Archive BacDiveID:10.13145/bacdive2226.20230509.8.1

Strain identifier

BacDive ID: 2226

Type strain:

Species: Sulfurospirillum barnesii

Strain Designation: SES-3

Strain history: <- E. Falsen <- J. S. Blum, SES-3 (Geospirillum barnesii)

NCBI tax ID(s): 44674 (species)

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

General

@ref: 4027

BacDive-ID: 2226

DSM-Number: 10660

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

description: Sulfurospirillum barnesii SES-3 is an anaerobe, mesophilic, Gram-negative bacterium that was isolated from freshwater marsh.

NCBI tax id

NCBI tax id: 44674
Matching level: species

strain history

@ref: 4027
history: <- E. Falsen <- J. S. Blum, SES-3 (Geospirillum barnesii)

doi: 10.13145/bacdive2226.20230509.8.1

Name and taxonomic classification

LPSN

@ref: 20215
description: domain/bacteria
keyword: phylum/pseudomonadota
domain: Bacteria
phylum: Pseudomonadota
class: Epsilonproteobacteria
order: Campylobacterales
family: Campylobacteraceae
genus: Sulfurospirillum
species: Sulfurospirillum barnesii
full scientific name: Sulfurospirillum barnesii Stolz et al. 1999

@ref: 4027

domain: Bacteria

phylum: Proteobacteria

class: Epsilonproteobacteria

order: Campylobacterales

family: Campylobacteraceae

genus: Sulfurospirillum

species: Sulfurospirillum barnesii

full scientific name: Sulfurospirillum barnesii Stolz et al. 1999

strain designation: SES-3

type strain: yes

Morphology

cell morphology

@ref	gram stain	cell length	cell width	cell shape	motility	flagellum arrangement
23071	negative	1.0-2.0 mm	0.3 µm	vibrio-shaped	yes	polar
23071				spiral-shaped

Culture and growth conditions

culture medium

@ref: 4027
name: SULFUROSPIRILLUM BARNESII MEDIUM (DSMZ Medium 771)
growth: yes
link: https://mediadive.dsmz.de/medium/771
composition: Name: SULFUROSPIRILLUM BARNESII MEDIUM (DSMZ Medium 771) Composition: Na-DL-lactate 2.24327 g/l NaNO3 1.69492 g/l Na2CO3 1.49551 g/l Yeast extract 0.997009 g/l NaCl 0.458624 g/l (NH4)2SO4 0.224327 g/l KH2PO4 0.224327 g/l K2HPO4 0.224327 g/l MgSO4 x 7 H2O 0.11665 g/l Na2S x 9 H2O 0.0997009 g/l L-Cysteine HCl x H2O 0.0997009 g/l HCl 0.00249252 g/l FeCl2 x 4 H2O 0.00149551 g/l NaOH 0.000498504 g/l CoCl2 x 6 H2O 0.000189432 g/l MnCl2 x 4 H2O 9.97009e-05 g/l Pyridoxine hydrochloride 9.97009e-05 g/l ZnCl2 6.97906e-05 g/l Calcium D-(+)-pantothenate 4.98504e-05 g/l Riboflavin 4.98504e-05 g/l p-Aminobenzoic acid 4.98504e-05 g/l (DL)-alpha-Lipoic acid 4.98504e-05 g/l Nicotinic acid 4.98504e-05 g/l Thiamine HCl 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
4027	positive	growth	30	mesophilic
23071	positive	growth	25.0	mesophilic
23071	positive	growth	30.0	mesophilic
23071	no	growth	42.0	thermophilic
23071	positive	optimum	33.0	mesophilic

culture pH

@ref: 23071
ability: positive
type: optimum
pH: 7.5

Physiology and metabolism

oxygen tolerance

@ref: 4027
oxygen tolerance: anaerobe

compound production

@ref: 4027
compound: reductase

halophily

@ref	salt	tested relation	concentration	growth
23071	NaCl	optimum	0.05 %
23071	NaCl	growth	0.8 %	positive

metabolite utilization

@ref	Chebi-ID	metabolite	utilization activity	kind of utilization tested
23071	28262	dimethyl sulfoxide	-	electron acceptor
23071	17359	sulfite	-	electron acceptor
23071	29125	arsenate	+	electron acceptor
23071	35391	aspartate	+	electron acceptor
23071	33403	elemental sulfur	+	electron acceptor
23071	29034	ferric iron	+	electron acceptor
23071	29806	fumarate	+	electron acceptor
23071		manganese dioxide	+	electron acceptor
23071	17632	nitrate	+	electron acceptor
23071	16301	nitrite	+	electron acceptor
23071	15075	selenate	+	electron acceptor
23071	16094	thiosulfate	+	electron acceptor
23071	15724	trimethylamine n-oxide	+	electron acceptor
23071	15740	formate	+	electron donor
23071	29806	fumarate	+	electron donor
23071	24996	lactate	+	electron donor
23071	15361	pyruvate	+	electron donor
23071	29806	fumarate	+	fermentation
23071	17632	nitrate	+	reduction
23071	15075	selenate	+	reduction

