Strain identifier
BacDive ID: 140252
Type strain:
Species: Advenella kashmirensis subsp. methylica
Strain Designation: PK1
Strain history: <- N. V. Doronina, Inst. Biochem. Physiol. Microorg., RAS, Pushchino, Russia; PK1
NCBI tax ID(s): 1439717 (subspecies)
General
@ref: 42859
BacDive-ID: 140252
DSM-Number: 27514
keywords: 16S sequence, Bacteria, mesophilic
description: Advenella kashmirensis subsp. methylica PK1 is a mesophilic bacterium that was isolated from root of Carex L. sp..
NCBI tax id
- NCBI tax id: 1439717
- Matching level: subspecies
strain history
- @ref: 42859
- history: <- N. V. Doronina, Inst. Biochem. Physiol. Microorg., RAS, Pushchino, Russia; PK1
doi: 10.13145/bacdive140252.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Betaproteobacteria
- order: Burkholderiales
- family: Alcaligenaceae
- genus: Advenella
- species: Advenella kashmirensis subsp. methylica
- full scientific name: Advenella kashmirensis subsp. methylica Shmareva et al. 2017
@ref: 42859
domain: Bacteria
phylum: Proteobacteria
class: Betaproteobacteria
order: Burkholderiales
family: Alcaligenaceae
genus: Advenella
species: Advenella kashmirensis subsp. methylica
full scientific name: Advenella kashmirensis subsp. methylica Shmareva et al. 2017
strain designation: PK1
type strain: yes
Culture and growth conditions
culture medium
- @ref: 42859
- name: TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)
- growth: yes
- link: https://mediadive.dsmz.de/medium/92
- composition: Name: TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Yeast extract 3.0 g/l Distilled water
culture temp
- @ref: 42859
- growth: positive
- type: growth
- temperature: 30
- range: mesophilic
Physiology and metabolism
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
68369 | 25115 | malate | + | assimilation |
68369 | 17128 | adipate | + | assimilation |
68369 | 24265 | gluconate | + | assimilation |
68369 | 17306 | maltose | - | assimilation |
68369 | 59640 | N-acetylglucosamine | - | assimilation |
68369 | 16899 | D-mannitol | - | assimilation |
68369 | 30849 | L-arabinose | + | assimilation |
68369 | 17634 | D-glucose | + | assimilation |
68369 | 5291 | gelatin | - | hydrolysis |
68369 | 4853 | esculin | - | hydrolysis |
68369 | 16199 | urea | + | hydrolysis |
68369 | 29016 | arginine | - | hydrolysis |
68369 | 17634 | D-glucose | - | fermentation |
68369 | 27897 | tryptophan | - | energy source |
68369 | 17632 | nitrate | - | reduction |
metabolite production
- @ref: 68369
- Chebi-ID: 35581
- metabolite: indole
- production: no
metabolite tests
- @ref: 68369
- Chebi-ID: 35581
- metabolite: indole
- indole test: -
enzymes
@ref | value | activity | ec |
---|---|---|---|
68369 | gelatinase | - | |
68369 | beta-glucosidase | - | 3.2.1.21 |
68369 | urease | + | 3.5.1.5 |
68369 | arginine dihydrolase | - | 3.5.3.6 |
API 20NE
@ref | NO3 | TRP | GLU_ Ferm | ADH Arg | URE | ESC | GEL | PNPG | GLU_ Assim | ARA | MNE | MAN | NAG | MAL | GNT | CAP | ADI | MLT | CIT | PAC |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
42859 | - | - | - | - | + | - | - | - | + | + | +/- | - | - | - | + | +/- | + | + | + | - |
Isolation, sampling and environmental information
isolation
- @ref: 42859
- sample type: root of Carex L. sp.
- host species: Carex
- geographic location: Pamukkale
- country: Turkey
- origin.country: TUR
- continent: Asia
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Host | #Plants | #Herbaceous plants (Grass,Crops) |
#Host Body-Site | #Plant | #Root (Rhizome) |
taxonmaps
- @ref: 69479
- File name: preview.99_1770.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_7;96_1003;97_1169;98_1397;99_1770&stattab=map
- Last taxonomy: Advenella
- 16S sequence: KF683075
- Sequence Identity:
- Total samples: 2457
- soil counts: 822
- aquatic counts: 378
- animal counts: 766
- plant counts: 491
Safety information
risk assessment
- @ref: 42859
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 42859
- description: Advenella kashmirensis subsp. methylica strain PK1 16S ribosomal RNA gene, partial sequence
- accession: KF683075
- length: 1415
- database: ena
- NCBI tax ID: 1439717
External links
@ref: 42859
culture collection no.: DSM 27514, VKM B-2850
straininfo link
- @ref: 96560
- straininfo: 398117
literature
- topic: Phylogeny
- Pubmed-ID: 25916151
- title: [Advenella kashmirensis subsp. methylica PK1, a facultative methylotroph from carex rhizosphere].
- authors: Poroshina MN, Doronina NV, Kaparullina EN, Trotsenko IuA
- journal: Mikrobiologiia
- year: 2015
- mesh: Alcaligenaceae/*classification/genetics/isolation & purification/*metabolism, Bacterial Typing Techniques, Base Composition, Cyperus/microbiology, DNA, Bacterial/chemistry/*genetics, Fatty Acids/metabolism, Hydrogen-Ion Concentration, Metabolic Networks and Pathways, Methanol/metabolism, Methylobacterium/*classification/genetics/isolation & purification/*metabolism, Phospholipids/metabolism, *Phylogeny, RNA, Ribosomal, 16S/chemistry/*genetics, Rhizosphere, Sequence Analysis, DNA, Temperature, Turkey
- topic2: Metabolism
Reference
@id | authors | title | doi/url | catalogue |
---|---|---|---|---|
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 | |
42859 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-27514 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 27514) | |
68369 | Automatically annotated from API 20NE | |||
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/ | |
96560 | 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-ID398117.1 |