Name: Methylocucumis oryzae JCM 32869
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 164401

Type strain:

Species: Methylocucumis oryzae

Culture col. no.: JCM 32869, KCTC 15683, MCC 3492

Strain history: M. C. Rahalkar; Agharkar Res. Inst., India; Sn10-6.

NCBI tax ID(s): 1632867 (species)

Special Collections

JCM
KCTC

Section

Methylocucumis oryzae JCM 32869 is a mesophilic, Gram-negative bacterium that was isolated from Flooded rice field rhizosphere in Junnar.

Gram-negative
mesophilic
16S sequence
Bacteria
genome sequence

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	09-12-2024 (DD-MM-YYYY)
	Domain	*Bacteria*
	Phylum	*Pseudomonadota*
	Class	*Gammaproteobacteria*
	Order	*Methylococcales*
	Family	*Methylococcaceae*
	Genus	*Methylocucumis*
	Species	**Methylocucumis oryzae**
	Full Scientific Name (LPSN)	Methylocucumis oryzae Pandit and Rahalkar 2019

Synonym

"Candidatus Methylocucumis oryzae"

Information on morphological and physiological properties Morphology

[Ref.: #69480]	Gram stain	negative Confidence in %98

Information on culture and growth conditions Culture and growth conditions

	Temperatures	Kind of temperature		Temperature
[Ref.: #67770]			growth	25 °C

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

[Ref.: #67770]	Sample type/isolated from	Flooded rice field rhizosphere in Junnar
[Ref.: #67770]	Geographic location (country and/or sea, region)	Maharashtra State
[Ref.: #67770]	Country	India
[Ref.: #67770]	Country ISO 3 Code	IND
[Ref.: #67770]	Continent	Asia
* marker position based on {}

[Ref.: #69479]

Global distribution of 16S sequence KP793700 (>99% sequence identity) for Methylocucumis oryzae subclade from Microbeatlas

Aquatic Samples	1117
Soil Samples	141
Animal Samples	54
Plant Samples	152
Total Samples	1464

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.: #67770]	Methylocucumis oryzae strain Sn10-6 16S ribosomal RNA gene, partial sequence	KP793700	1522	GenBank ENA	1632867 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Methylocucumis oryzae Sn10-6	GCA_000963695	contig	GenBank ENA	1632867 tax ID

[Ref.: #67770]

GC-content

43.9 mol%

genome sequence analysis

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

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Methylocucumis oryzae Sn10-6 NCBI: GCA_000963695.1
[Ref.: #69480]	gram-positive	gram-positiveⓘ	no	98	no
[Ref.: #69480]	anaerobic	anaerobicⓘ	no	82.301	no
[Ref.: #69480]	aerobic	aerobicⓘ	yes	73.399	no
[Ref.: #69480]	spore-forming	spore-formingⓘ	no	88.059	no
[Ref.: #69480]	thermophilic	thermophileⓘ	no	94.462	no
[Ref.: #69480]	flagellated	motile2+ⓘ	yes	60.699	no

Availability in culture collections External links

[Ref.: #67770]

Culture collection no.

JCM 32869, KCTC 15683, MCC 3492

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Renaming of 'Candidatus Methylocucumis oryzae' as Methylocucumis oryzae gen. nov., sp. nov., a novel Type I methanotroph isolated from India.	Pandit PS, Rahalkar MC	Antonie Van Leeuwenhoek	10.1007/s10482-018-01218-8	2018	*
Phylogeny	Description of 'Candidatus Methylocucumis oryzae', a novel Type I methanotroph with large cells and pale pink colour, isolated from an Indian rice field.	Pandit PS, Hoppert M, Rahalkar MC	Antonie Van Leeuwenhoek	10.1007/s10482-018-1136-3	2018	*

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 )

#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 .

#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) .

* These data were automatically processed and therefore are not curated

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Methylocucumis oryzae Sn10-6

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