Name: Petrimonas sulfuriphila BN3
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 12503

Type strain:

Species: Petrimonas sulfuriphila

Strain Designation: BN3

Culture col. no.: DSM 16547, JCM 12565, CIP 108780

Strain history: B. Denis BN3.

NCBI tax ID(s): 285070 (species)

SI-ID 139006

DSM 16547, JCM 12565, CIP 108780

Section

Petrimonas sulfuriphila BN3 is an anaerobe, thermophilic, Gram-negative bacterium that was isolated from biodegraded oil reservoir.

Gram-negative
rod-shaped
anaerobe
thermophilic
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	*Bacteroidota*
	Class	*Bacteroidia*
	Order	*Bacteroidales*
	Family	*Dysgonomonadaceae*
	Genus	*Petrimonas*
	Species	**Petrimonas sulfuriphila**
	Full Scientific Name (LPSN)	Petrimonas sulfuriphila Grabowski et al. 2005

Information on morphological and physiological properties Morphology

[Ref.: #31375]	Gram stain	negative

[Ref.: #31375]	Cell length	1.75 µm

[Ref.: #31375]	Cell width	0.85 µm

[Ref.: #31375]	Cell shape	rod-shaped

[Ref.: #31375]	Motility	no

Information on culture and growth conditions Culture and growth conditions

[Ref.: #6502]

Culture medium

PYG MEDIUM (MODIFIED) (DSMZ Medium 104)

[Ref.: #6502]

Culture medium growth

[Ref.: #6502]

Culture medium link

Medium recipe at MediaDive

[Ref.: #6502]

Culture medium composition

expand / minimize

[Ref.: #6502]

Culture medium

THERMOANAEROBACTER SULFUROPHILUS MEDIUM (DSMZ Medium 827)

[Ref.: #6502]

Culture medium growth

[Ref.: #6502]

Culture medium link

Medium recipe at MediaDive

[Ref.: #6502]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #6502]	growth	40 °C
[Ref.: #31375]	growth	15-40 °C
[Ref.: #31375]	optimum	38.5 °C
[Ref.: #67770]	growth	40 °C

[Ref.: #6502]	Temperature range	thermophilic
[Ref.: #31375]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	thermophilic

	pH	Kind of pH		pH
[Ref.: #31375]			optimum	7.2

Information on physiology and metabolism Physiology and metabolism

[Ref.: #6502]	Oxygen tolerance	anaerobe
[Ref.: #31375]	Oxygen tolerance	anaerobe

[Ref.: #31375]

Ability of spore formation

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #31375]		NaCl		growth	0-4	%

[Ref.: #67770]

Observation

quinones: MK-8

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #31375]	acetate ChEBI	+	carbon source
[Ref.: #31375]	arabinose ChEBI	+	carbon source
[Ref.: #31375]	cellobiose ChEBI	+	carbon source
[Ref.: #31375]	fructose ChEBI	+	carbon source
[Ref.: #31375]	galactose ChEBI	+	carbon source
[Ref.: #31375]	glucose ChEBI	+	carbon source
[Ref.: #31375]	glycerol ChEBI	+	carbon source
[Ref.: #31375]	lactate ChEBI	+	carbon source
[Ref.: #31375]	lactose ChEBI	+	carbon source
[Ref.: #31375]	maltose ChEBI	+	carbon source
[Ref.: #31375]	mannitol ChEBI	+	carbon source
[Ref.: #31375]	mannose ChEBI	+	carbon source
[Ref.: #31375]	nitrate ChEBI	+	reduction
[Ref.: #31375]	rhamnose ChEBI	+	carbon source
[Ref.: #31375]	ribose ChEBI	+	carbon source
[Ref.: #31375]	sucrose ChEBI	+	carbon source
	Only first 10 entries are displayed. Click here to see all.

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

[Ref.: #6502]	Sample type/isolated from	biodegraded oil reservoir
[Ref.: #6502]	Country	Canada
[Ref.: #6502]	Country ISO 3 Code	CAN
[Ref.: #6502]	Continent	North America

[Ref.: #67770]	Sample type/isolated from	Oilfield well head in the Western Canadian Sedimentary Basin
* marker position based on {}

Isolation sources categories

#Engineered	#Biodegradation	-
#Engineered	#Industrial	#Oil reservoir

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AY570690 (>99% sequence identity) for Petrimonas sulfuriphila subclade from Microbeatlas

Aquatic Samples	5527
Soil Samples	1433
Animal Samples	1144
Plant Samples	256
Total Samples	8360

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

[Ref.: #6502]

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.: #6502]	Petrimonas sulfuriphila strain BN3 16S ribosomal RNA gene, partial sequence	AY570690	1411	ENA	285070 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Petrimonas sulfuriphila DSM 16547	2828614168	draft	JGI IMG/M	285070 tax ID	*

[Ref.: #6502]	GC-content	40.8 mol%	high performance liquid chromatography (HPLC)
[Ref.: #31375]	GC-content	40.8 mol%

Availability in culture collections External links

[Ref.: #6502]

Culture collection no.

DSM 16547, JCM 12565, CIP 108780

[Ref.: #81722]

SI-ID 139006

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Petrimonas sulfuriphila gen. nov., sp. nov., a mesophilic fermentative bacterium isolated from a biodegraded oil reservoir.	Grabowski A, Tindall BJ, Bardin V, Blanchet D, Jeanthon C	Int J Syst Evol Microbiol	10.1099/ijs.0.63426-0	2005	*

References

#6502

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 16547

#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 )

#31375

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 #27688 (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 .

#81722

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-ID139006.1 )

#27688

IJSEM 1113 2005 ( DOI 10.1099/ijs.0.63426-0 , PubMed 15879242 )

* These data were automatically processed and therefore are not curated

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