Strain identifier
BacDive ID: 22898
Type strain: 
Species: Granulicella arctica
Strain Designation: MP5ACTX2
Strain history: <- M. Männistö, Finnish Forest Res. Inst. (Metla), Rovaniemi; MP5ACTX2
NCBI tax ID(s): 940613 (species)
version 9.1 (current version)
General
@ref: 19167
BacDive-ID: 22898
DSM-Number: 23128
keywords: genome sequence, 16S sequence, Bacteria, aerobe, Gram-negative, rod-shaped
description: Granulicella arctica MP5ACTX2 is an aerobe, Gram-negative, rod-shaped bacterium that was isolated from tundra soil.
NCBI tax id
- NCBI tax id: 940613
- Matching level: species
strain history
- @ref: 19167
- history: <- M. Männistö, Finnish Forest Res. Inst. (Metla), Rovaniemi; MP5ACTX2
doi: 10.13145/bacdive22898.20240916.9.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/acidobacteriota
- domain: Bacteria
- phylum: Acidobacteriota
- class: Terriglobia
- order: Terriglobales
- family: Acidobacteriaceae
- genus: Granulicella
- species: Granulicella arctica
- full scientific name: Granulicella arctica Männistö et al. 2012
@ref: 19167
domain: Bacteria
phylum: Acidobacteria
class: Acidobacteriia
order: Acidobacteriales
family: Acidobacteriaceae
genus: Granulicella
species: Granulicella arctica
full scientific name: Granulicella arctica Männistö et al. 2012
strain designation: MP5ACTX2
type strain: yes
Morphology
cell morphology
| @ref | gram stain | cell length | cell width | cell shape | motility | confidence |
|---|---|---|---|---|---|---|
| 30254 | negative | 1.1 µm | 0.5 µm | rod-shaped | no | |
| 69480 | negative | 90.769 |
colony morphology
- @ref: 19167
- incubation period: 3-7 days
pigmentation
- @ref: 30254
- production: yes
Culture and growth conditions
culture medium
- @ref: 19167
- name: R2A MEDIUM (DSMZ Medium 830)
- growth: yes
- link: https://mediadive.dsmz.de/medium/830
- composition: Name: R2A MEDIUM (DSMZ Medium 830; with strain-specific modifications) Composition: Agar 5.0 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
culture temp
| @ref | growth | type | temperature |
|---|---|---|---|
| 19167 | positive | growth | 20 |
| 30254 | positive | growth | 4-28 |
| 30254 | positive | optimum | 22.5 |
culture pH
| @ref | ability | type | pH | PH range |
|---|---|---|---|---|
| 30254 | positive | growth | 3.5-6.5 | acidophile |
| 30254 | positive | optimum | 5 |
Physiology and metabolism
oxygen tolerance
- @ref: 30254
- oxygen tolerance: aerobe
halophily
- @ref: 30254
- salt: NaCl
- growth: positive
- tested relation: growth
- concentration: <1 %
metabolite utilization
| @ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
|---|---|---|---|---|
| 30254 | 17057 | cellobiose | + | carbon source |
| 30254 | 28757 | fructose | + | carbon source |
| 30254 | 28260 | galactose | + | carbon source |
| 30254 | 17234 | glucose | + | carbon source |
| 30254 | 17716 | lactose | + | carbon source |
| 30254 | 17306 | maltose | + | carbon source |
| 30254 | 37684 | mannose | + | carbon source |
| 30254 | 506227 | N-acetylglucosamine | + | carbon source |
| 30254 | 16634 | raffinose | + | carbon source |
| 30254 | 17814 | salicin | + | carbon source |
| 30254 | 17992 | sucrose | + | carbon source |
| 30254 | 27082 | trehalose | + | carbon source |
| 30254 | 18222 | xylose | + | carbon source |
| 30254 | 4853 | esculin | + | hydrolysis |
enzymes
| @ref | value | activity | ec |
|---|---|---|---|
| 30254 | acid phosphatase | + | 3.1.3.2 |
| 30254 | alkaline phosphatase | + | 3.1.3.1 |
| 30254 | alpha-galactosidase | + | 3.2.1.22 |
| 30254 | catalase | + | 1.11.1.6 |
Isolation, sampling and environmental information
isolation
- @ref: 19167
- sample type: tundra soil
- geographic location: Lapland, Kilpisjärvi
- country: Finland
- origin.country: FIN
- continent: Europe
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Environmental | #Terrestrial | #Soil |
| #Climate | #Cold | #Tundra |
| #Environmental | #Terrestrial | #Tundra |
taxonmaps
- @ref: 69479
- File name: preview.99_46086.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_236;96_882;97_3590;98_33363;99_46086&stattab=map
- Last taxonomy: Granulicella arctica
- 16S sequence: HQ687089
- Sequence Identity:
- Total samples: 10
- soil counts: 10
Safety information
risk assessment
- @ref: 19167
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 19167
- description: Granulicella arctica strain MP5ACTX2 16S ribosomal RNA gene, partial sequence
- accession: HQ687089
- length: 1490
- database: nuccore
- NCBI tax ID: 940613
Genome sequences
- @ref: 66792
- description: Granulicella arctica DSM 23128
- accession: GCA_025685605
- assembly level: contig
- database: ncbi
- NCBI tax ID: 940613
GC content
| @ref | GC-content | method |
|---|---|---|
| 19167 | 57.5 | high performance liquid chromatography (HPLC) |
| 30254 | 57.5 |
Genome-based predictions
predictions
| @ref | trait | model | description | prediction | confidence | training_data |
|---|---|---|---|---|---|---|
| 69480 | gram-positive | gram-positive | Positive reaction to Gram-staining | no | 90.769 | yes |
| 69480 | anaerobic | anaerobic | Ability to grow under anoxygenic conditions (including facultative anaerobes) | no | 94.168 | no |
| 69480 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | yes | 85.054 | yes |
| 69480 | spore-forming | spore-forming | Ability to form endo- or exospores | no | 80.463 | no |
| 69480 | thermophilic | thermophile | Ability to grow at temperatures above or equal to 45°C | no | 95.042 | yes |
| 69480 | flagellated | motile2+ | Ability to perform flagellated movement | no | 56.113 | no |
External links
@ref: 19167
culture collection no.: DSM 23128, ATCC BAA-1858
straininfo link
- @ref: 87146
- straininfo: 406335
literature
- topic: Phylogeny
- Pubmed-ID: 22058325
- title: Granulicella arctica sp. nov., Granulicella mallensis sp. nov., Granulicella tundricola sp. nov. and Granulicella sapmiensis sp. nov., novel acidobacteria from tundra soil.
- authors: Mannisto MK, Rawat S, Starovoytov V, Haggblom MM
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.031864-0
- year: 2011
- mesh: Acidobacteria/*classification/genetics/isolation & purification, Arctic Regions, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, DNA-Directed RNA Polymerases/genetics, Fatty Acids/analysis, Finland, Molecular Sequence Data, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Soil, *Soil Microbiology
- topic2: Genetics
Reference
| @id | authors | catalogue | doi/url | title | ID_cross_reference | pubmed |
|---|---|---|---|---|---|---|
| 19167 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 23128) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-23128 | |||
| 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 | |||
| 30254 | 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 | 26596 | 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) | |||
| 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) | |||
| 87146 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID406335.1 | StrainInfo: A central database for resolving microbial strain identifiers |