Strain identifier
BacDive ID: 11376
Type strain: 
Species: Glaciimonas immobilis
Strain Designation: Cr9-30
Strain history: R. Margesin, Inst. Microbiology, Univ. Innsbruck, Austria; Cr9-30
NCBI tax ID(s): 728004 (species)
version 8.1 (current version)
General
@ref: 16705
BacDive-ID: 11376
DSM-Number: 23240
keywords: genome sequence, 16S sequence, Bacteria, psychrophilic, Gram-negative
description: Glaciimonas immobilis Cr9-30 is a psychrophilic, Gram-negative bacterium that was isolated from glacier cryoconite.
NCBI tax id
- NCBI tax id: 728004
- Matching level: species
strain history
| @ref | history |
|---|---|
| 16705 | <- R. Margesin, Inst. Microbiology, Univ. Innsbruck, Austria; Cr9-30 |
| 67772 | R. Margesin, Inst. Microbiology, Univ. Innsbruck, Austria; Cr9-30 |
doi: 10.13145/bacdive11376.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Betaproteobacteria
- order: Burkholderiales
- family: Oxalobacteraceae
- genus: Glaciimonas
- species: Glaciimonas immobilis
- full scientific name: Glaciimonas immobilis Zhang et al. 2011
@ref: 16705
domain: Bacteria
phylum: Proteobacteria
class: Betaproteobacteria
order: Burkholderiales
family: Oxalobacteraceae
genus: Glaciimonas
species: Glaciimonas immobilis
full scientific name: Glaciimonas immobilis Zhang et al. 2011
strain designation: Cr9-30
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: negative
- confidence: 99.999
multimedia
- @ref: 16705
- multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_23240.jpg
- intellectual property rights: © Leibniz-Institut DSMZ
Culture and growth conditions
culture medium
- @ref: 16705
- name: R2A MEDIUM (DSMZ Medium 830)
- growth: yes
- link: https://mediadive.dsmz.de/medium/830
- composition: 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
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 16705 | positive | growth | 1-20 | psychrophilic |
| 67772 | positive | minimum | 1 | psychrophilic |
| 67772 | positive | optimum | 10 | psychrophilic |
| 67772 | positive | maximum | 20 | psychrophilic |
culture pH
| @ref | ability | type | pH |
|---|---|---|---|
| 67772 | positive | maximum | 8.0 |
| 67772 | positive | minimum | 6.0 |
Physiology and metabolism
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | no | 100 |
| 69480 | no | 99.996 |
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent | sampling date |
|---|---|---|---|---|---|---|
| 16705 | glacier cryoconite | Tyrol, Oetztaler Alps, Tiefenbachferner glacier | Austria | AUT | Europe | |
| 67772 | Alpine glacier (Tiefenbachferner glacier) cryoconite | Tyrol, Ötztal | Austria | AUT | Europe | 2006 |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Environmental | #Terrestrial | #Glacier |
| #Environmental | #Terrestrial | #Geologic |
| #Condition | #Psychrophilic (<10°C) |
taxonmaps
- @ref: 69479
- File name: preview.99_41699.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_12;96_9781;97_11787;98_14482;99_41699&stattab=map
- Last taxonomy: Glaciimonas immobilis
- 16S sequence: GU441679
- Sequence Identity:
- Total samples: 733
- soil counts: 271
- aquatic counts: 167
- animal counts: 166
- plant counts: 129
Safety information
risk assessment
| @ref | biosafety level | biosafety level comment |
|---|---|---|
| 16705 | 1 | Risk group (German classification) |
| 67772 | 1 |
Sequence information
16S sequences
- @ref: 16705
- description: Glaciimonas immobilis strain Cr9-30 16S ribosomal RNA gene, partial sequence
- accession: GU441679
- length: 1525
- database: ena
- NCBI tax ID: 728004
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Glaciimonas immobilis DSM 23240 | GCA_011947285 | scaffold | ncbi | 728004 |
| 66792 | Glaciimonas immobilis DSM 23240 | GCA_014202815 | scaffold | ncbi | 728004 |
| 66792 | Glaciimonas immobilis strain DSM 23240 | 728004.4 | wgs | patric | 728004 |
| 66792 | Glaciimonas immobilis strain DSM 23240 | 728004.5 | wgs | patric | 728004 |
| 66792 | Glaciimonas immobilis DSM 23240 | 2861618822 | draft | img | 728004 |
GC content
- @ref: 16705
- GC-content: 51.0
- method: high performance liquid chromatography (HPLC)
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 100 | no |
| motile | no | 52.146 | no |
| flagellated | no | 83.791 | no |
| gram-positive | no | 98.757 | no |
| anaerobic | no | 99.195 | no |
| aerobic | yes | 92.285 | no |
| halophile | no | 94.314 | no |
| spore-forming | no | 91.945 | no |
| thermophile | no | 99.382 | yes |
| glucose-util | yes | 80.941 | no |
| glucose-ferment | no | 88.734 | no |
External links
@ref: 16705
culture collection no.: DSM 23240, LMG 25547, UCCCB32
straininfo link
- @ref: 80606
- straininfo: 368629
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 20935085 | Glaciimonas immobilis gen. nov., sp. nov., a member of the family Oxalobacteraceae isolated from alpine glacier cryoconite. | Zhang DC, Redzic M, Schinner F, Margesin R | Int J Syst Evol Microbiol | 10.1099/ijs.0.028001-0 | 2010 | Bacterial Typing Techniques, Base Composition, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Ice Cover/*microbiology, Molecular Sequence Data, Oxalobacteraceae/*classification/genetics/*isolation & purification/physiology, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Temperature | Genetics |
| Phylogeny | 23178726 | Glaciimonas singularis sp. nov., isolated from a uranium mine wastewater treatment plant. | Chung AP, Tiago I, Nobre MF, Verissimo A, Morais PV | Int J Syst Evol Microbiol | 10.1099/ijs.0.046581-0 | 2012 | Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/analysis, *Mining, Molecular Sequence Data, Nucleic Acid Hybridization, Oxalobacteraceae/*classification/genetics/isolation & purification, *Phylogeny, Portugal, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Ubiquinone/analysis, Uranium, Waste Water/*microbiology, Water Microbiology | Genetics |
| Phylogeny | 26184665 | Glaciimonas alpina sp. nov. isolated from alpine glaciers and reclassification of Glaciimonas immobilis Cr9-12 as the type strain of Glaciimonas alpina sp. nov. | Frasson D, Udovicic M, Frey B, Lapanje A, Zhang DC, Margesin R, Sievers M | Int J Syst Evol Microbiol | 10.1099/ijs.0.000174 | 2015 | Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Ice Cover/*microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, Oxalobacteraceae/*classification/genetics/isolation & purification, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Switzerland, Ubiquinone/chemistry | Genetics |
Reference
| @id | authors | catalogue | doi/url | title |
|---|---|---|---|---|
| 16705 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 23240) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-23240 | |
| 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 | |
| 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) | |
| 67772 | Curators of the UCCCB | https://ucccb.uc.pt/ | ||
| 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) | |
| 69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | 10.21203/rs.3.rs-2527258/v1 | Predictions based on the model GenomeNet Sporulation v. 1 | |
| 80606 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID368629.1 | StrainInfo: A central database for resolving microbial strain identifiers |