Name: Microbacterium oryzae MB10
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 23103

Type strain:

Species: Microbacterium oryzae

Strain Designation: MB10

Culture col. no.: DSM 23396, CIP 110793, JCM 16837

Strain history: CIP <- 2014, DSMZ <- S.K. Das, Inst. Life Sci., Bhubaneswar, India: strain MB10

NCBI tax ID(s): 743009 (species)

SI-ID 413349

CIP 110793

Section

Microbacterium oryzae MB10 is an aerobe, Gram-positive, motile bacterium that was isolated from rice field soil.

Gram-positive
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	*Actinomycetota*
	Class	*Actinomycetes*
	Order	*Micrococcales*
	Family	*Microbacteriaceae*
	Genus	*Microbacterium*
	Species	**Microbacterium oryzae**
	Full Scientific Name (LPSN)	Microbacterium oryzae Kumari et al. 2013

Information on morphological and physiological properties Morphology

[Ref.: #30888]	Gram stain	positive
[Ref.: #121453]	Gram stain	positive

[Ref.: #30888]	Cell length	0.43 µm

[Ref.: #30888]	Cell width	0.27 µm

[Ref.: #30888]	Cell shape	rod-shaped
[Ref.: #121453]	Cell shape	rod-shaped

[Ref.: #30888]	Motility	yes
[Ref.: #121453]	Motility	no

[Ref.: #30888]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #33653]

Culture medium

MEDIUM 328- for nutrient agar

[Ref.: #33653]

Culture medium growth

[Ref.: #33653]

Culture medium composition

expand / minimize

[Ref.: #121453]

Culture medium

CIP Medium 328

[Ref.: #121453]

Culture medium growth

[Ref.: #121453]

Culture medium link

Medium recipe provided by DSMZ

		Temperature
[Ref.: #30888]	growth	16-37 °C
[Ref.: #30888]	optimum	28 °C
[Ref.: #33653]	growth	30 °C
[Ref.: #67770]	growth	28 °C

[Ref.: #30888]	Temperature range	mesophilic
[Ref.: #33653]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #30888]			optimum	8
[Ref.: #30888]			growth	5.0-11.0

Information on physiology and metabolism Physiology and metabolism

[Ref.: #30888]

Oxygen tolerance

aerobe

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #30888]		NaCl		growth	0-6	%

[Ref.: #67770]

Observation

quinones: MK-10, MK-11, MK-9

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #30888]	arabinose ChEBI	+	carbon source
[Ref.: #30888]	cellobiose ChEBI	+	carbon source
[Ref.: #30888]	esculin ChEBI	+	hydrolysis
[Ref.: #30888]	fructose ChEBI	+	carbon source
[Ref.: #30888]	galactose ChEBI	+	carbon source
[Ref.: #30888]	gluconate ChEBI	+	carbon source
[Ref.: #30888]	glucose ChEBI	+	carbon source
[Ref.: #30888]	glycerol ChEBI	+	carbon source
[Ref.: #30888]	L-alaninamide ChEBI	+	carbon source
[Ref.: #30888]	maltose ChEBI	+	carbon source
[Ref.: #30888]	mannitol ChEBI	+	carbon source
[Ref.: #30888]	mannose ChEBI	+	carbon source
[Ref.: #30888]	methyl pyruvate ChEBI	+	carbon source
[Ref.: #30888]	rhamnose ChEBI	+	carbon source
[Ref.: #30888]	ribose ChEBI	+	carbon source
[Ref.: #30888]	salicin ChEBI	+	carbon source
[Ref.: #30888]	sucrose ChEBI	+	carbon source
[Ref.: #30888]	thymidine ChEBI	+	carbon source
[Ref.: #30888]	trehalose ChEBI	+	carbon source
[Ref.: #30888]	xylose ChEBI	+	carbon source
	Only first 10 entries are displayed. Click here to see all.

	Enzymes	Enzyme	Enzyme activity	EC number
[Ref.: #30888]		catalase	+	1.11.1.6

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

[Ref.: #19376]	Sample type/isolated from	rice field soil
[Ref.: #19376]	Geographic location (country and/or sea, region)	Orissa, Cuttack, Jagatpur
[Ref.: #19376]	Country	India
[Ref.: #19376]	Country ISO 3 Code	IND
[Ref.: #19376]	Continent	Asia

[Ref.: #67770]	Sample type/isolated from	Rice field soil
[Ref.: #67770]	Geographic location (country and/or sea, region)	Jagatpur, Orissa
[Ref.: #67770]	Country	India
[Ref.: #67770]	Country ISO 3 Code	IND
[Ref.: #67770]	Continent	Asia

[Ref.: #121453]	Sample type/isolated from	Environment, Soil, rice field
[Ref.: #121453]	Geographic location (country and/or sea, region)	Jagatpur, Orissa, India
[Ref.: #121453]	Country	India
[Ref.: #121453]	Country ISO 3 Code	IND
[Ref.: #121453]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Engineered	#Agriculture	#Field
#Environmental	#Terrestrial	#Soil
#Host	#Plants	#Herbaceous plants (Grass,Crops)

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence GU564360 (>99% sequence identity) for Microbacterium from Microbeatlas

Aquatic Samples	2
Soil Samples	2
Animal Samples	4
Plant Samples
Total Samples	8

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

[Ref.: #19376]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #121453]	Biosafety level	1	Risk group (French classification)

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.: #19376]	Microbacterium oryzae strain MB10 16S ribosomal RNA gene, partial sequence	GU564360	1419	ENA	743009 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Microbacterium oryzae MB10	2916297235	complete	JGI IMG/M	743009 tax ID	*

[Ref.: #19376]	GC-content	71.6 mol%	high performance liquid chromatography (HPLC)
[Ref.: #30888]	GC-content	71.6 mol%

Availability in culture collections External links

[Ref.: #19376]

Culture collection no.

DSM 23396, CIP 110793, JCM 16837

[Ref.: #87340]

SI-ID 413349

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Microbacterium rhizosphaerae sp. nov., isolated from a Ginseng field, South Korea.	Cho SJ, Lee SS	Antonie Van Leeuwenhoek	10.1007/s10482-016-0768-4	2016	*
Phylogeny	Microbacterium oryzae sp. nov., an actinobacterium isolated from rice field soil.	Kumari P, Bandyopadhyay S, Das SK	Int J Syst Evol Microbiol	10.1099/ijs.0.046870-0	2012	*

References

#19376

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 23396

#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 )

#30888

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 #27218 (see below)

#33653 ; Curators of the CIP;

#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 .

#87340

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-ID413349.1 )

#121453 Collection of Institut Pasteur ; Curators of the CIP; CIP 110793

#27218

IJSEM 2442 2013 ( DOI 10.1099/ijs.0.046870-0 , PubMed 23203624 )

* These data were automatically processed and therefore are not curated

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