Name: Methylobacterium phyllosphaerae CBMB27
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 7192

Type strain:

Species: Methylobacterium phyllosphaerae

Strain Designation: CBMB27, EF 126746

Culture col. no.: DSM 19779, KACC 11716, LMG 24361, JCM 16408

Strain history: KACC 11716 <-- T.-M. Sa CBMB27.

NCBI tax ID(s): 1295137 (strain), 418223 (species)

SI-ID 360511

DSM 19779, KACC 11716, LMG 24361, JCM 16408

Special Collections

Section

Methylobacterium phyllosphaerae CBMB27 is an aerobe, Gram-negative, motile bacterium that was isolated from leaf of the rice Oryza sativa L. cv. Dong-Jin.

Gram-negative
motile
rod-shaped
aerobe
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 phyllosphaerae**
	Full Scientific Name (LPSN)	Methylobacterium phyllosphaerae Madhaiyan et al. 2009

Information on morphological and physiological properties Morphology

[Ref.: #28925]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %97.802

[Ref.: #28925]	Cell length	2.25 µm

[Ref.: #28925]	Cell width	0.64 µm

[Ref.: #28925]	Cell shape	rod-shaped

[Ref.: #28925]	Motility	yes

[Ref.: #28925]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #8312]

Culture medium

NUTRIENT AGAR (DSMZ Medium 1)

[Ref.: #8312]

Culture medium growth

[Ref.: #8312]

Culture medium link

Medium recipe at MediaDive

[Ref.: #8312]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #8312]	growth	28 °C
[Ref.: #28925]	growth	20-30 °C
[Ref.: #28925]	optimum	28 °C
[Ref.: #67770]	growth	30 °C

	pH	Kind of pH		pH
[Ref.: #28925]			optimum	6.8
[Ref.: #28925]			growth	05-09

Information on physiology and metabolism Physiology and metabolism

[Ref.: #28925]

Oxygen tolerance

aerobe

[Ref.: #28925]	Ability of spore formation	no
[Ref.: #69481]	Ability of spore formation	no Confidence in %100

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #28925]		NaCl		growth	<2.0	%

[Ref.: #28925]

Observation

aggregates in clumps

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #28925]	2-dehydro-D-gluconate ChEBI	+	carbon source
[Ref.: #28925]	2-oxopentanoate ChEBI	+	carbon source
[Ref.: #28925]	3-hydroxybutyrate ChEBI	+	carbon source
[Ref.: #28925]	4-hydroxybenzoate ChEBI	+	carbon source
[Ref.: #28925]	5-dehydro-D-gluconate ChEBI	+	carbon source
[Ref.: #28925]	acetate ChEBI	+	carbon source
[Ref.: #28925]	adipate ChEBI	+	carbon source
[Ref.: #28925]	alanine ChEBI	+	carbon source
[Ref.: #28925]	arabinose ChEBI	+	carbon source
[Ref.: #28925]	asparagine ChEBI	+	carbon source
[Ref.: #28925]	aspartate ChEBI	+	carbon source
[Ref.: #28925]	citrate ChEBI	+	carbon source
[Ref.: #28925]	ethanol ChEBI	+	carbon source
[Ref.: #28925]	ethanolamine ChEBI	+	carbon source
[Ref.: #28925]	formate ChEBI	+	carbon source
[Ref.: #28925]	fructose ChEBI	+	carbon source
[Ref.: #28925]	fucose ChEBI	+	carbon source
[Ref.: #28925]	galactonate ChEBI	+	carbon source
[Ref.: #28925]	galacturonate ChEBI	+	carbon source
[Ref.: #28925]	gluconate ChEBI	+	carbon source
[Ref.: #28925]	glucose ChEBI	+	carbon source
[Ref.: #28925]	glutamate ChEBI	+	carbon source
[Ref.: #28925]	glycerol ChEBI	+	carbon source
[Ref.: #28925]	glycogen ChEBI	+	carbon source
[Ref.: #28925]	itaconate ChEBI	+	carbon source
[Ref.: #28925]	L-alaninamide ChEBI	+	carbon source
[Ref.: #28925]	lactate ChEBI	+	carbon source
[Ref.: #28925]	malate ChEBI	+	carbon source
[Ref.: #28925]	melibiose ChEBI	+	carbon source
[Ref.: #28925]	methyl pyruvate ChEBI	+	carbon source
[Ref.: #28925]	proline ChEBI	+	carbon source
[Ref.: #28925]	propionate ChEBI	+	carbon source
[Ref.: #28925]	rhamnose ChEBI	+	carbon source
[Ref.: #28925]	ribose ChEBI	+	carbon source
[Ref.: #28925]	salicin ChEBI	+	carbon source
[Ref.: #28925]	serine ChEBI	+	carbon source
[Ref.: #28925]	sorbitol ChEBI	+	carbon source
[Ref.: #28925]	succinate ChEBI	+	carbon source
[Ref.: #28925]	sucrose ChEBI	+	carbon source
[Ref.: #28925]	tween 80 ChEBI	+	carbon source
[Ref.: #28925]	urea ChEBI	+	carbon source
[Ref.: #28925]	xylose ChEBI	+	carbon source
	Only first 10 entries are displayed. Click here to see all.

