Methylobacterium sp. (JCM 14673)

Name: Methylobacterium sp. (JCM 14673)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 161512

Type strain

Culture col. no. JCM 14673

NCBI tax ID(s) 409

Special Collections JCM

Links

JCM 14673 is a mesophilic prokaryote that was isolated from Stem of cultivated rice, Oryza sativa SC-41.

mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 359520

JCM 14673

@ref 20215

Last LPSN update 2025-12-16 10:08:45

Domain Pseudomonadati

Phylum Pseudomonadota

Class Alphaproteobacteria

Order Hyphomicrobiales

Family Methylobacteriaceae

Genus Methylobacterium

Full scientific name Methylobacterium Patt et al. 1976 (Approved Lists 1980)

Morphology

Cell morphology

@ref	Gram stain	Confidence
125438	negative	97.802
125439	negative	92.3

Culture and growth conditions

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
67770	positive	growth	30	mesophilic

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	aerobe	93.2

Spore formation

@ref	Spore formation	Confidence
125439		94.4

Isolation, sampling and environmental information

Isolation

@ref	Sample type	Host species
67770	Stem of cultivated rice, Oryza sativa SC-41	Oryza sativa

Interaction and safety

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID
67770	ASM33325v1 assembly for Methylobacterium sp. B1	contig	GCA_000333255	91459.3	2551306656	91459

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
67770	Methylobacterium sp. B1 gene for 16S ribosomal RNA, partial sequence	AB025600	433		91459

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Methylobacterium sp. B1
NCBI: GCA_000333255

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	94.40	no
125439	motility	BacteriaNetⓘ	yes	57.80	no
125439	gram_stain	BacteriaNetⓘ	negative	92.30	no
125439	oxygen_tolerance	BacteriaNetⓘ	aerobe	93.20	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Methylobacterium sp. B1 B1
NCBI: GCA_000333255.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	97.80	no
125438	anaerobic	anaerobicⓘ	no	94.45	no
125438	aerobic	aerobicⓘ	yes	84.36	no
125438	spore-forming	spore-formingⓘ	no	89.42	no
125438	thermophilic	thermophileⓘ	no	98.00	yes
125438	flagellated	motile2+ⓘ	yes	69.89	no

Literature

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;
#125438	Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann: Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets. 2024 ( DOI 10.1101/2024.08.12.607695 )
#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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