Name: Methylorubrum populi BJ001
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 133659

Type strain:

Species: Methylorubrum populi

Strain Designation: BJ001

Culture col. no.: ATCC BAA-705, NCIM B13946

NCBI tax ID(s): 223967 (species)

Section

Methylorubrum populi BJ001 is an aerobe, Gram-negative, motile bacterium that was isolated from plant endophyte.

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	*Methylorubrum*
	Species	**Methylorubrum populi**
	Full Scientific Name (LPSN)	Methylorubrum populi (Van Aken et al. 2004) Green and Ardley 2018

Synonym

Methylobacterium populi

Information on morphological and physiological properties Morphology

[Ref.: #29990]	Gram stain	negative

[Ref.: #29990]	Cell length	5.5 µm

[Ref.: #29990]	Cell width	0.9 µm

[Ref.: #29990]	Cell shape	rod-shaped

[Ref.: #29990]	Motility	yes

[Ref.: #29990]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

	Temperatures	Kind of temperature		Temperature
[Ref.: #29990]			growth	15-40 °C
[Ref.: #29990]			optimum	25 °C

[Ref.: #29990]

Temperature range

mesophilic

	pH	Kind of pH		pH
[Ref.: #29990]			optimum	7
[Ref.: #29990]			growth	4.0-9.0

Information on physiology and metabolism Physiology and metabolism

[Ref.: #29990]

Oxygen tolerance

aerobe

[Ref.: #29990]

Ability of spore formation

[Ref.: #29990]

Observation

aggregates in clumps

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #29990]	acetate ChEBI	+	carbon source
[Ref.: #29990]	ethanol ChEBI	+	carbon source
[Ref.: #29990]	formate ChEBI	+	carbon source
[Ref.: #29990]	fructose ChEBI	+	carbon source
[Ref.: #29990]	glycerol ChEBI	+	carbon source
[Ref.: #29990]	lactate ChEBI	+	carbon source
[Ref.: #29990]	pyruvate ChEBI	+	carbon source
[Ref.: #29990]	succinate ChEBI	+	carbon source

	Enzyme	Enzyme activity	EC number
[Ref.: #29990]	acid phosphatase	+	3.1.3.2
[Ref.: #29990]	alkaline phosphatase	+	3.1.3.1
[Ref.: #29990]	catalase	+	1.11.1.6
[Ref.: #29990]	cytochrome oxidase	+	1.9.3.1

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

[Ref.: #29990]	Sample type/isolated from	plant endophyte
* marker position based on {}

Isolation sources categories

#Host	#Other	-
#Host	#Plants	-

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AY251818 (>99% sequence identity) for Methylorubrum from Microbeatlas

Aquatic Samples	23711
Soil Samples	23280
Animal Samples	47578
Plant Samples	16159
Total Samples	110728

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.: #29990]	Methylobacterium sp. BJ001 16S ribosomal RNA gene and 16S-23S ribosomal RNA intergenic spacer, complete sequence; and 23S ribosomal RNA gene, partial sequence	AY251818	2243	GenBank	441620 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Methylorubrum populi BJ001	GCA_000019945	complete	GenBank	441620 tax ID	*
[Ref.: #66792]	Methylorubrum populi BJ001	642555139	complete	JGI IMG/M	441620 tax ID	*

[Ref.: #29990]

GC-content

70.4 mol%

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

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Methylorubrum populi BJ001 BJ001 NCBI: GCA_000019945.1
[Ref.: #69480]	motile	yes	89.16	yes
[Ref.: #69480]	flagellated	no	72.488	no
[Ref.: #69480]	gram-positive	no	97.562	yes
[Ref.: #69480]	anaerobic	no	97.424	no
[Ref.: #69480]	aerobic	yes	85.648	yes
[Ref.: #69480]	halophile	no	94.272	no
[Ref.: #69480]	spore-forming	no	92.084	yes
[Ref.: #69480]	thermophile	no	98.881	no
[Ref.: #69480]	glucose-util	yes	90.359	no
[Ref.: #69480]	glucose-ferment	no	88.684	no

Availability in culture collections External links

[Ref.: #29990]

Culture collection no.

ATCC BAA-705, NCIM B13946

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Review of the genus Methylobacterium and closely related organisms: a proposal that some Methylobacterium species be reclassified into a new genus, Methylorubrum gen. nov.	Green PN, Ardley JK	Int J Syst Evol Microbiol	10.1099/ijsem.0.002856	2018	*
Phylogeny	Methylobacterium populi sp. nov., a novel aerobic, pink-pigmented, facultatively methylotrophic, methane-utilizing bacterium isolated from poplar trees (Populus deltoides x nigra DN34).	Van Aken B, Peres CM, Doty SL, Yoon JM, Schnoor JL	Int J Syst Evol Microbiol	10.1099/ijs.0.02796-0	2004	*
Metabolism	Mixed regiospecificity compromises alkene synthesis by a cytochrome P450 peroxygenase from Methylobacterium populi.	Amaya JA, Rutland CD, Makris TM	J Inorg Biochem	10.1016/j.jinorgbio.2016.02.031	2016	*

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 )

#29990

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 #26357 (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) .

#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) .

#26357

IJSEM 1191 2004 ( DOI 10.1099/ijs.0.02796-0 , PubMed 15280290 )

* These data were automatically processed and therefore are not curated

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Methylorubrum populi BJ001 BJ001

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