Name: Methylobacterium organophilum XX
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 7150

Type strain:

Species: Methylobacterium organophilum

Strain Designation: XX

Culture col. no.: DSM 760, ATCC 27886, NCIB 11278, JCM 2833, BCRC 10934, CCM 4460, CIP 101049, HAMBI 2263, IFO 15689, LMG 6083, NBRC 15689, NCCB 78041, NCIMB 11278, VKM B-2066

Strain history: T. Urakami TK 0047 <-- ATCC 27886 <-- R. Hanson XX.

NCBI tax ID(s): 410 (species)

SI-ID 3561

LMG 6083, ATCC 27886, DSM 760, JCM 2833, NCIB 11278, CIP 101049, CCRC 10934, IFO 15689, NCIMB 11278, CCM 4460, VKM B-2066, NBRC 15689, NCCB 78041, LMD 78.41, HAMBI 2263, BCRC 10934, DSM 18172, CCUG 55902

Other strains from Methylobacterium organophilum

M. organophilum XX, DSM 18172, ATCC 27886, CIP ... (type strain)
M. organophilum 998-85, CIP 102028
M. organophilum 535-86, CIP 102545
M. organophilum CCUG 37468

Section

Methylobacterium organophilum XX is a mesophilic bacterium that was isolated from sediment.

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	*Alphaproteobacteria*
	Order	*Hyphomicrobiales*
	Family	*Methylobacteriaceae*
	Genus	*Methylobacterium*
	Species	**Methylobacterium organophilum**
	Full Scientific Name (LPSN)	Methylobacterium organophilum Patt et al. 1976 (Approved Lists 1980)

Information on culture and growth conditions Culture and growth conditions

[Ref.: #432]

Culture medium

NUTRIENT AGAR (DSMZ Medium 1)

[Ref.: #432]

Culture medium growth

[Ref.: #432]

Culture medium link

Medium recipe at MediaDive

[Ref.: #432]

Culture medium composition

expand / minimize

[Ref.: #38089]

Culture medium

MEDIUM 54 - for Methylobacterium organophilum and M. rhodinum

[Ref.: #38089]

Culture medium growth

[Ref.: #38089]

Culture medium composition

expand / minimize

[Ref.: #121432]

Culture medium

CIP Medium 72

[Ref.: #121432]

Culture medium growth

[Ref.: #121432]

Culture medium link

Medium recipe provided by DSMZ

[Ref.: #121432]

Culture medium

CIP Medium 54

[Ref.: #121432]

Culture medium growth

[Ref.: #121432]

Culture medium link

Medium recipe provided by DSMZ

		Temperature
[Ref.: #432]	growth	30 °C
[Ref.: #38089]	growth	25 °C
[Ref.: #67770]	growth	30 °C

[Ref.: #432]	Temperature range	mesophilic
[Ref.: #38089]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic

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

[Ref.: #432]	Sample type/isolated from	sediment
[Ref.: #432]	Geographic location (country and/or sea, region)	Madison, Lake Mendota
[Ref.: #432]	Country	USA
[Ref.: #432]	Country ISO 3 Code	USA
[Ref.: #432]	Continent	North America

[Ref.: #67770]	Sample type/isolated from	Lake Mendota
[Ref.: #67770]	Geographic location (country and/or sea, region)	Madison, WI
[Ref.: #67770]	Country	USA
[Ref.: #67770]	Country ISO 3 Code	USA
[Ref.: #67770]	Continent	North America
* marker position based on {}

Isolation sources categories

#Environmental	#Aquatic	#Sediment
#Environmental	#Terrestrial	#Sediment

What are isolation sources categories?

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

[Ref.: #432]

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.: #432]	Methylobacterium radiotolerans gene for 16S ribosomal RNA, partial sequence, strain:DSM 760	AB175637	1433	ENA	31998 tax ID
[Ref.: #67770]	Methylobacterium organophilum gene for 16S rRNA, strain: JCM 2833	D32226	1405	ENA	410 tax ID
[Ref.: #67770]	Methylobacterium organophilum gene for 16S ribosomal RNA, partial sequence, strain:JCM 2833	AB175639	1433	ENA	410 tax ID
[Ref.: #67770]	M.organophilum 16S rRNA	M29028	1316	ENA	410 tax ID
[Ref.: #432]	Methylobacterium organophilum gene for 16S ribosomal RNA, partial sequence, strain:ATCC 27886	AB175638	1433	ENA	410 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Methylobacterium organophilum strain DSM 760	410.10	wgs	PATRIC	410 tax ID	*
[Ref.: #66792]	Methylobacterium organophilum DSM 760	2756170276	draft	JGI IMG/M	410 tax ID	*
[Ref.: #66792]	Methylobacterium organophilum NBRC 15689	GCA_022179465	contig	GenBank	410 tax ID	*

[Ref.: #432]	GC-content	66.0 mol%
[Ref.: #67770]	GC-content	66 mol%	thermal denaturation, midpoint method (Tm)
[Ref.: #67770]	GC-content	66.8 mol%	thermal denaturation, midpoint method (Tm)

Data predicted using genome information as a basis Genome-based predictions

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Methylobacterium organophilum strain DSM 760 PATRIC: 410.10
[Ref.: #69480]	gram-positive	no	97.546	no
[Ref.: #69480]	anaerobic	no	98.258	no
[Ref.: #69480]	halophile	no	89.231	no
[Ref.: #69480]	spore-forming	no	92.41	no
[Ref.: #69480]	glucose-util	yes	87.96	no
[Ref.: #69480]	aerobic	yes	91.52	no
[Ref.: #69480]	flagellated	no	75.899	no
[Ref.: #69480]	motile	yes	91.121	no
[Ref.: #69480]	thermophile	no	99.461	yes
[Ref.: #69480]	glucose-ferment	no	87.792	no

Availability in culture collections External links

[Ref.: #432]

Culture collection no.

