Strain identifier
BacDive ID: 7625
Type strain:
Species: Arthrobacter alpinus
Strain Designation: S6-3
Strain history: CGMCC 1.8950 <-- R. Margesin S6-3.
NCBI tax ID(s): 656366 (species)
General
@ref: 16249
BacDive-ID: 7625
DSM-Number: 22274
keywords: genome sequence, 16S sequence, Bacteria, aerobe, Gram-positive, ovoid-shaped
description: Arthrobacter alpinus S6-3 is an aerobe, Gram-positive, ovoid-shaped bacterium that was isolated from alpine soil, north slope, 2300 m above sea level.
NCBI tax id
- NCBI tax id: 656366
- Matching level: species
strain history
@ref | history |
---|---|
16249 | <- R. Margesin, Inst. Microbiology, Univ. Innsbruck, Austria; S6-3 |
67770 | CGMCC 1.8950 <-- R. Margesin S6-3. |
doi: 10.13145/bacdive7625.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/actinomycetota
- domain: Bacteria
- phylum: Actinomycetota
- class: Actinomycetes
- order: Micrococcales
- family: Micrococcaceae
- genus: Arthrobacter
- species: Arthrobacter alpinus
- full scientific name: Arthrobacter alpinus Zhang et al. 2010
@ref: 16249
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Micrococcaceae
genus: Arthrobacter
species: Arthrobacter alpinus
full scientific name: Arthrobacter alpinus Zhang et al. 2010 emend. Nouioui et al. 2018
strain designation: S6-3
type strain: yes
Morphology
cell morphology
- @ref: 29621
- gram stain: positive
- cell length: 1.3-1.9 µm
- cell width: 0.8-1 µm
- cell shape: ovoid-shaped
- motility: no
pigmentation
- @ref: 29621
- production: yes
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
16249 | R2A MEDIUM (DSMZ Medium 830) | yes | https://mediadive.dsmz.de/medium/830 | Name: R2A MEDIUM (DSMZ Medium 830) Composition: Agar 15.0 g/l Casamino acids 0.5 g/l Starch 0.5 g/l Glucose 0.5 g/l Proteose peptone 0.5 g/l Yeast extract 0.5 g/l K2HPO4 0.3 g/l Na-pyruvate 0.3 g/l MgSO4 x 7 H2O 0.05 g/l Distilled water |
16249 | NUTRIENT AGAR (DSMZ Medium 1) | yes | https://mediadive.dsmz.de/medium/1 | Name: NUTRIENT AGAR (DSMZ Medium 1) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
16249 | positive | growth | 15-25 | |
29621 | positive | growth | 01-25 | |
29621 | positive | optimum | 20-25 | |
67770 | positive | growth | 20 | psychrophilic |
culture pH
@ref | ability | type | pH | PH range |
---|---|---|---|---|
29621 | positive | growth | 06-09 | alkaliphile |
29621 | positive | optimum | 7-7.2 |
Physiology and metabolism
oxygen tolerance
- @ref: 29621
- oxygen tolerance: aerobe
halophily
@ref | salt | growth | tested relation | concentration |
---|---|---|---|---|
29621 | NaCl | positive | growth | 0-5 % |
29621 | NaCl | positive | optimum | 0-5 % |
murein
- @ref: 16249
- murein short key: A11.28
- type: A3alpha L-Lys-L-Thr-L-Ala3
observation
@ref | observation |
---|---|
29621 | aggregates in chains |
67770 | quinones: MK-9(H2), MK-8(H2), MK-10(H2) |
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
29621 | 22599 | arabinose | + | carbon source |
29621 | 17234 | glucose | + | carbon source |
29621 | 17716 | lactose | + | carbon source |
29621 | 17306 | maltose | + | carbon source |
29621 | 29864 | mannitol | + | carbon source |
29621 | 37684 | mannose | + | carbon source |
29621 | 4853 | esculin | + | hydrolysis |
enzymes
- @ref: 29621
- value: catalase
- activity: +
- ec: 1.11.1.6
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent |
---|---|---|---|---|---|
16249 | alpine soil, north slope, 2300 m above sea level | Hohe Tauern, Grossglockner area, Fuschertörl | Austria | AUT | Europe |
67770 | Alpine soil in Fuschertörl | Hohe Tauern | Austria | AUT | Europe |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Environmental | #Terrestrial | #Soil |
#Climate | #Cold | #Alpine |
taxonmaps
- @ref: 69479
