Microbacterium lindanitolerans (DSM 22422, CCM 7585, MNA2)

Name: Microbacterium lindanitolerans (DSM 22422, CCM 7585, MNA2)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 7453

Type strain

Strain Designation MNA2

Culture col. no. DSM 22422 CCM 7585 MNA2 JCM 30493

NCBI tax ID(s) 630514

Special Collections DSMZ JCM Wink compendium Literature strains

History DSMZ <- R. Lal, Univ. Delhi, Dept. Zoology, India; MNA-2 JCM <-- CCM 7585 <-- R. Lal; Univ. of Delhi, India; MNA2.

Links

Microbacterium lindanitolerans MNA2 is an aerobe, Gram-positive, rod-shaped bacterium that was isolated from hexachlorocyclohexane contaminated soil.

Gram-positive rod-shaped aerobe genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 371118

DSM22422,CCM 7585

@ref 20215

Last LPSN update 2026-05-29 08:26:39

Domain Bacteria

Phylum Actinomycetota

Class Actinomycetes

Order Micrococcales

Family Microbacteriaceae

Genus Microbacterium

Species Microbacterium lindanitolerans

Full scientific name Microbacterium lindanitolerans Lal et al. 2010

Morphology

Cell morphology

@ref	Gram stain	Cell shape	Motility
29641	positive	rod-shaped

Colony morphology

@ref	Colony color	Incubation period	Medium used
21414	Rape yellow (1021)	10-14 days	ISP 2
21414	Zinc yellow (1018)	10-14 days	ISP 3
21414	Rape yellow (1021)	10-14 days	ISP 4
21414	Zinc yellow (1018)	10-14 days	ISP 5
21414	Zinc yellow (1018)	10-14 days	ISP 7
21414	Ziny yellow (1018)	10-14 days	Suter with tyrosine
21414	Zinc yellow (1018)	10-14 days	Suter without tyrosine

Multicellular morphology

@ref	Forms multicellular complex	Medium name
21414		ISP 2
21414		ISP 3
21414		ISP 4
21414		ISP 5
21414		ISP 7
21414		Suter with tyrosine
21414		Suter without tyrosine