DSM 760, ATCC 27886, NCIB 11278, JCM 2833, BCRC 10934, CCM 4460, CIP 101049, HAMBI 2263, IFO 15689, LMG 6083, NBRC 15689, NCCB 78041, NCIMB 11278, VKM B-2066

[Ref.: #76604]

SI-ID 3561

Literature:

Only first 10 entries are displayed. Click here to see all.

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Genomic Metrics Applied to Rhizobiales (Hyphomicrobiales): Species Reclassification, Identification of Unauthentic Genomes and False Type Strains.	Volpiano CG, Sant'Anna FH, Ambrosini A, de Sao Jose JFB, Beneduzi A, Whitman WB, de Souza EM, Lisboa BB, Vargas LK, Passaglia LMP	Front Microbiol	10.3389/fmicb.2021.614957	2021	*
Phylogeny	Methylobacterium terricola sp. nov., a gamma radiation-resistant bacterium isolated from gamma ray-irradiated soil.	Kim J, Chhetri G, Kim I, Lee B, Jang W, Kim MK, Seo T	Int J Syst Evol Microbiol	10.1099/ijsem.0.004054	2020	*
Metabolism	Methylobacterium durans sp. nov., a radiation-resistant bacterium isolated from gamma ray-irradiated soil.	Kim J, Chhetri G, Kim I, Kim MK, Seo T	Antonie Van Leeuwenhoek	10.1007/s10482-019-01331-2	2019	*
Phylogeny	Methylobacterium terrae sp. nov., a radiation-resistant bacterium isolated from gamma ray-irradiated soil.	Kim J, Chhetri G, Kim I, Kim H, Kim MK, Seo T	J Microbiol	10.1007/s12275-019-9007-9	2019	*
Phylogeny	Psychroglaciecola arctica gen. nov., sp. nov., isolated from Arctic glacial foreland soil.	Qu Z, Jiang F, Chang X, Qiu X, Ren L, Fang C, Peng F	Int J Syst Evol Microbiol	10.1099/ijs.0.060913-0	2014	*
Phylogeny	Methylobacterium haplocladii sp. nov. and Methylobacterium brachythecii sp. nov., isolated from bryophytes.	Tani A, Sahin N	Int J Syst Evol Microbiol	10.1099/ijs.0.048215-0	2013	*
Phylogeny	Methylobacterium trifolii sp. nov. and Methylobacterium thuringiense sp. nov., methanol-utilizing, pink-pigmented bacteria isolated from leaf surfaces.	Wellner S, Lodders N, Glaeser SP, Kampfer P	Int J Syst Evol Microbiol	10.1099/ijs.0.047787-0	2013	*
Phylogeny	Methylobacterium gnaphalii sp. nov., isolated from leaves of Gnaphalium spicatum.	Tani A, Sahin N, Kimbara K	Int J Syst Evol Microbiol	10.1099/ijs.0.037713-0	2011	*
Phylogeny	Methylobacterium jeotgali sp. nov., a non-pigmented, facultatively methylotrophic bacterium isolated from jeotgal, a traditional Korean fermented seafood.	Aslam Z, Lee CS, Kim KH, Im WT, Ten LN, Lee ST	Int J Syst Evol Microbiol	10.1099/ijs.0.64625-0	2007	*
Phylogeny	Bosea minatitlanensis sp. nov., a strictly aerobic bacterium isolated from an anaerobic digester.	Ouattara AS, Assih EA, Thierry S, Cayol JL, Labat M, Monroy O, Macarie H	Int J Syst Evol Microbiol	10.1099/ijs.0.02540-0	2003	*
Metabolism	Sequence analysis of pqq genes required for biosynthesis of pyrroloquinoline quinone in Methylobacterium extorquens AM1 and the purification of a biosynthetic intermediate.	Toyama H, Chistoserdova L, Lidstrom ME	Microbiology (Reading)	10.1099/00221287-143-2-595	1997	*
Phylogeny	Isolation, phenotypic characterization, and complementation analysis of mutants of Methylobacterium extorquens AM1 unable to synthesize pyrroloquinoline quinone and sequences of pqqD, pqqG, and pqqC.	Morris CJ, Biville F, Turlin E, Lee E, Ellermann K, Fan WH, Ramamoorthi R, Springer AL, Lidstrom ME	J Bacteriol	10.1128/jb.176.6.1746-1755.1994	1994	*
Enzymology	Localization of a pyrroloquinoline quinone biosynthesis gene near the methanol dehydrogenase structural gene in Methylobacterium organophilum DSM 760.	Mazodier P, Biville F, Turlin E, Gasser F	J Gen Microbiol	10.1099/00221287-134-9-2513	1988	*

References

#432	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 760

#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 )

#38089 ; Curators of the CIP;

#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;

#69480

Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .

#76604

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-ID3561.1 )

#121432 Collection of Institut Pasteur ; Curators of the CIP; CIP 101049
* These data were automatically processed and therefore are not curated

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Methylobacterium organophilum strain DSM 760

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