Archive BacDiveID:10.13145/bacdive23458.20230509.8.1

Strain identifier

BacDive ID: 23458

Type strain:

Species: Oligosphaera ethanolica

Strain Designation: 8KG-4

Strain history: Y.-L. Qiu and Y. Sekiguchi 8KG-4.

NCBI tax ID(s): 760260 (species)

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

General

@ref: 19258

BacDive-ID: 23458

DSM-Number: 24202

keywords: genome sequence, 16S sequence, Bacteria, anaerobe, mesophilic, Gram-negative, coccus-shaped

description: Oligosphaera ethanolica 8KG-4 is an anaerobe, mesophilic, Gram-negative bacterium that was isolated from methanogenic, mesophilic granular sludge from a reactor treating wastewater from salted vegetable production processes.

NCBI tax id

NCBI tax id: 760260
Matching level: species

strain history

@ref	history
19258	<- Q. Yan-ling, Qingdao Institute of Bioenergy & Bioprocess Technology, Chinese Academy of Sciences (CAS), Qingdao; 8KG-4 <- Q. Yan-ling {2010}
67770	Y.-L. Qiu and Y. Sekiguchi 8KG-4.

doi: 10.13145/bacdive23458.20230509.8.1

Name and taxonomic classification

LPSN

@ref: 20215
description: domain/bacteria
keyword: phylum/lentisphaerota
domain: Bacteria
phylum: Lentisphaerota
class: Oligosphaeria
order: Oligosphaerales
family: Oligosphaeraceae
genus: Oligosphaera
species: Oligosphaera ethanolica
full scientific name: Oligosphaera ethanolica Qiu et al. 2013

@ref: 19258

domain: Bacteria

phylum: Lentisphaerae

class: Oligosphaeria

order: Oligosphaerales

family: Oligosphaeraceae

genus: Oligosphaera

species: Oligosphaera ethanolica

full scientific name: Oligosphaera ethanolica Qiu et al. 2013

strain designation: 8KG-4

type strain: yes

Morphology

cell morphology

@ref: 30595
gram stain: negative
cell length: 1 µm
cell width: 1 µm
cell shape: coccus-shaped
motility: no

colony morphology

@ref: 19258
incubation period: 8-14 days

pigmentation

@ref: 30595
production: yes

Culture and growth conditions

culture medium

@ref: 19258
name: PELOTOMACULUM MEDIUM (DSMZ Medium 960)
growth: yes
link: https://mediadive.dsmz.de/medium/960
composition: Name: PELOTOMACULUM MEDIUM (DSMZ Medium 960; with strain-specific modifications) Composition: Na2CO3 1.49701 g/l NH4Cl 0.538922 g/l Na2S x 9 H2O 0.299401 g/l L-Cysteine HCl x H2O 0.299401 g/l MgCl2 x 6 H2O 0.199601 g/l D-Glucose 0.179641 g/l KH2PO4 0.139721 g/l Nitrilotriacetic acid 0.0127745 g/l FeCl2 x 4 H2O 0.000998004 g/l NaCl 0.000998004 g/l Sodium resazurin 0.000499002 g/l ZnCl2 9.98004e-05 g/l MnCl2 x 4 H2O 9.98004e-05 g/l NiCl2 x 6 H2O 9.98004e-05 g/l CaCl2 x 2 H2O 9.98004e-05 g/l Pyridoxine hydrochloride 9.98004e-05 g/l p-Aminobenzoic acid 4.99002e-05 g/l Calcium D-(+)-pantothenate 4.99002e-05 g/l (DL)-alpha-Lipoic acid 4.99002e-05 g/l Thiamine HCl 4.99002e-05 g/l Riboflavin 4.99002e-05 g/l Nicotinic acid 4.99002e-05 g/l Na2WO4 x 2 H2O 3.99202e-05 g/l CoCl2 x 6 H2O 2.99401e-05 g/l Na2MoO4 x 2 H2O 2.99401e-05 g/l Na2SeO3 x 5 H2O 2.99401e-05 g/l CuCl2 1.99601e-05 g/l Biotin 1.99601e-05 g/l Folic acid 1.99601e-05 g/l H3BO3 9.98004e-06 g/l Vitamin B12 9.98004e-07 g/l Distilled water