Pigmentation

29641

Productionyes

Culture and growth conditions

Culture medium

@ref	Name	Composition
21414	ISP 2	Name: ISP 2 / Yeast Malt Agar (5265); 5265 Composition Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l Agar 15.0 g/l Preparation: Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.0 Usage: Maintenance and Taxonomy Organisms: All Actinomycetes
21414	ISP 3	Name: ISP 3; 5315 Composition Dog oat flakes 20.0 g/l Trace element solution (5314) 2.5 ml/l Agar 18.0 g/l Preparation: Oat flakes are cooked for 20 minutes, trace element solution and agar are added (in the case of non rolled oat flakes the suspension has to bee filtrated). Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.8 Usage: Maintenance and taxonomy (e.g. SEM As liquid medium for metabolite production) Organisms: All Actinomycetes Trace element solution 5314 Name: Trace element solution 5314; 5314 Composition CaCl2 x H2O 3.0 g/l Fe-III-citrate 1.0 g/l MnSO4 0.2 g/l ZnCl2 0.1 g/l CuSO4 x 5 H2O 0.025 g/l Sodium tetra borate 0.2 g/l CoCl2 x 6 H2O 0.004 g/l Sodium molybdate 0.01 g/l Preparation: Use double destillated water. Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Trace element solution for different media Organisms:
21414	ISP 4	Name: ISP 4; DSM 547 Solution I: Difco soluble starch, 10.0 g. Make a paste of the starch with a small amount of cold distilled water and bring to a volume of 500 ml. Solution II: CaCO3 2.0 g K2HPO4 (anhydrous) 1.0 g MgSO4 x 7 H2O 1.0 g NaCl 1.0 g (NH4)2SO4 2.0 g Distilled water 500.0 ml Trace salt solution (see below) 1.0 ml The pH should be between 7.0 and 7.4. Do not adjust if it is within this range. Mix solutions I and II together. Add 20.0 g agar. Liquify agar by steaming at 100°C for 10 to 20 min. Trace element solution: FeSO4 x 7 H2O 0.1 g MnCl2 x 4 H2O 0.1 g ZnSO4 x 7 H2O 0.1 g Distilled water 100.0 ml
21414	ISP 5	Name: ISP 5 (5323) Composition L-Asparagine 1.0 g/l Glycerol 10.0 g/l K2HPO4 1.0 g/l Salt solution (see preparation) 1.0 ml/l Agar 20.0 g/l Preparation: Salt solution 1.0 g FeSO4 x 7 H2O 1.0 g MnCl2 x 4 H2O 1.0 g ZNSO4 x 7 H2O in 100 ml water Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.2 Usage: Maintenance and taxonomy Organisms: All Actinomycetes
21414	ISP 7	Name: ISP 7 (5322) Composition Glycerol 15.0 g/l L-Tyrosine 0.5 g/l L-Asparagine 1.0 g/l K2HPO4 0.5 g/l NaCl 0.5 g/l FeSO4 x 7 H2O 0.01 g/l Trace element solution 5343 1.0 ml/l Agar 20.0 Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.3 Usage: Production of melanoid pigments Organisms: All Actinomycetes
21414	Suter with tyrosine	Name: Synthetically suter medium (5337) with and without tyrosine - see Kutzner,H.J., R. M. Kroppensted and F. Korn-Wendisch. (1986) Composition: Glycerol 15.0 g/l Tyrosine 1.0 (optional, see preparation comment) L-arginine 5.0 g/l L-glutamic acid 5.0 g/l L-methionine 0.3 g/l L-isoleucine 0.3 g/l K2HPO4 0.5 g/l MgSO4 x 7 H2O 0.2 g/l Agar 20.0 g/l Trace element solution (5341) 1.0 ml Composition of Trace element solution (5341): CuSO4 x 5 H2O 10.0 g/l CaCl2 x 2 H2O 10.0 g/l FeSO4 x 7 H2O 10.0 g/l ZnSO4 x 7 H2O 10.0 g/l MnSO4 x 7 H2O 40.0 g/l Preparation: Control medium is prepared without tyrosine Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Production of melanoid pigment Organisms: All Actinomycetes
21414	Suter without tyrosine	Name: Synthetically suter medium (5337) with and without tyrosine - see Kutzner,H.J., R. M. Kroppensted and F. Korn-Wendisch. (1986) Composition: Glycerol 15.0 g/l Tyrosine 1.0 (optional, see preparation comment) L-arginine 5.0 g/l L-glutamic acid 5.0 g/l L-methionine 0.3 g/l L-isoleucine 0.3 g/l K2HPO4 0.5 g/l MgSO4 x 7 H2O 0.2 g/l Agar 20.0 g/l Trace element solution (5341) 1.0 ml Composition of Trace element solution (5341): CuSO4 x 5 H2O 10.0 g/l CaCl2 x 2 H2O 10.0 g/l FeSO4 x 7 H2O 10.0 g/l ZnSO4 x 7 H2O 10.0 g/l MnSO4 x 7 H2O 40.0 g/l Preparation: Control medium is prepared without tyrosine Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Production of melanoid pigment Organisms: All Actinomycetes

Culture temp

@ref	Growth	Type	Temperature (°C)
29641	positive	growth	25-37
29641	positive	optimum	28-37
67770	positive	growth	28

Culture pH

@ref	Ability	Type	PH	PH range
29641	positive	optimum	07-08
29641	positive	growth	06-11	alkaliphile

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
29641	aerobe
125439	obligate aerobe	98.109

Spore formation

@ref	Spore formation	Confidence
125439		92.39

Halophily

@ref	Salt	Growth	Tested relation	Concentration
21414	NaCl	positive	maximum	10 %
29641	NaCl	positive	growth	0-2 %
29641	NaCl	positive	optimum	0-2 %

