Name: Microbacterium amylolyticum N5
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 7464

Type strain:

Species: Microbacterium amylolyticum

Strain Designation: N5

Culture col. no.: DSM 24221, CCM 7881, CIP 110689, JCM 30491

Strain history: CIP <- 2013, DSMZ <- R. Lal, Delhi Univ., India: strain N5

NCBI tax ID(s): 936337 (species)

SI-ID 413280

CIP 110689

Section

Microbacterium amylolyticum N5 is an aerobe, Gram-positive, rod-shaped bacterium that was isolated from soil from an industrial waste site.

Gram-positive
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 amylolyticum**
	Full Scientific Name (LPSN)	Microbacterium amylolyticum Anand et al. 2012

Information on morphological and physiological properties Morphology

[Ref.: #30363]	Gram stain	positive
[Ref.: #116353]	Gram stain	positive
[Ref.: #69480]	Gram stain	positive Confidence in %100

[Ref.: #30363]	Cell length	2 µm

[Ref.: #30363]	Cell width	1.1 µm

[Ref.: #30363]	Cell shape	rod-shaped
[Ref.: #116353]	Cell shape	rod-shaped

[Ref.: #30363]	Motility	no
[Ref.: #116353]	Motility	no
[Ref.: #69480]	Motility	no Confidence in %95.657

[Ref.: #30363]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #41597]

Culture medium

MEDIUM 72- for trypto casein soja agar

[Ref.: #41597]

Culture medium growth

[Ref.: #41597]

Culture medium composition

expand / minimize

[Ref.: #116353]

Culture medium

CIP Medium 72

[Ref.: #116353]

Culture medium growth

[Ref.: #116353]

Culture medium link

Medium recipe provided by DSMZ

		Temperature
[Ref.: #30363]	growth	10-37 °C
[Ref.: #30363]	optimum	28 °C
[Ref.: #41597]	growth	30 °C
[Ref.: #67770]	growth	28 °C

[Ref.: #30363]	Temperature range	mesophilic
[Ref.: #41597]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #30363]			optimum	7
[Ref.: #30363]			growth	07-10

Information on physiology and metabolism Physiology and metabolism

[Ref.: #30363]

Oxygen tolerance

aerobe

[Ref.: #30363]	Ability of spore formation	no
[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.999

[Ref.: #17564]	Murein short key	B06
[Ref.: #17564]	Murein types	B2ß {Gly} [L-Hsr] D-Glu(Hyg)-Gly-D-Orn

[Ref.: #67770]

Observation

quinones: MK-11, MK-10

	Metabolite utilization	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #30363]		esculin ChEBI	+	hydrolysis
[Ref.: #30363]		nitrate ChEBI	+	reduction

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

[Ref.: #17564]	Sample type/isolated from	soil from an industrial waste site
[Ref.: #17564]	Geographic location (country and/or sea, region)	Uttar Pradesh, Noida (Delhi NCR)
[Ref.: #17564]	Country	India
[Ref.: #17564]	Country ISO 3 Code	IND
[Ref.: #17564]	Continent	Asia

[Ref.: #67770]	Sample type/isolated from	Soil from an industrial waste site on the outskirts of Delhi
[Ref.: #67770]	Country	India
[Ref.: #67770]	Country ISO 3 Code	IND
[Ref.: #67770]	Continent	Asia

[Ref.: #116353]	Sample type/isolated from	Environment, Soil from an industrial waste site
[Ref.: #116353]	Geographic location (country and/or sea, region)	Uttar Pradesh, Noida (Delhi NCR), India
[Ref.: #116353]	Country	India
[Ref.: #116353]	Country ISO 3 Code	IND
[Ref.: #116353]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Engineered	#Industrial	-
#Engineered	#Waste	-
#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.: #17564]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #116353]	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.: #17564]	Microbacterium amylolyticum strain N5 16S ribosomal RNA gene, partial sequence	HQ605925	1420	ENA	936337 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Microbacterium amylolyticum DSM 24221	GCA_011046975	complete	GenBank	936337 tax ID	*
[Ref.: #66792]	Microbacterium amylolyticum DSM 24221	GCA_017876695	contig	GenBank	936337 tax ID	*
[Ref.: #66792]	Microbacterium amylolyticum strain DSM 24221	936337.3	complete	PATRIC	936337 tax ID	*
[Ref.: #66792]	Microbacterium amylolyticum strain DSM 24221	936337.4	wgs	PATRIC	936337 tax ID	*
[Ref.: #66792]	Microbacterium amylolyticum DSM 24221	2918397618	draft	JGI IMG/M	936337 tax ID	*

[Ref.: #17564]	GC-content	68.0 mol%	fluorimetric
[Ref.: #30363]	GC-content	68 mol%
[Ref.: #67770]	GC-content	68 mol%	thermal denaturation, midpoint method (Tm)

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 amylolyticum DSM 24221 NCBI: GCA_011046975.1
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Microbacterium amylolyticum DSM 24221 NCBI: GCA_011046975.1
[Ref.: #69480]	motile	no	93.03	no
[Ref.: #69480]	flagellated	no	96.426	no
[Ref.: #69480]	gram-positive	yes	95.847	yes
[Ref.: #69480]	anaerobic	no	99.6	yes
[Ref.: #69480]	aerobic	yes	90.457	yes
[Ref.: #69480]	halophile	yes	52.522	no
[Ref.: #69480]	spore-forming	no	92.822	no
[Ref.: #69480]	thermophile	no	98.877	yes
[Ref.: #69480]	glucose-util	yes	89.043	no
[Ref.: #69480]	glucose-ferment	no	84.484	no

Availability in culture collections External links

[Ref.: #17564]

Culture collection no.

DSM 24221, CCM 7881, CIP 110689, JCM 30491

[Ref.: #76909]

SI-ID 413280

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Microbacterium excoecariae sp. nov., a novel endophytic actinobacterium isolated from bark of Excoecaria agallocha Linn.	Chen MS, Li F, Yan XR, Tuo L	Int J Syst Evol Microbiol	10.1099/ijsem.0.004523	2020	*
Phylogeny	Microbacterium nanhaiense sp. nov., an actinobacterium isolated from sea sediment.	Yan L, Wang J, Chen Z, Guan Y, Li J	Int J Syst Evol Microbiol	10.1099/ijsem.0.000480	2015	*
Phylogeny	Microbacterium amylolyticum sp. nov., isolated from soil from an industrial waste site.	Anand S, Bala K, Saxena A, Schumann P, Lal R	Int J Syst Evol Microbiol	10.1099/ijs.0.034439-0	2011	*

References

#17564

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 24221

#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 )

#30363

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 #26703 (see below)

#41597 ; 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;

#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 )

#76909

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-ID413280.1 )

#116353 Collection of Institut Pasteur ; Curators of the CIP; CIP 110689

#26703

IJSEM 2114 2012 ( DOI 10.1099/ijs.0.034439-0 , PubMed 22039005 )

* These data were automatically processed and therefore are not curated

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Microbacterium amylolyticum DSM 24221

Microbacterium amylolyticum DSM 24221

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