Name: Megalodesulfovibrio paquesii SB1
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 4151

Type strain:

Species: Megalodesulfovibrio paquesii

Strain Designation: SB1

Culture col. no.: DSM 16681, JCM 14635

Strain history: A. J. M. Stams SB1.

NCBI tax ID(s): 299072 (species)

SI-ID 402065

DSM 16681

Other strains from Megalodesulfovibrio paquesii

M. paquesii DvS, DSM 29312

Section

Megalodesulfovibrio paquesii SB1 is an anaerobe, mesophilic, Gram-negative bacterium that was isolated from sulfidogenic sludge of a full-scale synthesis-gas-fed bioreactor treating wastewater from a zinc smelter.

Gram-negative
vibrio-shaped
anaerobe
mesophilic
16S sequence
Bacteria
genome sequence

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	14-12-2023 (DD-MM-YYYY)
	Domain	"Bacteria"
	Phylum	*Pseudomonadota*
	Class	*Deltaproteobacteria*
	Order	*Desulfovibrionales*
	Family	*Desulfovibrionaceae*
	Genus	*Megalodesulfovibrio*
	Species	**Megalodesulfovibrio paquesii**
	Full Scientific Name (LPSN)	Megalodesulfovibrio paquesii (van Houten et al. 2009) Waite et al. 2020

Synonym

Desulfovibrio paquesii

Information on morphological and physiological properties Morphology

[Ref.: #23213]	Gram stain	negative
[Ref.: #28922]	Gram stain	negative

[Ref.: #23213]	Cell length	5.0-8.0 µm
[Ref.: #28922]	Cell length	5.5 µm

[Ref.: #23213]	Cell width	1.0 µm
[Ref.: #28922]	Cell width	3.75 µm

[Ref.: #23213]	Cell shape	vibrio-shaped
[Ref.: #28922]	Cell shape	spiral-shaped
[Ref.: #23213]	Cell shape	spiral-shaped

[Ref.: #28922]	Motility	yes
[Ref.: #23213]	Motility	yes

[Ref.: #28922]

Pigment production

Information on culture and growth conditions Culture and growth conditions

[Ref.: #6562]

Culture medium

DESULFOVIBRIO (POSTGATE) MEDIUM (DSMZ Medium 63)

[Ref.: #6562]

Culture medium growth

[Ref.: #6562]

Culture medium link

Medium recipe at MediaDive

[Ref.: #6562]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #6562]	growth	37 °C
[Ref.: #23213]	growth	10-45 °C
[Ref.: #28922]	growth	04-40 °C
[Ref.: #28922]	optimum	25 °C
[Ref.: #67770]	growth	37 °C

[Ref.: #6562]	Temperature range	mesophilic
[Ref.: #28922]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic

		pH
[Ref.: #28922]	optimum	5.5
[Ref.: #23213]	growth	6.5-8.5
[Ref.: #28922]	growth	3.5-9.5

Information on physiology and metabolism Physiology and metabolism

[Ref.: #6562]	Oxygen tolerance	anaerobe
[Ref.: #23213]	Oxygen tolerance	anaerobe
[Ref.: #28922]	Oxygen tolerance	aerobe

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #28922]		NaCl		growth	0.3-10	%
[Ref.: #28922]		NaCl		optimum	3	%

[Ref.: #28922]

Observation

aggregates in clumps

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #28922]	3-hydroxybutyrate ChEBI	+	carbon source
[Ref.: #28922]	4-hydroxy-L-proline ChEBI	+	carbon source
[Ref.: #23213]	acetate ChEBI	-	electron donor
[Ref.: #28922]	acetate ChEBI	+	carbon source
[Ref.: #28922]	alanine ChEBI	+	carbon source
[Ref.: #28922]	asparagine ChEBI	+	carbon source
[Ref.: #28922]	aspartate ChEBI	+	carbon source
[Ref.: #23213]	butyrate ChEBI	-	electron donor
[Ref.: #23213]	choline ChEBI	-	electron donor
[Ref.: #23213]	choline ChEBI	-	fermentation
[Ref.: #23213]	cysteine ChEBI	-	electron donor
[Ref.: #23213]	ethanol ChEBI	+	electron donor
[Ref.: #23213]	formate ChEBI	+	electron donor
[Ref.: #23213]	fumarate ChEBI	+	electron donor
[Ref.: #28922]	glucose ChEBI	+	carbon source
[Ref.: #23213]	glycerol ChEBI	+	electron donor
[Ref.: #28922]	glycerol ChEBI	+	carbon source
[Ref.: #28922]	glycogen ChEBI	+	carbon source
[Ref.: #28922]	histidine ChEBI	+	carbon source
[Ref.: #28922]	inosine ChEBI	+	carbon source
[Ref.: #28922]	L-alaninamide ChEBI	+	carbon source
[Ref.: #23213]	lactate ChEBI	+	electron donor
[Ref.: #28922]	lactate ChEBI	+	carbon source
[Ref.: #28922]	leucine ChEBI	+	carbon source
[Ref.: #23213]	malate ChEBI	-	fermentation
[Ref.: #23213]	malate ChEBI	+	electron donor
[Ref.: #23213]	methanol ChEBI	-	electron donor
[Ref.: #23213]	nitrate ChEBI	-	electron acceptor
[Ref.: #28922]	nitrate ChEBI	+	reduction
[Ref.: #28922]	proline ChEBI	+	carbon source
[Ref.: #23213]	propionate ChEBI	-	electron donor
[Ref.: #23213]	pyruvate ChEBI	+	electron donor
[Ref.: #28922]	serine ChEBI	+	carbon source
[Ref.: #23213]	succinate ChEBI	+	electron donor
[Ref.: #28922]	succinate ChEBI	+	carbon source
[Ref.: #23213]	sulfate ChEBI	+	reduction
[Ref.: #23213]	sulfite ChEBI	+	reduction
[Ref.: #23213]	thiosulfate ChEBI	+	reduction
[Ref.: #28922]	threonine ChEBI	+	carbon source
[Ref.: #28922]	uridine ChEBI	+	carbon source
[Ref.: #28922]	urocanic acid ChEBI	+	carbon source
	Only first 10 entries are displayed. Click here to see all.

