Archive BacDiveID:10.13145/bacdive158308.20230509.8.1

Strain identifier

BacDive ID: 158308

Type strain:

Species: Desulfonatronum parangueonense

Strain Designation: PAR180

Strain history: A. Hirschler-Réa; Aix-Marseille Univ., France; PAR180.

NCBI tax ID(s): 2047730 (species)

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

General

@ref: 64971

BacDive-ID: 158308

DSM-Number: 103602

keywords: 16S sequence, Bacteria, anaerobe, halotolerant, mesophilic, Gram-negative, motile, vibrio-shaped

description: Desulfonatronum parangueonense PAR180 is an anaerobe, halotolerant, mesophilic bacterium that was isolated from sediment of an alkaline crater lake located in a maar of phreatomagmatic origin.

NCBI tax id

NCBI tax id: 2047730
Matching level: species

strain history

@ref	history
64971	<- A. Hirschler-Réa, Mediterranean Inst. of Oceanography, Marseille, France; PAR180 <- F. Perez Bernal {2015}
67770	A. Hirschler-Réa; Aix-Marseille Univ., France; PAR180.

doi: 10.13145/bacdive158308.20230509.8.1

Name and taxonomic classification

LPSN

@ref: 20215
description: domain/bacteria
keyword: phylum/pseudomonadota
domain: Bacteria
phylum: Pseudomonadota
class: Deltaproteobacteria
order: Desulfovibrionales
family: Desulfonatronaceae
genus: Desulfonatronum
species: Desulfonatronum parangueonense
full scientific name: Desulfonatronum parangueonense Pérez Bernal et al. 2017

@ref: 64971

domain: Bacteria

phylum: Proteobacteria

class: Deltaproteobacteria

order: Desulfovibrionales

family: Desulfonatronaceae

genus: Desulfonatronum

species: Desulfonatronum parangueonense

full scientific name: Desulfonatronum parangueonense Pérez Bernal et al. 2017

strain designation: PAR180

type strain: yes

Morphology

cell morphology

@ref: 65221
gram stain: negative
cell length: 1.2-2.3 µm
cell width: 0.7-0.9 µm
cell shape: vibrio-shaped
motility: yes
flagellum arrangement: monotrichous, polar

Culture and growth conditions

culture medium

@ref: 64971
name: DESULFONATRONUM LACUSTRE MEDIUM (DSMZ Medium 813b)
growth: yes
link: https://mediadive.dsmz.de/medium/813b
composition: Name: DESULFONATRONUM LACUSTRE MEDIUM (DSMZ Medium 813b) Composition: Na2SO4 4.98504 g/l Na2CO3 3.48953 g/l Na-L-lactate 1.99402 g/l NaCl 1.99402 g/l NH4Cl 0.997009 g/l Yeast extract 0.997009 g/l Na2S x 9 H2O 0.498504 g/l KCl 0.199402 g/l KH2PO4 0.199402 g/l MgCl2 x 6 H2O 0.0997009 g/l HCl 0.00249252 g/l FeCl2 x 4 H2O 0.00149551 g/l NaOH 0.000498504 g/l Sodium resazurin 0.000498504 g/l CoCl2 x 6 H2O 0.000189432 g/l Pyridoxine hydrochloride 9.97009e-05 g/l MnCl2 x 4 H2O 9.97009e-05 g/l ZnCl2 6.97906e-05 g/l Calcium D-(+)-pantothenate 4.98504e-05 g/l Nicotinic acid 4.98504e-05 g/l Riboflavin 4.98504e-05 g/l Thiamine HCl 4.98504e-05 g/l (DL)-alpha-Lipoic acid 4.98504e-05 g/l p-Aminobenzoic acid 4.98504e-05 g/l Na2MoO4 x 2 H2O 3.58923e-05 g/l NiCl2 x 6 H2O 2.39282e-05 g/l Biotin 1.99402e-05 g/l Folic acid 1.99402e-05 g/l H3BO3 5.98205e-06 g/l Na2WO4 x 2 H2O 3.98804e-06 g/l Na2SeO3 x 5 H2O 2.99103e-06 g/l CuCl2 x 2 H2O 1.99402e-06 g/l Vitamin B12 9.97009e-07 g/l Distilled water

culture temp

@ref	growth	type	temperature	range
64971	positive	growth	35	mesophilic
65221	positive	growth	15-40
65221	positive	optimum	35	mesophilic
67770	positive	growth	35	mesophilic

culture pH

@ref	ability	type	pH	PH range
65221	positive	growth	8.3-10.4	alkaliphile
65221	positive	optimum	9

