Strain identifier
BacDive ID: 7201
Type strain:
Species: Methylobacterium soli
Strain history: <- S.-K. Tang, YIM <- Y.-R. Cao
NCBI tax ID(s): 553447 (species)
General
@ref: 16066
BacDive-ID: 7201
DSM-Number: 21955
keywords: genome sequence, 16S sequence, Bacteria, mesophilic, motile
description: Methylobacterium soli DSM 21955 is a mesophilic, motile bacterium that was isolated from forest soil.
NCBI tax id
- NCBI tax id: 553447
- Matching level: species
strain history
- @ref: 16066
- history: <- S.-K. Tang, YIM <- Y.-R. Cao
doi: 10.13145/bacdive7201.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Alphaproteobacteria
- order: Hyphomicrobiales
- family: Methylobacteriaceae
- genus: Methylobacterium
- species: Methylobacterium soli
- full scientific name: Methylobacterium soli Cao et al. 2013
@ref: 16066
domain: Bacteria
phylum: Proteobacteria
class: Alphaproteobacteria
order: Rhizobiales
family: Methylobacteriaceae
genus: Methylobacterium
species: Methylobacterium soli
full scientific name: Methylobacterium soli Cao et al. 2013
type strain: yes
Morphology
cell morphology
@ref | motility | confidence | gram stain |
---|---|---|---|
69480 | yes | 91.926 | |
69480 | 99.999 | negative |
Culture and growth conditions
culture medium
- @ref: 16066
- name: ISP2 MEDIUM (DSMZ Medium 987)
- growth: yes
- link: https://mediadive.dsmz.de/medium/987
- composition: Name: ISP 2 MEDIUM (DSMZ Medium 987) Composition: Agar 20.0 g/l Malt extract 10.0 g/l Dextrose 4.0 g/l Yeast extract 4.0 g/l Distilled water
culture temp
- @ref: 16066
- growth: positive
- type: growth
- temperature: 28
- range: mesophilic
Physiology and metabolism
spore formation
@ref | spore formation | confidence |
---|---|---|
69481 | no | 99 |
69480 | no | 99.997 |
Isolation, sampling and environmental information
isolation
- @ref: 16066
- sample type: forest soil
- geographic location: Sichuan Province
- country: China
- origin.country: CHN
- continent: Asia
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Environmental | #Terrestrial | #Forest |
#Environmental | #Terrestrial | #Soil |
taxonmaps
- @ref: 69479
- File name: preview.99_12118.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15368;96_6152;97_7385;98_9105;99_12118&stattab=map
- Last taxonomy: Methylobacterium soli subclade
- 16S sequence: EU860984
- Sequence Identity:
- Total samples: 1114
- soil counts: 759
- aquatic counts: 58
- animal counts: 171
- plant counts: 126
Safety information
risk assessment
- @ref: 16066
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 16066
- description: Methylobacterium soli strain YIM 48816 16S ribosomal RNA gene, partial sequence
- accession: EU860984
- length: 1437
- database: ena
- NCBI tax ID: 553447
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Methylobacterium soli YIM 48816 | GCA_008806385 | scaffold | ncbi | 553447 |
66792 | Methylobacterium soli strain YIM 48816 | 553447.3 | wgs | patric | 553447 |
66792 | Methylobacterium soli KCTC 22810 | GCA_022179555 | contig | ncbi | 553447 |
GC content
- @ref: 16066
- GC-content: 66.2
- method: high performance liquid chromatography (HPLC)
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 99 | no |
flagellated | no | 68.965 | no |
gram-positive | no | 98.138 | no |
anaerobic | no | 97.335 | no |
aerobic | yes | 93.272 | no |
halophile | no | 94.397 | no |
spore-forming | no | 95.019 | no |
thermophile | no | 99.182 | yes |
glucose-util | yes | 83.813 | no |
motile | yes | 89.506 | no |
glucose-ferment | no | 90.058 | no |
External links
@ref: 16066
culture collection no.: DSM 21955, CCTCC AA 208027, KCTC 22810, YIM 48816
straininfo link
- @ref: 76654
- straininfo: 403456
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 21222033 | Methylobacterium soli sp. nov. a methanol-utilizing bacterium isolated from the forest soil. | Cao YR, Wang Q, Jin RX, Tang SK, Jiang Y, He WX, Lai HX, Xu LH, Jiang CL | Antonie Van Leeuwenhoek | 10.1007/s10482-010-9535-0 | 2011 | Methanol/*metabolism, Methylobacterium/classification/*genetics/*metabolism, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Soil Microbiology, *Trees | Metabolism |
Phylogeny | 21908681 | Methylobacterium oxalidis sp. nov., isolated from leaves of Oxalis corniculata. | Tani A, Sahin N, Kimbara K | Int J Syst Evol Microbiol | 10.1099/ijs.0.033019-0 | 2011 | Bacterial Typing Techniques, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Ferns/*microbiology, Locomotion, Methylobacterium/*classification/genetics/*isolation & purification/physiology, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, Pigments, Biological/metabolism, Plant Leaves/microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA | Genetics |
Metabolism | 31541329 | Methylobacterium durans sp. nov., a radiation-resistant bacterium isolated from gamma ray-irradiated soil. | Kim J, Chhetri G, Kim I, Kim MK, Seo T | Antonie Van Leeuwenhoek | 10.1007/s10482-019-01331-2 | 2019 | Base Composition/genetics, Cardiolipins/metabolism, Fatty Acids/*metabolism, *Gamma Rays, Genotype, Methylobacterium/genetics/*metabolism/*radiation effects, Phosphatidylethanolamines/metabolism, Phosphatidylglycerols/metabolism, Phylogeny, RNA, Ribosomal, 16S/genetics, Soil Microbiology | Phylogeny |
Phylogeny | 31796988 | Methylobacterium segetis sp. nov., a novel member of the family Methylobacteriaceae isolated from soil on Jeju Island. | Ten LN, Li W, Elderiny NS, Kim MK, Lee SY, Rooney AP, Jung HY | Arch Microbiol | 10.1007/s00203-019-01784-z | 2019 | Base Composition, Fatty Acids/chemistry, Methylobacterium/*classification/genetics, Nucleic Acid Hybridization, Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, *Soil Microbiology, Species Specificity | Transcriptome |
Phylogeny | 32306065 | Methylobacterium planium sp. nov., isolated from a lichen sample. | Jiang L, An D, Wang X, Zhang K, Li G, Lang L, Wang L, Jiang C, Jiang Y | Arch Microbiol | 10.1007/s00203-020-01881-4 | 2020 | Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Lichens/*microbiology, Methylobacterium/*classification/genetics/isolation & purification, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Species Specificity, Ubiquinone/metabolism | Transcriptome |
Reference
@id | authors | catalogue | doi/url | title |
---|---|---|---|---|
16066 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 21955) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-21955 | |
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 | |
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 | |
76654 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID403456.1 | StrainInfo: A central database for resolving microbial strain identifiers |