	Enzyme	Enzyme activity	EC number
[Ref.: #28922]	acid phosphatase	+	3.1.3.2
[Ref.: #28922]	alkaline phosphatase	+	3.1.3.1
[Ref.: #28922]	catalase	+	1.11.1.6
[Ref.: #28922]	cytochrome oxidase	+	1.9.3.1

Information on isolation source, the sampling and environmental conditions Isolation, sampling and environmental information

[Ref.: #6562]	Sample type/isolated from	sulfidogenic sludge of a full-scale synthesis-gas-fed bioreactor treating wastewater from a zinc smelter
[Ref.: #6562]	Geographic location (country and/or sea, region)	Budeldorplein
[Ref.: #6562]	Country	Netherlands
[Ref.: #6562]	Country ISO 3 Code	NLD
[Ref.: #6562]	Continent	Europe

[Ref.: #23213]	Sample type/isolated from	sulfidogenic synthesis-gas-fed bioreactor used for remediation of wastewater from a zinc smelter

[Ref.: #67770]	Sample type/isolated from	Sulfidogenic synthesis-gas-fed bioreactor for remediation of wastewater from a zinc smelter in Budel-Dorplein
[Ref.: #67770]	Country	Netherlands
[Ref.: #67770]	Country ISO 3 Code	NLD
[Ref.: #67770]	Continent	Europe
* marker position based on {}

Isolation sources categories

#Engineered	#Bioreactor	-
#Engineered	#Bioremediation	-
#Engineered	#Waste	#Wastewater
#Condition	#Sulfuric	-

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence DQ447183 (>99% sequence identity) for Desulfovibrio paquesii subclade from Microbeatlas

Aquatic Samples	706
Soil Samples	100
Animal Samples	67
Plant Samples	37
Total Samples	910

Information on possible application of the strain and its possible interaction with e.g. potential hosts Safety information

[Ref.: #6562]

Biosafety level

Risk group (German classification)
According to TRBA 466

Information on genomic background e.g. entries in nucleic sequence databass Sequence information

16S Sequence information:

	Sequence accession description	Seq. accession number	Sequence length (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #6562]	Desulfovibrio paquesii strain SB1 16S ribosomal RNA gene, partial sequence	DQ447183	1509	ENA	299072 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Desulfovibrio paquesii DSM 16681	2571042346	draft	JGI IMG/M	1121460 tax ID	*

[Ref.: #6562]	GC-content	62.2 mol%	high performance liquid chromatography (HPLC)
[Ref.: #23213]	GC-content	62.2 mol%
[Ref.: #28922]	GC-content	51.1 mol%

Availability in culture collections External links

[Ref.: #6562]

Culture collection no.

DSM 16681, JCM 14635

[Ref.: #73652]

SI-ID 402065

Literature:

Topic	Title	Authors	Journal	DOI	Year
Metabolism	Bacteria coated cathodes as an in-situ hydrogen evolving platform for microbial electrosynthesis.	Perona-Vico E, Feliu-Paradeda L, Puig S, Baneras L	Sci Rep	10.1038/s41598-020-76694-y	2020	*
Phylogeny	Desulfovibrio paquesii sp. nov., a hydrogenotrophic sulfate-reducing bacterium isolated from a synthesis-gas-fed bioreactor treating zinc- and sulfate-rich wastewater.	van Houten BH, Meulepas RJ, van Doesburg W, Smidt H, Muyzer G, Stams AJ	Int J Syst Evol Microbiol	10.1099/ijs.0.65616-0	2009	*

References

#6562

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 16681

#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. IJSEM ( DOI 10.1099/ijsem.0.004332 )

#23213

Bernd H. G. W. van Houten, Roel J. W. Meulepas, Wim van Doesburg, Hauke Smidt, Gerard Muyzer, Alfons J. M. Stams: Desulfovibrio paquesii sp. nov., a hydrogenotrophic sulfate-reducing bacterium isolated from a synthesis-gas-fed bioreactor treating zinc- and sulfate-rich wastewater. IJSEM 59: 229 - 233 2009 ( DOI 10.1099/ijs.0.65616-0 , PubMed 19196759 )

#28922

Barberan A, Caceres Velazquez H, Jones S, Fierer N.: Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information. mSphere 2: 2017 ( DOI 10.1128/mSphere.00237-17 , PubMed 28776041 ) - originally annotated from #25361 (see below)

#66792

Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .

#67770 Japan Collection of Microorganism (JCM) ; Curators of the JCM;

#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 .

#73652

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 . ( DOI 10.60712/SI-ID402065.1 )

#25361

IJSEM 350 2009 ( DOI 10.1099/ijs.0.001651-0 , PubMed 19196777 )

* These data were automatically processed and therefore are not curated

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