA_016907975 | contig | ncbi | 61654 |
66792 | Methylopila capsulata strain DSM 6130 | 61654.3 | wgs | patric | 61654 |
66792 | Methylopila capsulata DSM 6130 | 2901030786 | draft | img | 61654 |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 100 | no |
gram-positive | no | 98.332 | no |
anaerobic | no | 98.663 | no |
halophile | no | 93.368 | no |
spore-forming | no | 94.771 | no |
glucose-util | yes | 91.167 | no |
thermophile | no | 95.092 | no |
flagellated | no | 74.892 | no |
aerobic | yes | 94.845 | no |
motile | yes | 80.144 | no |
glucose-ferment | no | 90.872 | no |
External links
@ref: 2496
culture collection no.: DSM 6130, VKM B-1606
straininfo link
- @ref: 76674
- straininfo: 44100
literature
- topic: Phylogeny
- Pubmed-ID: 9828432
- title: Methylopila capsulata gen. nov., sp. nov., a novel non-pigmented aerobic facultatively methylotrophic bacterium.
- authors: Doronina NV, Trotsenko YA, Krausova VI, Boulygina ES, Tourova TP
- journal: Int J Syst Bacteriol
- DOI: 10.1099/00207713-48-4-1313
- year: 1998
- mesh: Base Composition, DNA, Bacterial/chemistry, Fatty Acids/analysis, Genes, rRNA, Gram-Negative Aerobic Bacteria/*classification/genetics/*isolation & purification/physiology, Molecular Sequence Data, Nucleic Acid Hybridization, Phospholipids/analysis, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Serine/metabolism, *Soil Microbiology, Terminology as Topic
- topic2: Genetics
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
2496 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 6130) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-6130 | |||
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 | |
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 | |||
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 | |||
76674 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID44100.1 | StrainInfo: A central database for resolving microbial strain identifiers |