Methylophaga frappieri (DSM 25690, ATCC BAA-2434, JAM 7)

Name: Methylophaga frappieri (DSM 25690, ATCC BAA-2434, JAM 7)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 24313

Type strain

Culture col. no. DSM 25690 ATCC BAA-2434 JAM 7

NCBI tax ID(s) 754477

Special Collections DSMZ Literature strains

History DSMZ <- R. Villemur, INRS-IAF; JAM7 <- J. Auclair, IAF

Links

Methylophaga frappieri DSM 25690 is an aerobe, Gram-negative, motile bacterium that was isolated from biofilm in a methanol-fed denitrification system treating seawater.

Gram-negative motile rod-shaped aerobe 16S sequence Bacteria

Name and taxonomic classification

SI-ID 404020

ATCC BAA-2434,DSM 25690

@ref 20215

Last LPSN update 2026-05-29 08:30:36

Domain Bacteria

Phylum Pseudomonadota

Class Gammaproteobacteria

Order Beggiatoales

Family Piscirickettsiaceae

Genus Methylophaga

Species Methylophaga frappieri

Full scientific name Methylophaga frappieri Villeneuve et al. 2013

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Motility
30798	negative	1.5 µm	0.7 µm	rod-shaped

Colony morphology

20652

Incubation period3-7 days

Pigmentation

30798

Productionyes

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
20652	METHYLOPHAGA MEDIUM 1403 (DSMZ Medium 1337)		Medium recipe at MediaDive	Name: METHYLOPHAGA MEDIUM (DSMZ Medium 1337) Composition: Agar 20.0 g/l MgCl2 x 6 H2O 3.0 g/l Methanol 2.376 g/l Bis-Tris 2.0 g/l MgSO4 x 7 H2O 2.0 g/l NH4Cl 2.0 g/l KCl 0.5 g/l KH2PO4 0.14 g/l Ferric ammonium citrate 0.06 g/l MgSO4 0.03 g/l Nitrilotriacetic acid 0.015 g/l NaCl 0.01 g/l MnSO4 0.005 g/l CaCl2 0.001 g/l FeSO4 0.001 g/l CoCl2 0.001 g/l ZnSO4 0.001 g/l H3BO3 0.0001 g/l AlK(SO4)2 0.0001 g/l CuSO4 0.0001 g/l Na2MoO4 0.0001 g/l Vitamin B12 Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)
20652	positive	growth	28
30798	positive	growth	15-37
30798	positive	optimum	34

Culture pH

@ref	Ability	Type	PH	PH range
30798	positive	optimum	8
30798	positive	growth	06-11	alkaliphile

Physiology and metabolism

Oxygen tolerance

30798

Oxygen toleranceaerobe

Halophily

@ref	Salt	Growth	Tested relation	Concentration
30798	NaCl	positive	growth	0.5-8 %
30798	NaCl	positive	optimum	3 %

Observation

30798

Observationaggregates in clumps

Enzymes

@ref	Value	Activity	Ec
30798	catalase	+	1.11.1.6
30798	cytochrome oxidase	+	1.9.3.1