Observation

@ref	Observation
29641	aggregates in chains
67770	quinones: MK-12, MK-11, MK-13

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
21414	22599 ChEBI	arabinose	+
29641	17057 ChEBI	cellobiose	+	carbon source
21414	62968 ChEBI	cellulose	-
68379	17634 ChEBI	D-glucose	-	fermentation	from API Coryne
68379	16899 ChEBI	D-mannitol	-	fermentation	from API Coryne
68379	16988 ChEBI	D-ribose	-	fermentation	from API Coryne
68379	65327 ChEBI	D-xylose	-	fermentation	from API Coryne
29641	4853 ChEBI	esculin	+	hydrolysis
68379	4853 ChEBI	esculin	-	hydrolysis	from API Coryne
21414	28757 ChEBI	fructose	-
29641	28757 ChEBI	fructose	+	carbon source
29641	28260 ChEBI	galactose	+	carbon source
68379	5291 ChEBI	gelatin	-	hydrolysis	from API Coryne
21414	17234 ChEBI	glucose	+
29641	17234 ChEBI	glucose	+	carbon source
68379	28087 ChEBI	glycogen	-	fermentation	from API Coryne
29641	17716 ChEBI	lactose	+	carbon source
68379	17716 ChEBI	lactose	-	fermentation	from API Coryne
68379	17306 ChEBI	maltose	-	fermentation	from API Coryne
21414	37684 ChEBI	mannose	+
21414	17268 ChEBI	myo-inositol	-
29641	17632 ChEBI	nitrate	+	reduction
68379	17632 ChEBI	nitrate	-	reduction	from API Coryne
21414	16634 ChEBI	raffinose	-
21414	26546 ChEBI	rhamnose	+
29641	33942 ChEBI	ribose	+	carbon source
29641	30911 ChEBI	sorbitol	+	carbon source
21414	17992 ChEBI	sucrose	+
68379	17992 ChEBI	sucrose	-	fermentation	from API Coryne
68379	16199 ChEBI	urea	+	hydrolysis	from API Coryne
21414	18222 ChEBI	xylose	+
29641	18222 ChEBI	xylose	+	carbon source

Enzymes

@ref	Value	Activity	Ec
68382	alkaline phosphatase	-	3.1.3.1	from API zym
68379	alkaline phosphatase	-	3.1.3.1	from API Coryne
68382	alpha-chymotrypsin	-	3.4.21.1	from API zym
68382	alpha-fucosidase	-	3.2.1.51	from API zym
68382	alpha-galactosidase	-	3.2.1.22	from API zym
68379	alpha-glucosidase	+	3.2.1.20	from API Coryne
68382	alpha-glucosidase	+	3.2.1.20	from API zym
68382	alpha-mannosidase	+	3.2.1.24	from API zym
68382	beta-galactosidase	+	3.2.1.23	from API zym
68379	beta-galactosidase	+	3.2.1.23	from API Coryne
68382	beta-glucosidase	+	3.2.1.21	from API zym
68379	beta-glucosidase	-	3.2.1.21	from API Coryne
68379	beta-glucuronidase	-	3.2.1.31	from API Coryne
29641	catalase	+	1.11.1.6
68382	cystine arylamidase	-	3.4.11.3	from API zym
68379	gelatinase	-		from API Coryne
68382	leucine arylamidase	+	3.4.11.1	from API zym
68382	lipase (C 14)	-		from API zym
68382	N-acetyl-beta-glucosaminidase	+	3.2.1.52	from API zym
68379	N-acetyl-beta-glucosaminidase	-	3.2.1.52	from API Coryne
68379	pyrazinamidase	-	3.5.1.B15	from API Coryne
68379	pyrrolidonyl arylamidase	-	3.4.19.3	from API Coryne
68382	trypsin	-	3.4.21.4	from API zym
68379	urease	+	3.5.1.5	from API Coryne

API coryne

@ref	Reduction of nitrateNIT	PYZ	PYRA	PAL	beta GUR	beta GAL	alpha GLU	beta NAG	ESC	URE	GEL	Control fermentationControl	GLU	RIB	XYL	MAN	MAL	LAC	SAC	GLYG	CAT
21414	-	-	-	-	-	+	+	-	-	+	-	not determinedn.d.	-	-	-	-	-	-	-	-	not determinedn.d.

