Strain identifier
BacDive ID: 133736
Type strain:
Species: Skermanella stibiiresistens
Strain Designation: SB22
NCBI tax ID(s): 913326 (species)
version 8.1 (current version)
General
@ref: 30338
BacDive-ID: 133736
keywords: genome sequence, 16S sequence, Bacteria, aerobe, Gram-negative, motile, rod-shaped
description: Skermanella stibiiresistens SB22 is an aerobe, Gram-negative, motile bacterium that was isolated from soil.
NCBI tax id
- NCBI tax id: 913326
- Matching level: species
doi: 10.13145/bacdive133736.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Alphaproteobacteria
- order: Rhodospirillales
- family: Azospirillaceae
- genus: Skermanella
- species: Skermanella stibiiresistens
- full scientific name: Skermanella stibiiresistens Luo et al. 2012
@ref: 30338
domain: Bacteria
phylum: Proteobacteria
class: Alphaproteobacteria
order: Rhodospirillales
family: Rhodospirillaceae
genus: Skermanella
species: Skermanella stibiiresistens
strain designation: SB22
type strain: yes
Morphology
cell morphology
- @ref: 30338
- gram stain: negative
- cell shape: rod-shaped
- motility: yes
pigmentation
- @ref: 30338
- production: yes
Culture and growth conditions
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
30338 | positive | growth | 04-37 | |
30338 | positive | optimum | 28 | mesophilic |
culture pH
@ref | ability | type | pH | PH range |
---|---|---|---|---|
30338 | positive | growth | 05-09 | alkaliphile |
30338 | positive | optimum | 7 |
Physiology and metabolism
oxygen tolerance
- @ref: 30338
- oxygen tolerance: aerobe
halophily
- @ref: 30338
- salt: NaCl
- growth: positive
- tested relation: growth
- concentration: 0-4 %
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
30338 | 37054 | 3-hydroxybutyrate | + | carbon source |
30338 | 16449 | alanine | + | carbon source |
30338 | 17234 | glucose | + | carbon source |
30338 | 24996 | lactate | + | carbon source |
30338 | 25115 | malate | + | carbon source |
30338 | 26271 | proline | + | carbon source |
30338 | 26546 | rhamnose | + | carbon source |
30338 | 33942 | ribose | + | carbon source |
30338 | 17814 | salicin | + | carbon source |
enzymes
@ref | value | activity | ec |
---|---|---|---|
30338 | catalase | + | 1.11.1.6 |
30338 | cytochrome oxidase | + | 1.9.3.1 |
Isolation, sampling and environmental information
isolation
- @ref: 30338
- sample type: soil
isolation source categories
- Cat1: #Environmental
- Cat2: #Terrestrial
- Cat3: #Soil
taxonmaps
- @ref: 69479
- File name: preview.99_68240.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_47;96_7252;97_8697;98_48050;99_68240&stattab=map
- Last taxonomy: Skermanella stibiiresistens subclade
- 16S sequence: HQ315828
- Sequence Identity:
- Total samples: 412
- soil counts: 237
- aquatic counts: 20
- animal counts: 118
- plant counts: 37
Sequence information
16S sequences
- @ref: 30338
- description: Skermanella stibiiresistens SB22 16S ribosomal RNA gene, partial sequence
- accession: HQ315828
- length: 1420
- database: nuccore
- NCBI tax ID: 1385369
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Skermanella stibiiresistens SB22 | GCA_000576635 | contig | ncbi | 1385369 |
66792 | Skermanella stibiiresistens SB22 | 1385369.3 | wgs | patric | 1385369 |
66792 | Skermanella stibiiresistens SB22 | 2590828654 | draft | img | 1385369 |
GC content
- @ref: 30338
- GC-content: 69.6
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
motile | yes | 87.99 | yes |
gram-positive | no | 98.575 | yes |
anaerobic | no | 96.776 | yes |
halophile | no | 90.179 | no |
spore-forming | no | 89.851 | no |
glucose-util | yes | 88.769 | yes |
thermophile | no | 99.109 | yes |
aerobic | yes | 85.618 | yes |
flagellated | yes | 62.788 | no |
glucose-ferment | no | 87.539 | no |
External links
@ref: 30338
culture collection no.: CGMCC 1.10751, KCTC 23364
literature
- topic: Phylogeny
- Pubmed-ID: 21784960
- title: Skermanella stibiiresistens sp. nov., a highly antimony-resistant bacterium isolated from coal-mining soil, and emended description of the genus Skermanella.
- authors: Luo G, Shi Z, Wang H, Wang G
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.033746-0
- year: 2011
- mesh: Antimony/*metabolism, Base Composition, China, Coal Mining, DNA, Bacterial/genetics, Fatty Acids/metabolism, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Rhodospirillaceae/*classification/genetics/*isolation & purification/metabolism, *Soil Microbiology
- topic2: Metabolism
Reference
@id | authors | title | doi/url | ID_cross_reference | pubmed |
---|---|---|---|---|---|
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 | ||
30338 | 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 | 26679 | 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 | ||
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/ |