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	methylglyoxal degradation	100	5 of 5
66794	ppGpp biosynthesis	100	4 of 4
66794	palmitate biosynthesis	100	22 of 22
66794	glycine betaine biosynthesis	100	5 of 5
66794	enterobactin biosynthesis	100	3 of 3
66794	ribulose monophosphate pathway	100	2 of 2
66794	biotin biosynthesis	100	4 of 4
66794	methanofuran biosynthesis	100	5 of 5
66794	cardiolipin biosynthesis	100	7 of 7
66794	coenzyme A metabolism	100	4 of 4
66794	sulfopterin metabolism	100	4 of 4
66794	denitrification	100	2 of 2
66794	cis-vaccenate biosynthesis	100	2 of 2
66794	folate polyglutamylation	100	1 of 1
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	adipate degradation	100	2 of 2
66794	CDP-diacylglycerol biosynthesis	100	2 of 2
66794	ubiquinone biosynthesis	100	7 of 7
66794	pentose phosphate pathway	100	11 of 11
66794	photosynthesis	92.86	13 of 14
66794	tetrahydrofolate metabolism	92.86	13 of 14
66794	d-mannose degradation	88.89	8 of 9
66794	valine metabolism	88.89	8 of 9
66794	lipid A biosynthesis	88.89	8 of 9
66794	chorismate metabolism	88.89	8 of 9
66794	reductive acetyl coenzyme A pathway	85.71	6 of 7
66794	phenylalanine metabolism	84.62	11 of 13
66794	glycolate and glyoxylate degradation	83.33	5 of 6
66794	threonine metabolism	80	8 of 10
66794	peptidoglycan biosynthesis	80	12 of 15
66794	Entner Doudoroff pathway	80	8 of 10
66794	heme metabolism	78.57	11 of 14
66794	NAD metabolism	77.78	14 of 18
66794	molybdenum cofactor biosynthesis	77.78	7 of 9
66794	vitamin B1 metabolism	76.92	10 of 13
66794	isoleucine metabolism	75	6 of 8
66794	acetate fermentation	75	3 of 4
66794	gluconeogenesis	75	6 of 8
66794	C4 and CAM-carbon fixation	75	6 of 8
66794	CMP-KDO biosynthesis	75	3 of 4
66794	glycogen biosynthesis	75	3 of 4
66794	starch degradation	70	7 of 10
66794	glutamate and glutamine metabolism	67.86	19 of 28
66794	serine metabolism	66.67	6 of 9
66794	lysine metabolism	66.67	28 of 42
66794	flavin biosynthesis	66.67	10 of 15
66794	octane oxidation	66.67	2 of 3
66794	cyanate degradation	66.67	2 of 3
66794	formaldehyde oxidation	66.67	2 of 3
66794	aspartate and asparagine metabolism	66.67	6 of 9
66794	acetoin degradation	66.67	2 of 3
66794	L-lactaldehyde degradation	66.67	2 of 3
66794	CO2 fixation in Crenarchaeota	66.67	6 of 9
66794	purine metabolism	65.96	62 of 94
66794	glycolysis	64.71	11 of 17
66794	glutathione metabolism	64.29	9 of 14
66794	metabolism of disaccharids	63.64	7 of 11
66794	vitamin B6 metabolism	63.64	7 of 11
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	62.5	5 of 8
66794	dTDPLrhamnose biosynthesis	62.5	5 of 8
66794	alanine metabolism	62.07	18 of 29
66794	isoprenoid biosynthesis	61.54	16 of 26
66794	lipid metabolism	61.29	19 of 31
66794	non-pathway related	60.53	23 of 38
66794	phenylacetate degradation (aerobic)	60	3 of 5
66794	lipoate biosynthesis	60	3 of 5
66794	glycogen metabolism	60	3 of 5
66794	pyrimidine metabolism	60	27 of 45
66794	citric acid cycle	57.14	8 of 14
66794	propanol degradation	57.14	4 of 7
66794	tryptophan metabolism	55.26	21 of 38
66794	proline metabolism	54.55	6 of 11
66794	leucine metabolism	53.85	7 of 13
66794	methionine metabolism	53.85	14 of 26
66794	polyamine pathway	52.17	12 of 23
66794	histidine metabolism	51.72	15 of 29
66794	mannosylglycerate biosynthesis	50	1 of 2
66794	ethanol fermentation	50	1 of 2
66794	methanogenesis from CO2	50	6 of 12
66794	suberin monomers biosynthesis	50	1 of 2
66794	arginine metabolism	50	12 of 24
66794	nitrate assimilation	44.44	4 of 9
66794	cysteine metabolism	44.44	8 of 18
66794	degradation of sugar alcohols	43.75	7 of 16
66794	tyrosine metabolism	42.86	6 of 14
66794	degradation of pentoses	42.86	12 of 28
66794	oxidative phosphorylation	41.76	38 of 91
66794	degradation of aromatic, nitrogen containing compounds	41.67	5 of 12
66794	arachidonate biosynthesis	40	2 of 5
66794	propionate fermentation	40	4 of 10
66794	glycine metabolism	40	4 of 10
66794	D-cycloserine biosynthesis	40	2 of 5
66794	hydrogen production	40	2 of 5
66794	degradation of hexoses	38.89	7 of 18
66794	urea cycle	38.46	5 of 13
66794	sulfate reduction	38.46	5 of 13
66794	ketogluconate metabolism	37.5	3 of 8
66794	acetyl CoA biosynthesis	33.33	1 of 3
66794	selenocysteine biosynthesis	33.33	2 of 6
66794	arachidonic acid metabolism	33.33	6 of 18
66794	IAA biosynthesis	33.33	1 of 3
66794	pantothenate biosynthesis	33.33	2 of 6
66794	carotenoid biosynthesis	31.82	7 of 22
66794	ascorbate metabolism	27.27	6 of 22
66794	d-xylose degradation	27.27	3 of 11
66794	cholesterol biosynthesis	27.27	3 of 11
66794	butanoate fermentation	25	1 of 4
66794	lactate fermentation	25	1 of 4
66794	cyclohexanol degradation	25	1 of 4
66794	toluene degradation	25	1 of 4
66794	catecholamine biosynthesis	25	1 of 4
66794	alginate biosynthesis	25	1 of 4
66794	androgen and estrogen metabolism	25	4 of 16
66794	bile acid biosynthesis, neutral pathway	23.53	4 of 17

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Engineered	#Industrial	#Machines and devices
#Environmental	#Biofilm	-

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
20652	biofilm in a methanol-fed denitrification system treating seawater	Montréal, Biodome	Canada	CAN	North America

Taxonmaps

69479

Global distribution of 16S sequence GU567815 (>99% sequence identity) for Methylophaga frappieri subclade from Microbeatlas

Aquatic Samples	188
Soil Samples	31
Animal Samples	44
Plant Samples	5
Total Samples	268

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
20652	1	Risk group (German classification)

Sequence information

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
20652	Methylophaga frappieri strain JAM7 16S ribosomal RNA gene, partial sequence	GU567815	1423		754477

GC content

@ref	GC-content (mol%)	Method
20652	47.8	sequence analysis
30798	47.8

Genome-based predictions

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Methylophaga nitratireducenticrescens sp. nov. and Methylophaga frappieri sp. nov., isolated from the biofilm of the methanol-fed denitrification system treating the seawater at the Montreal Biodome.	Villeneuve C, Martineau C, Mauffrey F, Villemur R	Int J Syst Evol Microbiol	10.1099/ijs.0.044545-0	2012

References

#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 )
#20652	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 25690
#27129	IJSEM 2216 2013 ( DOI 10.1099/ijs.0.044545-0 , PubMed 23148104 )
#30798	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 #27129
#66794	Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg: BRENDA, the ELIXIR core data resource in 2021: new developments and updates. Nucleic Acids Res. 49: D498 - D508 2020 ( DOI 10.1093/nar/gkaa1025 , PubMed 33211880 )
#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 .
#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 )

Rate our new design

Content

About us

Methylophaga frappieri (DSM 25690, ATCC BAA-2434, JAM 7)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Pigmentation

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Halophily

Observation

Enzymes

Pathway annotation

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

16S sequences

GC content

Genome-based predictions

Literature

Literature

References

BacDive

Help

Social Media