API zym

@ref	Control	Alkaline phosphatase	Esterase (C 4)	2-naphtyl caprylateEsterase Lipase (C 8)	Lipase (C 14)	L-leucyl-2-naphthylamideLeucine arylamidase	L-valyl-2-naphthylamideValine arylamidase	L-cystyl-2-naphthylamideCystine arylamidase	Trypsin	alpha- Chymotrypsin	Acid phosphatase	Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase	alpha- Galactosidase	beta- Galactosidase	beta- Glucuronidase	alpha- Glucosidase	beta- Glucosidase	N-acetyl-beta- glucosaminidase	alpha- Mannosidase	alpha- Fucosidase
21414	not determinedn.d.	-	+/-	+/-	-	+	+/-	-	-	-	+/-	+/-	-	+	+/-	+	+	+	+	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Engineered	#Contamination	-
#Environmental	#Terrestrial	#Soil

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
16328	hexachlorocyclohexane contaminated soil		India	IND	Asia
67770	Hexachlorocyclohexane-contaminated soil	North India	India	IND	Asia

Taxonmaps

69479

Global distribution of 16S sequence EU873539 (>99% sequence identity) for Microbacterium from Microbeatlas

Aquatic Samples	24
Soil Samples	138
Animal Samples	30
Plant Samples	32
Total Samples	224

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
16328	1	Risk group (German classification) According to TRBA 466
21414	L1	German classification According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
67770	ASM678887v1 assembly for Paramicrobacterium agarici DSM 22422	contig	GCA_006788875	550448.3	2811994985	550448	77.85

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
16328	Microbacterium lindanitolerans strain MNA2 16S ribosomal RNA gene, partial sequence	EU873539	1289		550448

GC content

@ref	GC-content (mol%)	Method
16328	65.3	high performance liquid chromatography (HPLC)
29641	65.3

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: ASM678887v1 assembly for Paramicrobacterium agarici DSM 22422
BV-BRC: 550448.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	98.11	no
125439	gram_stain	BacteriaNetⓘ	positive	69.79	no
125439	motility	BacteriaNetⓘ	no	68.65	no
125439	spore_formation	BacteriaNetⓘ	no	92.39	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Microbacterium lindanitolerans strain DSM 22422
PATRIC: 550448.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	89.08	yes
125438	anaerobic	anaerobicⓘ	no	98.08	yes
125438	spore-forming	spore-formingⓘ	no	80.83	no
125438	aerobic	aerobicⓘ	yes	85.38	yes
125438	thermophilic	thermophileⓘ	no	96.64	no
125438	flagellated	motile2+ⓘ	no	75.00	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Genetics	Four new Microbacterium species isolated from seaweeds and reclassification of five Microbacterium species with a proposal of Paramicrobacterium gen. nov. under a genome-based framework of the genus Microbacterium.	Lee SD, Yang HL, Kim IS.	Front Microbiol	10.3389/fmicb.2023.1299950	2023
Phylogeny	Microbacterium chengjingii sp. nov. and Microbacterium fandaimingii sp. nov., isolated from bat faeces of Hipposideros and Rousettus species.	Zhou J, Huang Y, Yang J, Lai XH, Jin D, Lu S, Pu J, Zhang S, Zhu W, Xu M, Huang Y, Liang J, Zheng H, Xu J	Int J Syst Evol Microbiol	10.1099/ijsem.0.004858	2021
Phylogeny	Microbacterium lindanitolerans sp. nov., isolated from hexachlorocyclohexane-contaminated soil.	Lal D, Gupta SK, Schumann P, Lal R	Int J Syst Evol Microbiol	10.1099/ijs.0.017699-0	2009

References

#16328	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 22422
#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 )
#21414	Wink, J.: Compendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig .
#26030	IJSEM 2634 2010 ( DOI 10.1099/ijs.0.017699-0 , PubMed 20023059 )
#29641	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 #26030
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#68379	Automatically annotated from API Coryne .
#68382	Automatically annotated from API zym .
#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 .
#125438	Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann: Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets. 2024 ( DOI 10.1101/2024.08.12.607695 )
#125439	Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy: deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 .
#126262	A. Lissin, I. Schober, J. F. Witte, H. Lüken, A. Podstawka, J. Koblitz, B. Bunk, P. Dawyndt, P. Vandamme, P. de Vos, J. Overmann, L. C. Reimer: StrainInfo—the central database for linked microbial strain identifiers. ( DOI 10.1093/database/baaf059 )

Content

About us

Microbacterium lindanitolerans (DSM 22422, CCM 7585, MNA2)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Multicellular morphology

Pigmentation

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

Observation

Metabolite utilization

Enzymes

API coryne

API zym

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_006788875

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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