Strain identifier
BacDive ID: 130341
Type strain:
Species: Geodermatophilus sp.
Strain Designation: AA-682
Strain history: <- P. Hirsch, Univ. Kiel; AA-682
NCBI tax ID(s): 52020 (species)
General
@ref: 21599
BacDive-ID: 130341
DSM-Number: 44400
keywords: genome sequence, Bacteria, psychrophilic, Gram-positive
description: Geodermatophilus sp. AA-682 is a psychrophilic, Gram-positive bacterium that was isolated from yellow mineral powder in sphaerical sandstone concretion found on Linnaeus Terrace.
NCBI tax id
- NCBI tax id: 52020
- Matching level: species
strain history
- @ref: 21599
- history: <- P. Hirsch, Univ. Kiel; AA-682
doi: 10.13145/bacdive130341.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/actinomycetota
- domain: Bacteria
- phylum: Actinomycetota
- class: Actinomycetes
- order: Geodermatophilales
- family: Geodermatophilaceae
- genus: Geodermatophilus
- species: Geodermatophilus sp.
- full scientific name: Geodermatophilus Luedemann 1968 (Approved Lists 1980)
synonyms
@ref synonym 20215 Pleomorpha 20215 Petropleomorpha
@ref: 21599
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Geodermatophilaceae
genus: Geodermatophilus
species: Geodermatophilus sp.
full scientific name: Geodermatophilus sp.
strain designation: AA-682
type strain: no
Morphology
cell morphology
- @ref: 69480
- gram stain: positive
- confidence: 100
multimedia
@ref | multimedia content | caption | intellectual property rights |
---|---|---|---|
66793 | EM_DSM_44400_1.jpg | electron microscopic image | © HZI/Manfred Rohde |
66793 | EM_DSM_44400_2.jpg | electron microscopic image | © HZI/Manfred Rohde |
66793 | EM_DSM_44400_3.jpg | electron microscopic image | © HZI/Manfred Rohde |
66793 | EM_DSM_44400_4.jpg | electron microscopic image | © HZI/Manfred Rohde |
66793 | EM_DSM_44400_5.jpg | electron microscopic image | © HZI/Manfred Rohde |
Culture and growth conditions
culture medium
- @ref: 21599
- name: PYGV AGAR (DSMZ Medium 621)
- growth: yes
- link: https://mediadive.dsmz.de/medium/621
- composition: Name: PYGV AGAR (DSMZ Medium 621) Composition: Agar 15.0 g/l MgSO4 x 7 H2O 0.625264 g/l Glucose 0.25 g/l Peptone 0.25 g/l Yeast extract 0.25 g/l Nitrilotriacetic acid 0.210526 g/l CaCl2 x 2 H2O 0.0703158 g/l FeSO4 x 7 H2O 0.00208422 g/l Na2MoO4 x 2 H2O 0.000266736 g/l Pyridoxine hydrochloride 0.0001 g/l p-Aminobenzoic acid 5e-05 g/l D-Calcium pantothenate 5e-05 g/l Nicotinamide 5e-05 g/l Thiamine-HCl x 2 H2O 5e-05 g/l Riboflavine 5e-05 g/l Folic acid 2e-05 g/l Biotin 2e-05 g/l Vitamin B12 1e-06 g/l Metall salt sol. 44 Distilled water
culture temp
- @ref: 21599
- growth: positive
- type: growth
- temperature: 15
- range: psychrophilic
Physiology and metabolism
spore formation
- @ref: 69480
- spore formation: no
- confidence: 99.874
Isolation, sampling and environmental information
isolation
- @ref: 21599
- sample type: yellow mineral powder in sphaerical sandstone concretion found on Linnaeus Terrace
- continent: Australia and Oceania
isolation source categories
- Cat1: #Environmental
- Cat2: #Terrestrial
Sequence information
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Modestobacter sp. DSM 44400 | GCA_900107175 | scaffold | ncbi | 1550230 |
66792 | Modestobacter sp. DSM 44400 | 1550230.4 | wgs | patric | 1550230 |
66792 | Modestobacter sp. DSM 44400 | 2599185197 | draft | img | 1550230 |
GC content
- @ref: 21599
- GC-content: 69.6
- method: thermal denaturation, midpoint method (Tm)
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | yes | 71 | no |
motile | yes | 69.862 | no |
glucose-ferment | no | 90.769 | no |
flagellated | no | 90.969 | no |
gram-positive | yes | 89.654 | no |
anaerobic | no | 98.016 | no |
aerobic | yes | 91.401 | no |
halophile | no | 93.441 | no |
spore-forming | no | 64.882 | no |
thermophile | no | 96.768 | yes |
glucose-util | yes | 87.739 | no |
External links
@ref: 21599
culture collection no.: DSM 44400, IFAM AA-682
straininfo link
- @ref: 88873
- straininfo: 401249
Reference
@id | authors | title | doi/url | catalogue | journal | 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 | |||
21599 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-44400 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 44400) | |||
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 | |||
66793 | Mukherjee et al. | GEBA: 1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life | 10.1038/nbt.3886 | 35: 676-683 2017 | 28604660 | |
69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | https://diaspora-project.de/progress.html#genomes | |||
88873 | 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-ID401249.1 |