	Enzyme	Enzyme activity	EC number
[Ref.: #28925]	acid phosphatase	+	3.1.3.2
[Ref.: #28925]	catalase	+	1.11.1.6
[Ref.: #28925]	cytochrome oxidase	+	1.9.3.1
[Ref.: #28925]	urease	+	3.5.1.5

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

[Ref.: #8312]	Sample type/isolated from	leaf of the rice Oryza sativa L. cv. Dong-Jin
[Ref.: #8312]	Host species	Oryza sativa
[Ref.: #8312]	Geographic location (country and/or sea, region)	Iksan, Ho-nam
[Ref.: #8312]	Country	Republic of Korea
[Ref.: #8312]	Country ISO 3 Code	KOR
[Ref.: #8312]	Continent	Asia

[Ref.: #67770]	Sample type/isolated from	Leaf tissues of rice (Oryza sativa L. 'Dong-Jin')
[Ref.: #67770]	Host species	Oryza sativa
* marker position based on {}

Isolation sources categories

#Host	#Plants	#Herbaceous plants (Grass,Crops)
#Host Body-Site	#Plant	#Leaf (Phyllosphere)

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence EF126746 (>99% sequence identity) for Methylobacterium from Microbeatlas

Aquatic Samples	1020
Soil Samples	439
Animal Samples	1696
Plant Samples	535
Total Samples	3690

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

[Ref.: #8312]

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.: #8312]	Methylobacterium phyllosphaerae strain CBMB27 16S ribosomal RNA gene, partial sequence	EF126746	1367	GenBank ENA	418223 tax ID

Genome sequence information:

Only first 5 entries are displayed. Click here to see all.

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Methylobacterium phyllosphaerae CBMB27	GCA_001936175	complete	GenBank ENA	418223 tax ID	*
[Ref.: #66792]	Methylobacterium phyllosphaerae CBMB27	GCA_900113465	scaffold	GenBank ENA	418223 tax ID	*
[Ref.: #66792]	Methylobacterium phyllosphaerae JCM 16408	GCA_001312285	contig	GenBank ENA	1295137 tax ID	*
[Ref.: #66792]	Methylobacterium phyllosphaerae JCM 16408	1295137.3	wgs	PATRIC	1295137 tax ID	*
[Ref.: #66792]	Methylobacterium phyllosphaerae CBMB27	2651870129	draft	JGI IMG/M	418223 tax ID	*
[Ref.: #66792]	Methylobacterium phyllosphaerae JCM 16408	2728369718	draft	JGI IMG/M	1295137 tax ID	*

[Ref.: #8312]	GC-content	66.8 mol%
[Ref.: #67770]	GC-content	66.8 mol%	high performance liquid chromatography (HPLC)

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

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Methylobacterium phyllosphaerae CBMB27 NCBI: GCA_001936175.1
[Ref.: #69481]	spore-forming	spore-formingⓘ	no	100	no

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Methylobacterium phyllosphaerae CBMB27 NCBI: GCA_001936175.1
[Ref.: #69480]	gram-positive	gram-positiveⓘ	no	97.802	yes
[Ref.: #69480]	anaerobic	anaerobicⓘ	no	96.464	no
[Ref.: #69480]	aerobic	aerobicⓘ	yes	88.73	yes
[Ref.: #69480]	spore-forming	spore-formingⓘ	no	88.923	yes
[Ref.: #69480]	thermophilic	thermophileⓘ	no	96.499	yes
[Ref.: #69480]	flagellated	motile2+ⓘ	yes	69.611	no

Availability in culture collections External links

[Ref.: #8312]

Culture collection no.

DSM 19779, KACC 11716, LMG 24361, JCM 16408

[Ref.: #76645]

SI-ID 360511

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Methylobacterium radiodurans sp. nov., a novel radiation-resistant Methylobacterium.	Maeng S, Kim DU, Lim S, Lee BH, Lee KE, Kim M, Srinivasan S, Bai J	Arch Microbiol	10.1007/s00203-021-02293-8	2021	*
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 dankookense sp. nov., isolated from drinking water.	Lee SW, Oh HW, Lee KH, Ahn TY	J Microbiol	10.1007/s12275-009-0126-6	2010	*
Phylogeny	Methylobacterium phyllosphaerae sp. nov., a pink-pigmented, facultative methylotroph from the phyllosphere of rice.	Madhaiyan M, Poonguzhali S, Kwon SW, Sa TM	Int J Syst Evol Microbiol	10.1099/ijs.0.001693-0	2009	*

References

#8312

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 19779

#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 )

#28925

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 #25364 (see below)

#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;

#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) .

#69481

Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch: Predictions based on the model GenomeNet Sporulation v. 1 . ( DOI 10.21203/rs.3.rs-2527258/v1 )

#76645

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-ID360511.1 )

#25364

IJSEM 22 2009 ( DOI 10.1099/ijs.0.001693-0 , PubMed 19126717 )

* These data were automatically processed and therefore are not curated

Change proposal

You found an error in BacDive? Please tell us about it!

Note that changes will be reviewed and judged. If your changes are legitimate, changes will occur within the next BacDive update. Only proposed changes supported by the according reference will be reviewed. The BacDive team reserves the right to reject proposed changes.

Search for species Methylobacterium phyllosphaerae in external resources:
SILVA
BRENDA
PANGAEA
GBIF