culture temp

@ref	growth	type	temperature	range
19258	positive	growth	37	mesophilic
30595	positive	growth	25-40
30595	positive	optimum	37	mesophilic
67770	positive	growth	37	mesophilic

culture pH

@ref	ability	type	pH
30595	positive	growth	6.5-7.5
30595	positive	optimum	7

Physiology and metabolism

oxygen tolerance

@ref	oxygen tolerance
19258	anaerobe
30595	anaerobe

spore formation

@ref: 30595
spore formation: no

halophily

@ref: 30595
salt: NaCl
growth: positive
tested relation: growth
concentration: 0-1 %

metabolite utilization

@ref	Chebi-ID	metabolite	utilization activity	kind of utilization tested
30595	28260	galactose	+	carbon source
30595	17234	glucose	+	carbon source
30595	33942	ribose	+	carbon source
30595	17992	sucrose	+	carbon source
30595	18222	xylose	+	carbon source

Isolation, sampling and environmental information

isolation

@ref	sample type	geographic location	country	origin.country	continent
19258	methanogenic, mesophilic granular sludge from a reactor treating wastewater from salted vegetable production processes	Tokyo	Japan	JPN	Asia
67770	Upflow anaerobic sludge blanket reactor treating high-strength organic wastewater from salted vegetable production processes

isolation source categories

Cat1	Cat2	Cat3
#Engineered	#Food production
#Engineered	#Waste	#Activated sludge
#Condition	#Anoxic (anaerobic)
#Condition	#Saline

taxonmaps

@ref: 69479
File name: preview.99_108314.png
url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_2395;96_10519;97_12716;98_15636;99_108314&stattab=map
Last taxonomy: Oligosphaera ethanolica subclade
16S sequence: AB558581
Sequence Identity:
Total samples: 583
soil counts: 84
aquatic counts: 390
animal counts: 40
plant counts: 69

Safety information

risk assessment

@ref: 19258
biosafety level: 1
biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@ref: 19258
description: Oligosphaera ethanolica gene for 16S rRNA, partial sequence
accession: AB558581
length: 1434
database: ena
NCBI tax ID: 760260

Genome sequences

@ref: 66792
description: Oligosphaera ethanolica DSM 24202
accession: 2927555367
assembly level: draft
database: img
NCBI tax ID: 760260

GC content

@ref	GC-content	method
19258	61.1	high performance liquid chromatography (HPLC)
30595	61.1

External links

@ref: 19258

culture collection no.: DSM 24202, JCM 17152, CGMCC 1.5160, KCTC 15378

straininfo link

@ref: 87607
straininfo: 407412

literature

topic: Phylogeny
Pubmed-ID: 22523166
title: Oligosphaera ethanolica gen. nov., sp. nov., an anaerobic, carbohydrate-fermenting bacterium isolated from methanogenic sludge, and description of Oligosphaeria classis nov. in the phylum Lentisphaerae.
authors: Qiu YL, Muramatsu M, Hanada S, Kamagata Y, Guo RB, Sekiguchi Y
journal: Int J Syst Evol Microbiol
DOI: 10.1099/ijs.0.039545-0
year: 2012
mesh: Bacteria, Anaerobic/*classification/genetics/isolation & purification/metabolism, Bacterial Typing Techniques, Base Composition, *Carbohydrate Metabolism, DNA, Bacterial/genetics, Fatty Acids/analysis, Fermentation, Molecular Sequence Data, Phosphatidylethanolamines/analysis, *Phylogeny, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sewage/*microbiology
topic2: Metabolism

Reference

@id	authors	catalogue	doi/url	title	ID_cross_reference	pubmed
19258	Curators of the DSMZ	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 24202)	https://www.dsmz.de/collection/catalogue/details/culture/DSM-24202
20215	Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.		10.1099/ijsem.0.004332	List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
30595	Barberan A, Caceres Velazquez H, Jones S, Fierer N.		10.1128/mSphere.00237-17	Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information	26926	28776041
66792	Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann		https://diaspora-project.de/progress.html#genomes	Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
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.		https://microbeatlas.org/	MicrobeAtlas 1.0 beta
87607	Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.		10.60712/SI-ID407412.1	StrainInfo: A central database for resolving microbial strain identifiers