Strain identifier
BacDive ID: 132227
Type strain: 
Species: Pedococcus soli
Strain Designation: THG-a14
Strain history: T.-H. Yi THG-a14.
NCBI tax ID(s): 1456769 (species)
version 8.1 (current version)
General
@ref: 24016
BacDive-ID: 132227
DSM-Number: 103360
keywords: 16S sequence, Bacteria, mesophilic
description: Pedococcus soli THG-a14 is a mesophilic bacterium that was isolated from soil of Gyeyang mountain.
NCBI tax id
- NCBI tax id: 1456769
- Matching level: species
strain history
| @ref | history |
|---|---|
| 24016 | <- JCM, Japan Collection of Microorganisms, RIKEN BioResource Center, Tsukuba, Japan; JCM 19837 <-T.H. Yi, Kyung Hee University, Repuplic of Korea; THG-a14 |
| 67770 | T.-H. Yi THG-a14. |
doi: 10.13145/bacdive132227.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/actinomycetota
- domain: Bacteria
- phylum: Actinomycetota
- class: Actinomycetes
- order: Micrococcales
- family: Intrasporangiaceae
- genus: Pedococcus
- species: Pedococcus soli
- full scientific name: Pedococcus soli (Singh et al. 2015) Nouioui et al. 2018
synonyms
- @ref: 20215
- synonym: Phycicoccus soli
@ref: 24016
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Intrasporangiaceae
genus: Pedococcus
species: Pedococcus soli
full scientific name: Pedococcus soli (Singh et al. 2015) Nouioui et al. 2018
strain designation: THG-a14
type strain: yes
Culture and growth conditions
culture medium
- @ref: 24016
- 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 |
|---|---|---|---|---|
| 24016 | positive | growth | 28 | mesophilic |
| 67770 | positive | growth | 28 | mesophilic |
Physiology and metabolism
observation
- @ref: 67770
- observation: quinones: MK-8(H4)
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent |
|---|---|---|---|---|---|
| 24016 | soil of Gyeyang mountain | Incheon | Republic of Korea | KOR | Asia |
| 67770 | Soil of Gyeyang mountain | Incheon | Republic of Korea | KOR | Asia |
isolation source categories
- Cat1: #Environmental
- Cat2: #Terrestrial
- Cat3: #Soil
taxonmaps
- @ref: 69479
- File name: preview.99_1147.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_9;96_670;97_776;98_900;99_1147&stattab=map
- Last taxonomy: Pedococcus
- 16S sequence: KF999706
- Sequence Identity:
- Total samples: 1420
- soil counts: 883
- aquatic counts: 102
- animal counts: 351
- plant counts: 84
Safety information
risk assessment
- @ref: 24016
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 24016
- description: Phycicoccus soli strain THG-a14 16S ribosomal RNA gene, partial sequence
- accession: KF999706
- length: 1405
- database: ena
- NCBI tax ID: 1456769
GC content
| @ref | GC-content | method |
|---|---|---|
| 24016 | 71.6 | |
| 67770 | 71.6 | high performance liquid chromatography (HPLC) |
External links
@ref: 24016
culture collection no.: DSM 103360, JCM 19837, KACC 17892
straininfo link
- @ref: 90577
- straininfo: 400907
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 25872959 | Phycicoccus soli sp. nov., isolated from soil. | Singh H, Won K, Ngo HTT, Du J, Kook M, Yi TH | Int J Syst Evol Microbiol | 10.1099/ijs.0.000265 | 2015 | Actinomycetales/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Molecular Sequence Data, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/analogs & derivatives/chemistry | Genetics |
| Phylogeny | 27666743 | Phycicoccus ginsengisoli sp. nov., isolated from cultivated ginseng soil. | Kang JP, Kim YJ, Nguyen NL, Hoang VA, Farh ME, Joo SC, Quan LH, Yang DC | Int J Syst Evol Microbiol | 10.1099/ijsem.0.001515 | 2016 | Actinomycetales/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Nucleic Acid Hybridization, Panax/*microbiology, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/analogs & derivatives/chemistry | Transcriptome |
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 | |
| 24016 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-103360 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 103360) | |
| 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/ | |
| 90577 | 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-ID400907.1 |