Strain identifier
BacDive ID: 134145
Type strain:
Species: Methylobacter tundripaludum
Strain Designation: SV96
NCBI tax ID(s): 697282 (strain), 173365 (species)
version 8.1 (current version)
General
@ref: 31518
BacDive-ID: 134145
DSM-Number: 17260
keywords: genome sequence, 16S sequence, Bacteria, aerobe, psychrophilic, Gram-negative, rod-shaped
description: Methylobacter tundripaludum SV96 is an aerobe, psychrophilic, Gram-negative bacterium that was isolated from soil.
NCBI tax id
NCBI tax id | Matching level |
---|---|
697282 | strain |
173365 | species |
doi: 10.13145/bacdive134145.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Gammaproteobacteria
- order: Methylococcales
- family: Methylococcaceae
- genus: Methylobacter
- species: Methylobacter tundripaludum
- full scientific name: Methylobacter tundripaludum Wartiainen et al. 2006
@ref: 31518
domain: Bacteria
phylum: Proteobacteria
class: Gammaproteobacteria
order: Methylococcales
family: Methylococcaceae
genus: Methylobacter
species: Methylobacter tundripaludum
strain designation: SV96
type strain: yes
Morphology
cell morphology
- @ref: 31518
- gram stain: negative
- cell length: 1.9-2.5 µm
- cell width: 0.8-1.3 µm
- cell shape: rod-shaped
- motility: no
pigmentation
- @ref: 31518
- production: yes
Culture and growth conditions
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
31518 | positive | growth | 10-23 | psychrophilic |
31518 | positive | optimum | 23 | psychrophilic |
culture pH
@ref | ability | type | pH |
---|---|---|---|
31518 | positive | growth | 5.5-7.9 |
31518 | positive | optimum | 7 |
Physiology and metabolism
oxygen tolerance
- @ref: 31518
- oxygen tolerance: aerobe
spore formation
- @ref: 31518
- spore formation: no
observation
- @ref: 31518
- observation: aggregates in chains
enzymes
@ref | value | activity | ec |
---|---|---|---|
31518 | catalase | + | 1.11.1.6 |
31518 | cytochrome oxidase | + | 1.9.3.1 |
Isolation, sampling and environmental information
isolation
- @ref: 31518
- sample type: soil
isolation source categories
- Cat1: #Environmental
- Cat2: #Terrestrial
- Cat3: #Soil
taxonmaps
- @ref: 69479
- File name: preview.99_2572.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_194;96_1381;97_1641;98_1994;99_2572&stattab=map
- Last taxonomy: Methylobacter tundripaludum
- 16S sequence: AJ414655
- Sequence Identity:
- Total samples: 1424
- soil counts: 179
- aquatic counts: 1216
- animal counts: 18
- plant counts: 11
Sequence information
16S sequences
- @ref: 31518
- description: Methylobacter tundripaludum 16S ribosomal RNA, type strain SV96T
- accession: AJ414655
- length: 1487
- database: nuccore
- NCBI tax ID: 697282
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Methylobacter tundripaludum SV96 | GCA_000190755 | scaffold | ncbi | 697282 |
66792 | Methylobacter tundripaludum SV96 | 697282.3 | wgs | patric | 697282 |
66792 | Methylobacter tundripaludum SV96 | 648276688 | draft | img | 697282 |
GC content
- @ref: 31518
- GC-content: 47
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
motile | yes | 65.422 | yes |
flagellated | no | 62.117 | no |
gram-positive | no | 98.729 | yes |
anaerobic | no | 93.715 | no |
aerobic | yes | 75.556 | no |
halophile | no | 95.398 | no |
spore-forming | no | 87.769 | no |
glucose-util | yes | 72.363 | no |
thermophile | no | 98.726 | yes |
glucose-ferment | no | 84.203 | no |
External links
@ref: 31518
culture collection no.: ATCC BAA 1195, DSM 17260
straininfo link
- @ref: 91743
- straininfo: 289868
literature
- topic: Phylogeny
- Pubmed-ID: 16403874
- title: Methylobacter tundripaludum sp. nov., a methane-oxidizing bacterium from Arctic wetland soil on the Svalbard islands, Norway (78 degrees N).
- authors: Wartiainen I, Hestnes AG, McDonald IR, Svenning MM
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.63728-0
- year: 2006
- mesh: Arctic Regions, Fatty Acids, Methylococcaceae/chemistry/*classification/isolation & purification/physiology, Molecular Sequence Data, Norway, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sequence Homology, Nucleic Acid, *Soil Microbiology, Species Specificity
- topic2: Genetics
Reference
@id | authors | title | doi/url | ID_cross_reference | pubmed | journal |
---|---|---|---|---|---|---|
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 | |||
31518 | Barberan A, Caceres Velazquez H, Jones S, Fierer N. | Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information | 10.1128/mSphere.00237-17 | 27813 | 28776041 | |
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 | |||
66794 | Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg | BRENDA, the ELIXIR core data resource in 2021: new developments and updates | 10.1093/nar/gkaa1025 | 33211880 | Nucleic Acids Res. 49: D498-D508 2020 | |
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/ | |||
91743 | 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-ID289868.1 |