Strain identifier
BacDive ID: 7151
Type strain:
Species: Methylobacterium organophilum
Strain Designation: XX
Strain history: CIP <- 1984, NCIB <- ATCC <- R.S. Hanson: strain XX
NCBI tax ID(s): 410 (species)
General
@ref: 7410
BacDive-ID: 7151
DSM-Number: 18172
keywords: 16S sequence, Bacteria, mesophilic, Gram-negative, rod-shaped
description: Methylobacterium organophilum XX is a mesophilic, Gram-negative, rod-shaped bacterium that was isolated from sediment.
NCBI tax id
- NCBI tax id: 410
- Matching level: species
strain history
@ref | history |
---|---|
7410 | <- NCIMB <- ATCC <- R. S. Hanson. NOt identical to DSM 760, a strain directly obtained from the laboratory where the strain was isolated |
121432 | CIP <- 1984, NCIB <- ATCC <- R.S. Hanson: strain XX |
doi: 10.13145/bacdive7151.20230509.8.1
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 organophilum
- full scientific name: Methylobacterium organophilum Patt et al. 1976 (Approved Lists 1980)
@ref: 7410
domain: Bacteria
phylum: Proteobacteria
class: Alphaproteobacteria
order: Rhizobiales
family: Methylobacteriaceae
genus: Methylobacterium
species: Methylobacterium organophilum
full scientific name: Methylobacterium organophilum Patt et al. 1976
strain designation: XX
type strain: yes
Morphology
cell morphology
- @ref: 121432
- gram stain: negative
- cell shape: rod-shaped
- motility: no
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
7410 | METHYLOBACTERIUM MEDIUM (DSMZ Medium 125) | yes | https://mediadive.dsmz.de/medium/125 | Name: METHYLOBACTERIUM MEDIUM (DSMZ Medium 125) Composition: Agar 12.0 g/l KNO3 1.0 g/l Na2HPO4 0.23 g/l MgSO4 x 7 H2O 0.2 g/l NaH2PO4 0.07 g/l CaCl2 x 2 H2O 0.02 g/l FeSO4 x 7 H2O 0.001 g/l ZnSO4 x 7 H2O 7e-05 g/l H3BO3 1e-05 g/l MnSO4 x 5 H2O 1e-05 g/l MoO3 1e-05 g/l CuSO4 x 5 H2O 5e-06 g/l Distilled water |
7410 | NUTRIENT AGAR (DSMZ Medium 1) | yes | https://mediadive.dsmz.de/medium/1 | Name: NUTRIENT AGAR (DSMZ Medium 1; with strain-specific modifications) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Methanol Distilled water |
culture temp
- @ref: 7410
- growth: positive
- type: growth
- temperature: 30
- range: mesophilic
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent |
---|---|---|---|---|---|
7410 | sediment | Wisconsin, Madison, Lake Mendota | USA | USA | North America |
121432 | Environment, Sediment | Mendota lake, Madison | United States of America | USA | North America |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Environmental | #Aquatic | #Sediment |
#Environmental | #Terrestrial | #Sediment |
Safety information
risk assessment
@ref | biosafety level | biosafety level comment |
---|---|---|
7410 | 1 | Risk group (German classification) |
121432 | 1 | Risk group (French classification) |
Sequence information
16S sequences
@ref | description | accession | length | database | NCBI tax ID |
---|---|---|---|---|---|
20218 | Methylobacterium organophilum 16S ribosomal RNA gene, partial sequence; tRNA-Ile and tRNA-Ala genes, complete sequence; and 23S ribosomal RNA gene, partial sequence | AF338181 | 1163 | ena | 410 |
20218 | Methylobacterium organophilum partial 16S rRNA gene, strain JCM 2833 | AJ400920 | 697 | ena | 410 |
7410 | Methylobacterium organophilum partial 16S rRNA gene, type strain DSM 18172T | LN681562 | 1435 | ena | 410 |
GC content
- @ref: 7410
- GC-content: 66.0
External links
@ref: 7410
culture collection no.: DSM 18172, ATCC 27886, CIP 101049, IFO 15689, JCM 2833, NCIMB 11278, DSM 760, LMG 6083
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 13130002 | Bosea minatitlanensis sp. nov., a strictly aerobic bacterium isolated from an anaerobic digester. | Ouattara AS, Assih EA, Thierry S, Cayol JL, Labat M, Monroy O, Macarie H | Int J Syst Evol Microbiol | 10.1099/ijs.0.02540-0 | 2003 | Aerobiosis, Bradyrhizobiaceae/classification/genetics/*isolation & purification/metabolism, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/analysis, Genes, Bacterial, Molecular Sequence Data, Phenotype, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sewage/microbiology, Species Specificity | Genetics |
