Archive BacDiveID:10.13145/bacdive130681.20230509.8.1

Strain identifier

BacDive ID: 130681

Type strain:

Species: Sphingomonas gimensis

Strain Designation: 9PNM-6

Strain history: <- G. Feng, Guangdong Inst. Microbiology, China; 9PNM-6

NCBI tax ID(s): 1141892 (species)

For citation purpose refer to the digital object identifier (doi) of the current version.

General

@ref: 21792

BacDive-ID: 130681

DSM-Number: 27569

keywords: 16S sequence, Bacteria, mesophilic

description: Sphingomonas gimensis 9PNM-6 is a mesophilic bacterium that was isolated from abandoned lead-zinc ore mine.

NCBI tax id

NCBI tax id: 1141892
Matching level: species

strain history

@ref: 21792
history: <- G. Feng, Guangdong Inst. Microbiology, China; 9PNM-6

doi: 10.13145/bacdive130681.20230509.8.1

Name and taxonomic classification

LPSN

@ref: 20215
description: domain/bacteria
keyword: phylum/pseudomonadota
domain: Bacteria
phylum: Pseudomonadota
class: Alphaproteobacteria
order: Sphingomonadales
family: Sphingomonadaceae
genus: Sphingomonas
species: Sphingomonas gimensis
full scientific name: Sphingomonas gimensis Feng et al. 2014

@ref: 21792

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Pseudomonadales

family: Sphingomonadaceae

genus: Sphingomonas

species: Sphingomonas gimensis

full scientific name: Sphingomonas gimensis Feng et al. 2014

strain designation: 9PNM-6

type strain: yes

Culture and growth conditions

culture medium

@ref: 21792
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: 21792
growth: positive
type: growth
temperature: 28
range: mesophilic

Isolation, sampling and environmental information

isolation

@ref: 21792
sample type: abandoned lead-zinc ore mine
geographic location: Guangdong Province, Meizhou, Mei County (24°21'44''N, 116°16'34''E)
country: China
origin.country: CHN
continent: Asia
latitude: 24.3622
longitude: 116.276

isolation source categories

Cat1	Cat2	Cat3
#Engineered	#Other	#Mine
#Environmental	#Terrestrial

Safety information

risk assessment

@ref: 21792
biosafety level: 1
biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@ref: 21792
description: Sphingomonas gimensis strain 9PNM-6 16S ribosomal RNA gene, partial sequence
accession: JQ608327
length: 1434
database: ena
NCBI tax ID: 1141892

GC content

@ref: 21792
GC-content: 69.2
method: high performance liquid chromatography (HPLC)

External links

@ref: 21792

culture collection no.: DSM 27569, CGMCC 1.12671, GIMCC 1.655

straininfo link

@ref: 89188
straininfo: 407556

literature

topic	Pubmed-ID	title	authors	journal	DOI	year	mesh	topic2
Phylogeny	24718620	Sphingomonas gimensis sp. nov., a novel Gram-negative bacterium isolated from abandoned lead-zinc ore mine.	Feng GD, Yang SZ, Wang YH, Zhao GZ, Deng MR, Zhu HH	Antonie Van Leeuwenhoek	10.1007/s10482-014-0167-7	2014	Bacterial Typing Techniques, Base Composition, China, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Hydrogen-Ion Concentration, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, Pigments, Biological/metabolism, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sodium Chloride/metabolism, Soil Microbiology, Sphingomonas/classification/genetics/*isolation & purification/physiology, Temperature	Genetics
Phylogeny	28853689	Sphingomonas silvisoli sp. nov., isolated from forest soil.	Ko Y, Hwang WM, Kim M, Kang K, Ahn TY	Int J Syst Evol Microbiol	10.1099/ijsem.0.002001	2017	Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Forests, Phospholipids/chemistry, Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, Soil Microbiology, Spermidine/analogs & derivatives/chemistry, Sphingomonas/classification/genetics/isolation & purification, Ubiquinone/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
21792	Curators of the DSMZ		https://www.dsmz.de/collection/catalogue/details/culture/DSM-27569	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 27569)
89188	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-ID407556.1