Name: Microbacterium immunditiarum SK 18
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 7463

Type strain:

Species: Microbacterium immunditiarum

Strain Designation: SK 18

Culture col. no.: DSM 24662, JCM 14034, MTCC 7185

Strain history: T. Chakrabarti SK18.

NCBI tax ID(s): 337480 (species)

Section

Microbacterium immunditiarum SK 18 is a Gram-positive, rod-shaped bacterium that was isolated from surface soil from a municipal landfill.

Gram-positive
rod-shaped
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 immunditiarum**
	Full Scientific Name (LPSN)	Microbacterium immunditiarum Krishnamurthi et al. 2012

Information on morphological and physiological properties Morphology

[Ref.: #30321]	Gram stain	positive
[Ref.: #69480]	Gram stain	positive Confidence in %100

[Ref.: #30321]	Cell shape	rod-shaped

[Ref.: #30321]	Motility	no

[Ref.: #30321]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

		Temperature
[Ref.: #30321]	growth	15-37 °C
[Ref.: #30321]	optimum	30 °C
[Ref.: #67770]	growth	28 °C

[Ref.: #30321]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #30321]			optimum	7.5
[Ref.: #30321]			growth	06-08

Information on physiology and metabolism Physiology and metabolism

[Ref.: #30321]	Ability of spore formation	no
[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.309

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #30321]		NaCl		growth	<3	%

[Ref.: #67770]

Observation

quinones: MK-13, MK-12

	Metabolite utilization	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #30321]		esculin ChEBI	+	hydrolysis
[Ref.: #30321]		nitrate ChEBI	+	reduction

	Enzymes	Enzyme	Enzyme activity	EC number
[Ref.: #30321]		catalase	+	1.11.1.6
[Ref.: #30321]		gelatinase	+

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

[Ref.: #17724]	Sample type/isolated from	surface soil from a municipal landfill
[Ref.: #17724]	Geographic location (country and/or sea, region)	Chandigarh
[Ref.: #17724]	Country	India
[Ref.: #17724]	Country ISO 3 Code	IND
[Ref.: #17724]	Continent	Asia

[Ref.: #67770]	Sample type/isolated from	Landfill surface soil in Chandigarh
[Ref.: #67770]	Country	India
[Ref.: #67770]	Country ISO 3 Code	IND
[Ref.: #67770]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Engineered	#Waste	#Landfill
#Environmental	#Terrestrial	#Soil

What are isolation sources categories?

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

[Ref.: #17724]

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.: #17724]	Microbacterium immunditiarum strain SK 18 16S ribosomal RNA gene, partial sequence	DQ119293	1432	ENA	337480 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Microbacterium immunditiarum DSM 24662	GCA_013409785	contig	GenBank	337480 tax ID
[Ref.: #66792]	Microbacterium immunditiarum strain DSM 24662	337480.3	wgs	PATRIC	337480 tax ID	*
[Ref.: #66792]	Microbacterium immunditiarum DSM 24662	2845010473	draft	JGI IMG/M	337480 tax ID	*

[Ref.: #17724]	GC-content	76.6 mol%	thermal denaturation, midpoint method (Tm)
[Ref.: #30321]	GC-content	76.6 mol%

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

	Trait	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Microbacterium immunditiarum strain DSM 24662 PATRIC: 337480.3
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Microbacterium immunditiarum strain DSM 24662 PATRIC: 337480.3
[Ref.: #69480]	gram-positive	yes	88.722	no
[Ref.: #69480]	anaerobic	no	99.6	no
[Ref.: #69480]	halophile	no	89.509	no
[Ref.: #69480]	spore-forming	no	91.571	yes
[Ref.: #69480]	glucose-util	yes	86.569	no
[Ref.: #69480]	motile	no	91.047	yes
[Ref.: #69480]	flagellated	no	98.798	yes
[Ref.: #69480]	thermophile	no	97.102	no
[Ref.: #69480]	aerobic	yes	93.724	no
[Ref.: #69480]	glucose-ferment	no	90.735	no

Availability in culture collections External links

[Ref.: #17724]

Culture collection no.

DSM 24662, JCM 14034, MTCC 7185

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Microbacterium protaetiae sp. nov., isolated from gut of larva of Protaetia brevitarsis seulensis.	Heo J, Cho H, Kim MA, Hamada M, Tamura T, Saitou S, Kim SK, Kwon SW	Int J Syst Evol Microbiol	10.1099/ijsem.0.003967	2020	*
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 mangrovi sp. nov., an amylolytic actinobacterium isolated from mangrove forest soil.	Lee LH, Azman AS, Zainal N, Eng SK, Mutalib NA, Yin WF, Chan KG	Int J Syst Evol Microbiol	10.1099/ijs.0.062414-0	2014	*
Phylogeny	Microbacterium immunditiarum sp. nov., an actinobacterium isolated from landfill surface soil, and emended description of the genus Microbacterium.	Krishnamurthi S, Bhattacharya A, Schumann P, Dastager SG, Tang SK, Li WJ, Chakrabarti T	Int J Syst Evol Microbiol	10.1099/ijs.0.033373-0	2011	*

References

#17724

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 24662

#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 )

#30321

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 #26662 (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;

#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 )

#26662

IJSEM 2187 2012 ( DOI 10.1099/ijs.0.033373-0 , PubMed 22058326 )

* These data were automatically processed and therefore are not curated

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Microbacterium immunditiarum strain DSM 24662

Microbacterium immunditiarum strain DSM 24662

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