Methylophilus glucosoxydans (DSM 5898, CCUG 59685, VKM B-1607)

Name: Methylophilus glucosoxydans (DSM 5898, CCUG 59685, VKM B-1607)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 7240

Status isotype of 131041

Type strain

Strain Designation B

Culture col. no. DSM 5898 CCUG 59685 VKM B-1607 B

NCBI tax ID(s) 752553

Special Collections DSMZ CCUG Literature strains

History DSMZ <- Acad. L. Kalakouzky and M. Vainstein, IBPhM USSR Acad Sci.

Links

Methylophilus glucosoxydans B is an aerobe, Gram-negative, motile bacterium that was isolated from rhizosphere of rice .

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

Name and taxonomic classification

SI-ID 48023

DSM 5898,VKM B-1607,CCUG 59685

@ref 20215

Last LPSN update 2026-05-29 08:26:36

Domain Bacteria

Phylum Pseudomonadota

Class Betaproteobacteria

Order Spirillales

Family Methylophilaceae

Genus Methylophilus

Species Methylophilus glucosoxydans

Full scientific name Methylophilus glucosoxydans Doronina et al. 2012

BacDive ID	Other strains from **Methylophilus glucosoxydans** (1)	Type strain
131041	M. glucosoxydans B, DSM 23627, VKM 1607

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Motility	Confidence
29893	negative	1.0-2.5 µm	0.3-0.5 µm	rod-shaped
125439	negative					96.505

Pigmentation

29893

Productionyes

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
2155	2% MH MEDIUM (DSMZ Medium 620)		Medium recipe at MediaDive	Name: 2% MH MEDIUM (DSMZ Medium 620) Composition: Methanol 20.0 g/l (NH4)2SO4 2.0 g/l KH2PO4 2.0 g/l Glucose 1.5 g/l NaCl 0.5 g/l MgSO4 x 7 H2O 0.025 g/l FeSO4 x 7 H2O 0.002 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)
2155	positive	growth	28
29893	positive	growth	10-34
29893	positive	optimum	28-30

Culture pH

@ref	Ability	Type	PH
29893	positive	optimum	7.0-7.6
29893	positive	growth	6.5-8.0

Physiology and metabolism

Oxygen tolerance

29893

Oxygen toleranceaerobe

Spore formation

@ref	Spore formation	Confidence
29893
125439		99.201

Halophily

@ref	Salt	Growth	Tested relation	Concentration
29893	NaCl	positive	growth	0.05-0.5 %
29893	NaCl	positive	optimum	0.05 %

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
29893	17234 ChEBI	glucose	+	carbon source
29893	17632 ChEBI	nitrate	+	reduction

Metabolite production

@ref	Chebi-ID	Metabolite	Production
29893	35581 ChEBI	indole

Metabolite tests

@ref	Chebi-ID	Metabolite	Indole test
29893	35581 ChEBI	indole	+

Enzymes

@ref	Value	Activity	Ec
29893	cytochrome oxidase	+	1.9.3.1
29893	urease	+	3.5.1.5

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Host	#Plants	#Herbaceous plants (Grass,Crops)
#Host Body-Site	#Plant	#Rhizosphere

Isolation

@ref	Sample type	Host species	Country	Country ISO 3 Code	Continent
2155	rhizosphere of rice (Oryza sativa L.)	Oryza sativa	Vietnam	VNM	Asia

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
2155	1	Risk group (German classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	NCBI tax ID	Score
124043	ASM4267614v1 assembly for Methylophilus glucosoxydans CCUG 59685	contig	GCA_042676145	752553	66.8

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
2155	Methylophilus glucosoxydans strain B 16S ribosomal RNA gene, partial sequence	HM001269	1387		752553

GC content

@ref	GC-content (mol%)	Method
2155	52.5	thermal denaturation, midpoint method (Tm)
29893	52.5

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: ASM4267614v1 assembly for Methylophilus glucosoxydans CCUG 59685
NCBI: GCA_042676145

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	obligate anaerobe	78.65	no
125439	gram_stain	BacteriaNetⓘ	negative	96.51	no
125439	motility	BacteriaNetⓘ	yes	54.47	no
125439	spore_formation	BacteriaNetⓘ	no	99.20	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Methylophilus glucosoxydans sp. nov., a restricted facultative methylotroph from rice rhizosphere.	Doronina NV, Gogleva AA, Trotsenko YA	Int J Syst Evol Microbiol	10.1099/ijs.0.024620-0	2011

References

#2155	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 5898
#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 )
#26266	IJSEM 196 2012 ( DOI 10.1099/ijs.0.024620-0 , PubMed 21378135 )
#29893	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 #26266
#124043	Isabel Schober, Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy .
#125439	Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy: deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 .
#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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Methylophilus glucosoxydans (DSM 5898, CCUG 59685, VKM B-1607)

Name and taxonomic classification

Morphology

Cell morphology

Pigmentation

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

Metabolite utilization

Metabolite production

Metabolite tests

Enzymes

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_042676145

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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