- File name: preview.99_1334.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_9;96_773;97_901;98_1057;99_1334&stattab=map
- Last taxonomy: Arthrobacter
- 16S sequence: GQ227413
- Sequence Identity:
- Total samples: 3496
- soil counts: 1504
- aquatic counts: 494
- animal counts: 1120
- plant counts: 378
Safety information
risk assessment
- @ref: 16249
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 16249
- description: Arthrobacter alpinus strain S6-3 16S ribosomal RNA gene, partial sequence
- accession: GQ227413
- length: 1530
- database: ena
- NCBI tax ID: 656366
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Arthrobacter alpinus strain DSM 22274 | 656366.8 | wgs | patric | 656366 |
66792 | Arthrobacter alpinus DSM 22274 | 2634166197 | draft | img | 656366 |
67770 | Arthrobacter alpinus DSM 22274 | GCA_900105965 | contig | ncbi | 656366 |
GC content
@ref | GC-content | method |
---|---|---|
16249 | 61.9 | thermal denaturation, midpoint method (Tm) |
29621 | 61.9 | |
67770 | 60.6 | genome sequence analysis |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
gram-positive | yes | 93.707 | no |
anaerobic | no | 99.741 | yes |
halophile | no | 84.146 | no |
spore-forming | no | 86.367 | no |
glucose-util | yes | 88.976 | yes |
thermophile | no | 99.52 | yes |
flagellated | no | 95.992 | yes |
motile | no | 94.013 | no |
aerobic | yes | 96.316 | yes |
glucose-ferment | no | 77.352 | no |
External links
@ref: 16249
culture collection no.: DSM 22274, CGMCC 1.8950, JCM 17736
straininfo link
- @ref: 77069
- straininfo: 370639
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 19880631 | Arthrobacter alpinus sp. nov., a psychrophilic bacterium isolated from alpine soil. | Zhang DC, Schumann P, Liu HC, Xin YH, Zhou YG, Schinner F, Margesin R | Int J Syst Evol Microbiol | 10.1099/ijs.0.017178-0 | 2009 | Arthrobacter/*classification/genetics/*isolation & purification/metabolism, Cold Temperature, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/metabolism, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, *Soil Microbiology | Metabolism |
Phylogeny | 30482657 | Genetic diversity of glacier-inhabiting Cryobacterium bacteria in China and description of Cryobacterium zongtaii sp. nov. and Arthrobacter glacialis sp. nov. | Liu Q, Liu HC, Zhou YG, Xin YH | Syst Appl Microbiol | 10.1016/j.syapm.2018.10.005 | 2018 | Actinomycetales/*classification/isolation & purification, Arthrobacter/*classification/isolation & purification, Bacterial Typing Techniques, China, DNA, Bacterial, Fatty Acids/chemistry, Genes, Bacterial, Genetic Variation, Ice Cover/*microbiology, Multilocus Sequence Typing, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S, Sequence Analysis, DNA, Vitamin K 2/chemistry | Enzymology |
Reference
@id | authors | catalogue | doi/url | title | ID_cross_reference | pubmed | journal |
---|---|---|---|---|---|---|---|
16249 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 22274) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-22274 | ||||
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 | ||||
29621 | Barberan A, Caceres Velazquez H, Jones S, Fierer N. | 10.1128/mSphere.00237-17 | Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information | 26011 | 28776041 | ||
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) | ||||
66794 | Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg | 10.1093/nar/gkaa1025 | BRENDA, the ELIXIR core data resource in 2021: new developments and updates | 33211880 | Nucleic Acids Res. 49: D498-D508 2020 | ||
67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | |||||
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 | ||||
77069 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID370639.1 | StrainInfo: A central database for resolving microbial strain identifiers |