Petrimonas sulfuriphila (DSM 16547, JCM 12565, BN3)

Name: Petrimonas sulfuriphila (DSM 16547, JCM 12565, BN3)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 12503

Type strain

Strain Designation BN3

Culture col. no. DSM 16547 JCM 12565 BN3 CIP 108780

NCBI tax ID(s) 285070

Special Collections DSMZ JCM CIP Literature strains

History <- D. Blanchet; BN3 B. Denis BN3.

Links

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

Gram-negative rod-shaped anaerobe thermophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 139006

DSM 16547,JCM 12565,CIP 108780

@ref 20215

Last LPSN update 2026-02-09 11:20:51

Domain Bacteria

Phylum Bacteroidota

Class Bacteroidia

Order Bacteroidales

Family Dysgonomonadaceae

Genus Petrimonas

Species Petrimonas sulfuriphila

Full scientific name Petrimonas sulfuriphila Grabowski et al. 2005

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Motility
31375	negative	1.75 µm	0.85 µm	rod-shaped

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
6502	PYG MEDIUM (MODIFIED) (DSMZ Medium 104)		Medium recipe at MediaDive	Name: PYG MEDIUM (modified) (DSMZ Medium 104) Composition: Yeast extract 10.0 g/l Peptone 5.0 g/l Trypticase peptone 5.0 g/l Beef extract 5.0 g/l Glucose 5.0 g/l L-Cysteine HCl x H2O 0.5 g/l NaHCO3 0.4 g/l NaCl 0.08 g/l K2HPO4 0.04 g/l KH2PO4 0.04 g/l MgSO4 x 7 H2O 0.02 g/l CaCl2 x 2 H2O 0.01 g/l Hemin 0.005 g/l Ethanol 0.0038 g/l Resazurin 0.001 g/l Tween 80 Vitamin K1 NaOH Distilled water
6502	THERMOANAEROBACTER SULFUROPHILUS MEDIUM (DSMZ Medium 827)		Medium recipe at MediaDive	Name: THERMOANAEROBACTER SULFUROPHILUS MEDIUM (DSMZ Medium 827; with strain-specific modifications) Composition: Sulfur 9.98004 g/l D-Glucose 4.99002 g/l Trypticase peptone 2.99401 g/l Na2CO3 0.998004 g/l Yeast extract 0.499002 g/l Na2S x 9 H2O 0.499002 g/l KH2PO4 0.329341 g/l CaCl2 x 2 H2O 0.329341 g/l NH4Cl 0.329341 g/l KCl 0.329341 g/l MgCl2 x 6 H2O 0.329341 g/l HCl 0.00249501 g/l FeCl2 x 4 H2O 0.00149701 g/l Sodium resazurin 0.000499002 g/l CoCl2 x 6 H2O 0.000189621 g/l MnCl2 x 4 H2O 9.98004e-05 g/l Pyridoxine hydrochloride 9.98004e-05 g/l ZnCl2 6.98603e-05 g/l (DL)-alpha-Lipoic acid 4.99002e-05 g/l p-Aminobenzoic acid 4.99002e-05 g/l Calcium D-(+)-pantothenate 4.99002e-05 g/l Riboflavin 4.99002e-05 g/l Thiamine HCl 4.99002e-05 g/l Nicotinic acid 4.99002e-05 g/l Na2MoO4 x 2 H2O 3.59281e-05 g/l NiCl2 x 6 H2O 2.39521e-05 g/l Folic acid 1.99601e-05 g/l Biotin 1.99601e-05 g/l H3BO3 5.98802e-06 g/l CuCl2 x 2 H2O 1.99601e-06 g/l Vitamin B12 9.98004e-07 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
6502	positive	growth	40	thermophilic
31375	positive	growth	15-40
31375	positive	optimum	38.5	mesophilic
67770	positive	growth	40	thermophilic

Culture pH

@ref	Ability	Type	PH
31375	positive	optimum	7.2

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance
6502	anaerobe
31375	anaerobe

Spore formation

31375

Spore formationno

Halophily

@ref	Salt	Growth	Tested relation	Concentration
31375	NaCl	positive	growth	0-4 %

Observation

67770

Observationquinones: MK-8

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
31375	30089 ChEBI	acetate	+	carbon source
31375	22599 ChEBI	arabinose	+	carbon source
31375	17057 ChEBI	cellobiose	+	carbon source
31375	28757 ChEBI	fructose	+	carbon source
31375	28260 ChEBI	galactose	+	carbon source
31375	17234 ChEBI	glucose	+	carbon source
31375	17754 ChEBI	glycerol	+	carbon source
31375	24996 ChEBI	lactate	+	carbon source
31375	17716 ChEBI	lactose	+	carbon source
31375	17306 ChEBI	maltose	+	carbon source
31375	29864 ChEBI	mannitol	+	carbon source
31375	37684 ChEBI	mannose	+	carbon source
31375	17632 ChEBI	nitrate	+	reduction
31375	26546 ChEBI	rhamnose	+	carbon source
31375	33942 ChEBI	ribose	+	carbon source
31375	17992 ChEBI	sucrose	+	carbon source

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Engineered	#Biodegradation	-
#Engineered	#Industrial	#Oil reservoir

Isolation

@ref	Sample type	Country	Country ISO 3 Code	Continent
6502	biodegraded oil reservoir	Canada	CAN	North America
67770	Oilfield well head in the Western Canadian Sedimentary Basin

Taxonmaps

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

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
6502	1	Risk group (German classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	IMG accession	NCBI tax ID	Score	INSDC accession
66792	Petrimonas sulfuriphila DSM 16547	complete	2828614168	285070	90.83
124043	ASM5120101v1 assembly for Petrimonas sulfuriphila DSM 16547	scaffold		285070	66.98	GCA_051201015

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
6502	Petrimonas sulfuriphila strain BN3 16S ribosomal RNA gene, partial sequence	AY570690	1411		285070

GC content

@ref	GC-content (mol%)	Method
6502	40.8	high performance liquid chromatography (HPLC)
31375	40.8

Genome-based predictions

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 )
#27688	IJSEM 1113 2005 ( DOI 10.1099/ijs.0.63426-0 , PubMed 15879242 )
#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
#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 .
#124043	Isabel Schober, Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy .
#126262	A. Lissin, I. Schober, J. F. Witte, H. Lüken, A. Podstawka, J. Koblitz, B. Bunk, P. Dawyndt, P. Vandamme, P. de Vos, J. Overmann, L. C. Reimer: StrainInfo—the central database for linked microbial strain identifiers. ( DOI 10.1093/database/baaf059 )

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Petrimonas sulfuriphila (DSM 16547, JCM 12565, BN3)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

Observation

Metabolite utilization

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_051201015

16S sequences

GC content

Genome-based predictions

Literature

Literature

References

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