Name: Methylovulum miyakonense HT12
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 7213

Type strain:

Species: Methylovulum miyakonense

Strain Designation: HT12

Culture col. no.: DSM 23269, ATCC BAA-2070, NBRC 106162

Strain history: <- Y. Sakai, Kyoto Univ., Japan; HT12 <- H. Iguchi

NCBI tax ID(s): 645578 (species)

Section

Methylovulum miyakonense HT12 is an aerobe, Gram-negative, coccus-shaped bacterium that was isolated from forest soil.

coccus-shaped
Gram-negative
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	*Gammaproteobacteria*
	Order	*Methylococcales*
	Family	*Methylococcaceae*
	Genus	*Methylovulum*
	Species	**Methylovulum miyakonense**
	Full Scientific Name (LPSN)	Methylovulum miyakonense Iguchi et al. 2011

Information on morphological and physiological properties Morphology

[Ref.: #29728]	Gram stain	negative

[Ref.: #29728]	Cell length	2 µm

[Ref.: #29728]	Cell width	1.5 µm

[Ref.: #29728]	Cell shape	coccus-shaped

[Ref.: #29728]	Motility	no

[Ref.: #29728]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

	Temperatures	Kind of temperature		Temperature
[Ref.: #29728]			growth	05-34 °C
[Ref.: #29728]			optimum	28 °C

[Ref.: #29728]

Temperature range

mesophilic

	pH	Kind of pH		pH
[Ref.: #29728]			optimum	6.5
[Ref.: #29728]			growth	6-7.5

Information on physiology and metabolism Physiology and metabolism

[Ref.: #29728]

Oxygen tolerance

aerobe

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #29728]		NaCl		growth	<0.2	%

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

[Ref.: #16769]	Sample type/isolated from	forest soil
[Ref.: #16769]	Geographic location (country and/or sea, region)	Hyogo Prefecture
[Ref.: #16769]	Country	Japan
[Ref.: #16769]	Country ISO 3 Code	JPN
[Ref.: #16769]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Environmental	#Terrestrial	#Forest
#Environmental	#Terrestrial	#Soil

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AB501287 (>99% sequence identity) for Methylovulum miyakonense subclade from Microbeatlas

Aquatic Samples	861
Soil Samples	170
Animal Samples	37
Plant Samples	18
Total Samples	1086

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

[Ref.: #16769]

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.: #16769]	Methylovulum miyakonense gene for 16S ribosomal RNA, partial sequence	AB501287	1488	ENA	1078846 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Methylovulum miyakonense HT12	GCA_000384075	scaffold	GenBank	1078846 tax ID	*
[Ref.: #66792]	Methylovulum miyakonense HT12	1078846.3	wgs	PATRIC	1078846 tax ID	*
[Ref.: #66792]	Methylovulum miyakonense HT12	2516653058	draft	JGI IMG/M	1078846 tax ID	*

[Ref.: #16769]	GC-content	49.3 mol%	high performance liquid chromatography (HPLC)
[Ref.: #29728]	GC-content	49.3 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: Methylovulum miyakonense HT12 HT12 NCBI: GCA_000384075.1
[Ref.: #69480]	motile	no	85.635	no
[Ref.: #69480]	flagellated	no	93.628	yes
[Ref.: #69480]	gram-positive	no	98.794	no
[Ref.: #69480]	anaerobic	no	97.878	yes
[Ref.: #69480]	halophile	no	93.306	yes
[Ref.: #69480]	spore-forming	no	91.613	no
[Ref.: #69480]	thermophile	no	99.49	no
[Ref.: #69480]	glucose-util	yes	71.103	no
[Ref.: #69480]	aerobic	yes	87.409	yes
[Ref.: #69480]	glucose-ferment	no	86.061	no

Availability in culture collections External links

[Ref.: #16769]

Culture collection no.

DSM 23269, ATCC BAA-2070, NBRC 106162

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Methylovulum miyakonense gen. nov., sp. nov., a type I methanotroph isolated from forest soil.	Iguchi H, Yurimoto H, Sakai Y	Int J Syst Evol Microbiol	10.1099/ijs.0.019604-0	2010	*

References

#16769

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 23269

#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 )

#29728

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 #26111 (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) .

#26111

IJSEM 810 2011 ( DOI 10.1099/ijs.0.019604-0 , PubMed 20435749 )

* These data were automatically processed and therefore are not curated

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Methylovulum miyakonense HT12 HT12

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