Physiology and metabolism

oxygen tolerance

@ref: 65221
oxygen tolerance: anaerobe

spore formation

@ref: 65221
spore formation: no

halophily

@ref	halophily level	salt	growth	tested relation	concentration
65221	halotolerant	NaCl	positive	growth	0-80 g/L
65221	halotolerant	NaCl	positive	optimum	5 g/L

Isolation, sampling and environmental information

isolation

@ref	sample type	geographic location	country	origin.country	continent	latitude	longitude	sampling date	enrichment culture	enrichment culture composition	enrichment culture duration	enrichment culture temperature	isolation procedure
64971	sediment of an alkaline crater lake located in a maar of phreatomagmatic origin	state of Guanajuato, Vallee de Santiago, Rincón de Parangueo crater	Mexico	MEX	North America	20.4167	-101.2
65221	sediment sample	crater soda lake, Rincón de Parangueo	Mexico	MEX	North America	20.4166	-101.202	2013-09	1 : 1 (v/v) proportion with filtered water of the sampling site and distilled water	(per litre): Na 2 SO 4 , 4 g; Na 2 S 2 O 3 , 0.79 g; NH 4 Cl, 0.25 g; KH 2 PO 4 , 0.2 g; NaCl, 15 g; yeast extract, 0.1 g; HEPES, 10 mM; selenite tungstate solution [18], 1 ml; trace element SL12 solution [19], 1 ml; resazurin solution 0.1 % (w/v), 1 ml. The pH was adjusted to 9.	3-4 weeks	30	After sterilization, the culture medium was immediately flushed with nitrogen gas. Prior to use, the following components were added from anoxic sterile solutions: vitamin V7 solution [20], 1 ml; FeSO4-7H2O, 1 mM, to monitor sulfidogenic activity (removal of sulfide by production of FeS); and Na2S2O4 , 0.2 mM, as reductant. A mixture of four substrates, namely sodium acetate, sodium lactate, sodium pyruvate and glycerol (5 mM each), was added to serum bottles containing 50 ml of culture medium.
67770	Sediment collected at an alkaline crater lake in Guanajuato		Mexico	MEX	North America

isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Aquatic	#Lake (large)
#Environmental	#Aquatic	#Sediment
#Condition	#Alkaline

Safety information

risk assessment

@ref: 64971
biosafety level: 1
biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@ref: 64971
description: Desulfonatronum parangueonense strain PAR180 16S ribosomal RNA gene, partial sequence
accession: KY041865
length: 1518
database: ena
NCBI tax ID: 2047730

GC content

@ref: 64971
GC-content: 56.1
method: high performance liquid chromatography (HPLC)

External links

@ref: 64971

culture collection no.: DSM 103602, JCM 31598

straininfo link

@ref: 111122
straininfo: 401976

literature

topic: Phylogeny
Pubmed-ID: 29039304
title: Desulfonatronum parangueonense sp. nov., a sulfate-reducing bacterium isolated from sediment of an alkaline crater lake.
authors: Perez Bernal MF, Souza Brito EM, Bartoli M, Aube J, Fardeau ML, Cuevas Rodriguez G, Ollivier B, Guyoneaud R, Hirschler-Rea A
journal: Int J Syst Evol Microbiol
DOI: 10.1099/ijsem.0.002399
year: 2017
mesh: Alkalies, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Deltaproteobacteria/*classification/genetics/isolation & purification, Desulfovibrio/genetics, Fatty Acids/chemistry, Geologic Sediments/*microbiology, Hydrogen-Ion Concentration, Lakes/*microbiology, Mexico, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA
topic2: Transcriptome

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
64971	Curators of the DSMZ		https://www.dsmz.de/collection/catalogue/details/culture/DSM-103602	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 103602)
65221	Maria Fernanda Pérez Bernal, Elcia Margareth Souza Brito, Manon Bartoli, Johanne Aubé, Marie-Laure Fardeau, German Cuevas Rodriguez, Bernard Ollivier, Rémy Guyoneaud, Agnès Hirschler-Réa	Desulfonatronum parangueonense sp. nov., a sulfate-reducing bacterium isolated from sediment of an alkaline crater lake	10.1099/ijsem.0.002399		IJSEM 67: 4999-5005 2017	29039304
67770	Curators of the JCM		https://jcm.brc.riken.jp/en/
111122	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-ID401976.1