Phylogeny | 17329786 | Methylobacterium jeotgali sp. nov., a non-pigmented, facultatively methylotrophic bacterium isolated from jeotgal, a traditional Korean fermented seafood. | Aslam Z, Lee CS, Kim KH, Im WT, Ten LN, Lee ST | Int J Syst Evol Microbiol | 10.1099/ijs.0.64625-0 | 2007 | DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fermentation, Korea, Methylobacterium/*classification/genetics/isolation & purification/physiology, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Seafood/*microbiology | Genetics |
Phylogeny | 22199216 | Methylobacterium gnaphalii sp. nov., isolated from leaves of Gnaphalium spicatum. | Tani A, Sahin N, Kimbara K | Int J Syst Evol Microbiol | 10.1099/ijs.0.037713-0 | 2011 | Bacterial Typing Techniques, DNA, Bacterial/genetics, Fatty Acids/analysis, Gnaphalium/*microbiology, Methylobacterium/*classification/genetics/isolation & purification, Molecular Sequence Data, Nucleic Acid Hybridization, *Phylogeny, Plant Leaves/microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization, Ubiquinone/analysis | Genetics |
Phylogeny | 23291886 | Methylobacterium trifolii sp. nov. and Methylobacterium thuringiense sp. nov., methanol-utilizing, pink-pigmented bacteria isolated from leaf surfaces. | Wellner S, Lodders N, Glaeser SP, Kampfer P | Int J Syst Evol Microbiol | 10.1099/ijs.0.047787-0 | 2013 | Bacterial Typing Techniques, Caryophyllaceae/*microbiology, DNA, Bacterial/genetics, Fatty Acids/analysis, Germany, Methanol/*metabolism, Methylobacterium/*classification/genetics/isolation & purification, Molecular Sequence Data, Nucleic Acid Hybridization, *Phylogeny, *Pigmentation, Plant Leaves/microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Trifolium/*microbiology | Genetics |
Phylogeny | 23475343 | Methylobacterium haplocladii sp. nov. and Methylobacterium brachythecii sp. nov., isolated from bryophytes. | Tani A, Sahin N | Int J Syst Evol Microbiol | 10.1099/ijs.0.048215-0 | 2013 | Bacterial Typing Techniques, Base Composition, Bryophyta/*microbiology, DNA, Bacterial/genetics, Fatty Acids/analysis, Japan, Methylobacterium/*classification/genetics/isolation & purification, Molecular Sequence Data, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization, Ubiquinone/analogs & derivatives/analysis | Genetics |
Phylogeny | 24556636 | Psychroglaciecola arctica gen. nov., sp. nov., isolated from Arctic glacial foreland soil. | Qu Z, Jiang F, Chang X, Qiu X, Ren L, Fang C, Peng F | Int J Syst Evol Microbiol | 10.1099/ijs.0.060913-0 | 2014 | Arctic Regions, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Methylobacteriaceae/*classification/genetics/isolation & purification, Molecular Sequence Data, *Phylogeny, Pigmentation, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Svalbard, Ubiquinone/chemistry | Genetics |
Phylogeny | 31463788 | Methylobacterium terrae sp. nov., a radiation-resistant bacterium isolated from gamma ray-irradiated soil. | Kim J, Chhetri G, Kim I, Kim H, Kim MK, Seo T | J Microbiol | 10.1007/s12275-019-9007-9 | 2019 | Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, *Gamma Rays, Genotype, Lipids/chemistry, Methylobacterium/*classification/genetics/*isolation & purification/radiation effects, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, *Radiation Tolerance, Republic of Korea, Sequence Analysis, DNA, Soil, *Soil Microbiology, Ubiquinone/analogs & derivatives/chemistry, Whole Genome Sequencing | Genetics |
Phylogeny | 32100693 | Methylobacterium terricola sp. nov., a gamma radiation-resistant bacterium isolated from gamma ray-irradiated soil. | Kim J, Chhetri G, Kim I, Lee B, Jang W, Kim MK, Seo T | Int J Syst Evol Microbiol | 10.1099/ijsem.0.004054 | 2020 | Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, *Gamma Rays, Methylobacterium/*classification/isolation & purification/radiation effects, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, *Soil Microbiology, Ubiquinone/analogs & derivatives/chemistry | Transcriptome |
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
7410 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 18172) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-18172 | |||
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 | |
121432 | Curators of the CIP | Collection of Institut Pasteur (CIP 101049) | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20101049 |