Isolation, sampling and environmental information

isolation

@ref	sample type	geographic location	country	origin.country	continent
4027	freshwater marsh	Nevada, Massie Slough	USA	USA	North America
23071	selenium-contaminated freshwater marsh

isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Terrestrial	#Wetland (Swamp)
#Engineered	#Contamination
#Environmental	#Aquatic	#Freshwater

Safety information

risk assessment

@ref: 4027
biosafety level: 1
biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@ref: 4027
description: Sulfurospirillum barnesii 16S ribosomal RNA gene, partial sequence
accession: AF038843
length: 1471
database: ena
NCBI tax ID: 760154

Genome sequences

@ref	description	accession	assembly level	database	NCBI tax ID
66792	Sulfurospirillum barnesii SES-3	GCA_000265295	complete	ncbi	760154
66792	Sulfurospirillum barnesii SES-3	760154.4	complete	patric	760154
66792	Sulfurospirillum barnesii SES-3	2506783064	complete	img	760154

GC content

@ref	GC-content	method
4027	40.9
23071	40.8	high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

trait	prediction	confidence	training_data
motile	yes	89.227	yes
flagellated	yes	77.753	no
gram-positive	no	98.58	yes
anaerobic	yes	97.402	yes
aerobic	no	98.003	yes
halophile	no	89.845	yes
spore-forming	no	92.668	no
thermophile	no	99.225	no
glucose-util	no	83.12	no
glucose-ferment	no	85.802	no

External links

@ref: 4027

culture collection no.: DSM 10660, ATCC 700032

straininfo link

@ref: 71789
straininfo: 46208

literature

topic	Pubmed-ID	title	authors	journal	DOI	year	mesh	topic2
Phylogeny	10425777	Sulfurospirillum barnesii sp. nov. and Sulfurospirillum arsenophilum sp. nov., new members of the Sulfurospirillum clade of the epsilon Proteobacteria.	Stolz JF, Ellis DJ, Blum JS, Ahmann D, Lovley DR, Oremland RS	Int J Syst Bacteriol	10.1099/00207713-49-3-1177	1999	Arsenates/metabolism, Bacterial Typing Techniques, DNA, Ribosomal/chemistry/genetics, Genes, rRNA, Gram-Negative Bacteria/classification/cytology/genetics/physiology, Molecular Sequence Data, Oxidation-Reduction, Phylogeny, RNA, Ribosomal, 16S/genetics, Selenic Acid, Selenium Compounds/*metabolism, Sequence Analysis, DNA	Metabolism
Metabolism	17144301	Contrasting effects of dissimilatory iron (III) and arsenic (V) reduction on arsenic retention and transport.	Kocar BD, Herbel MJ, Tufano KJ, Fendorf S	Environ Sci Technol	10.1021/es061540k	2006	Adsorption, Arsenic/chemistry, Bacillus/metabolism, Biodegradation, Environmental, Environment, Ferric Compounds/chemistry, Hydrogen-Ion Concentration, Iron/chemistry, Models, Theoretical, Shewanella/metabolism, Solubility, Time Factors

Reference

@id	authors	catalogue	doi/url	title	journal	pubmed
4027	Curators of the DSMZ	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 10660)	https://www.dsmz.de/collection/catalogue/details/culture/DSM-10660
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
23071	John F. Stolz,Debra J. Ellis,Jodi Switzer Blum,Dianne Ahmann,Derek R. Lovley,Ronald S. Oremland		10.1099/00207713-49-3-1177	Note: Sulfurospirillum barnesii sp. nov. and Sulfurospirillum arsenophilum sp. nov., new members of the Sulfurospirillum clade of the e-Proteobacteria	IJSEM 49: 1177-1180 1999	10425777
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)
71789	Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.		10.60712/SI-ID46208.1	StrainInfo: A central database for resolving microbial strain identifiers