Strain identifier
BacDive ID: 140090
Type strain: 
Species: Methylobrevis pamukkalensis
Strain Designation: PK2
Strain history: N. V. Doronina; G. K. Skryabin Inst. of Biochem. & Physiol. of Microorg., RAS, Russia; PK2.
NCBI tax ID(s): 1439726 (species)
version 8.1 (current version)
General
@ref: 42697
BacDive-ID: 140090
DSM-Number: 29599
keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic
description: Methylobrevis pamukkalensis PK2 is an aerobe, mesophilic bacterium that was isolated from water of a saline hotspring.
NCBI tax id
- NCBI tax id: 1439726
- Matching level: species
strain history
| @ref | history |
|---|---|
| 42697 | <- N. V. Doronina, Inst. Biochem. Physiol. Microorg., RAS, Pushchino, Russia; PK2 |
| 67770 | N. V. Doronina; G. K. Skryabin Inst. of Biochem. & Physiol. of Microorg., RAS, Russia; PK2. |
doi: 10.13145/bacdive140090.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Alphaproteobacteria
- order: Hyphomicrobiales
- family: Pleomorphomonadaceae
- genus: Methylobrevis
- species: Methylobrevis pamukkalensis
- full scientific name: Methylobrevis pamukkalensis Poroshina et al. 2015
@ref: 42697
domain: Bacteria
phylum: Proteobacteria
class: Alphaproteobacteria
order: Hyphomicrobiales
family: Pleomorphomonadaceae
genus: Methylobrevis
species: Methylobrevis pamukkalensis
full scientific name: Methylobrevis pamukkalensis Poroshina et al. 2015
strain designation: PK2
type strain: yes
Morphology
colony morphology
- @ref: 63223
- incubation period: 5 days
Culture and growth conditions
culture medium
- @ref: 42697
- name: MEDIUM K (DSMZ Medium 1122)
- growth: yes
- link: https://mediadive.dsmz.de/medium/1122
- composition: Name: MEDIUM K (DSMZ Medium 1122) Composition: Agar 20.0 g/l KH2PO4 2.0 g/l (NH4)2SO4 2.0 g/l NaCl 0.5 g/l MgSO4 x 7 H2O 0.125 g/l FeSO4 x 7 H2O 0.002 g/l Methanol Distilled water
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 63223 | positive | growth | 30 | mesophilic |
| 42697 | positive | growth | 28 | mesophilic |
| 67770 | positive | growth | 30 | mesophilic |
Physiology and metabolism
oxygen tolerance
- @ref: 63223
- oxygen tolerance: aerobe
observation
- @ref: 67770
- observation: quinones: Q-10
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent | sampling date |
|---|---|---|---|---|---|---|
| 42697 | water of a saline hotspring | Denizli, Hierapolis, Pamukkale | Turkey | TUR | Asia | |
| 63223 | Saline water | Pamukkale | Turkey | TUR | Asia | 2011-10-15 |
| 67770 | Saline hot spring of the Pamukkale | Hierapolis, Denizli | Turkey | TUR | Asia |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Condition | #Saline | |
| #Condition | #Thermophilic (>45°C) | |
| #Environmental | #Aquatic | #Thermal spring |
taxonmaps
- @ref: 69479
- File name: preview.99_61851.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_5;96_15595;97_34065;98_43870;99_61851&stattab=map
- Last taxonomy: Methylobrevis pamukkalensis subclade
- 16S sequence: KF683074
- Sequence Identity:
- Total samples: 1118
- soil counts: 403
- aquatic counts: 337
- animal counts: 299
- plant counts: 79
Safety information
risk assessment
- @ref: 42697
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 42697
- description: Methylobrevis pamukkalensis strain PK2 16S ribosomal RNA gene, partial sequence
- accession: KF683074
- length: 1367
- database: ena
- NCBI tax ID: 1439726
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Methylobrevis pamukkalensis PK2 | GCA_001720135 | contig | ncbi | 1439726 |
| 66792 | Methylobrevis pamukkalensis PK2 | 2786546839 | draft | img | 1439726 |
GC content
- @ref: 42697
- GC-content: 67.9
- method: thermal denaturation, midpoint method (Tm)
External links
@ref: 42697
culture collection no.: DSM 29599, JCM 30229, VKM B-2849, CCUG 65431
straininfo link
| @ref | straininfo |
|---|---|
| 96502 | 397290 |
| 96503 | 410101 |
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 25667389 | Methylobrevis pamukkalensis gen. nov., sp. nov., a halotolerant restricted facultative methylotroph isolated from saline water. | Poroshina MN, Trotsenko YA, Doronina NV | Int J Syst Evol Microbiol | 10.1099/ijs.0.000105 | 2015 | Alphaproteobacteria/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Hot Springs/*microbiology, Hydroxybutyrates/chemistry, Molecular Sequence Data, Phospholipids/chemistry, *Phylogeny, Polyesters/chemistry, RNA, Ribosomal, 16S/genetics, Salinity, Sequence Analysis, DNA, Turkey, Ubiquinone/chemistry | Genetics |
| Phylogeny | 34152426 | Methylobrevis albus sp. nov., isolated from freshwater lake sediment. | Zou QH, Feng X, Wang TJ, Du ZJ | Arch Microbiol | 10.1007/s00203-021-02442-z | 2021 | *Alphaproteobacteria/classification/genetics, China, Fatty Acids/analysis, *Geologic Sediments/microbiology, *Lakes, Phospholipids/analysis, Phylogeny, RNA, Ribosomal, 16S/genetics, Species Specificity |
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 | |||
| 42697 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-29599 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 29599) | |||
| 63223 | Curators of the CCUG | https://www.ccug.se/strain?id=65431 | Culture Collection University of Gothenburg (CCUG) (CCUG 65431) | |||
| 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 | |||
| 66794 | Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg | BRENDA, the ELIXIR core data resource in 2021: new developments and updates | 10.1093/nar/gkaa1025 | Nucleic Acids Res. 49: D498-D508 2020 | 33211880 | |
| 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. | MicrobeAtlas 1.0 beta | https://microbeatlas.org/ | |||
| 96502 | 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-ID397290.1 | |||
| 96503 | 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-ID410101.1 |