Name: Leucobacter chironomi MM2LB
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 7355

Type strain:

Species: Leucobacter chironomi

Strain Designation: MM2LB

Culture col. no.: DSM 19883, LMG 24399, JCM 17022

Strain history: LMG 24399 <-- M. Halpern MM2LB.

NCBI tax ID(s): 1122175 (strain), 491918 (species)

SI-ID 323222

LMG 24399, DSM 19883, JCM 17022

Section

Leucobacter chironomi MM2LB is an aerobe, mesophilic, Gram-positive bacterium that was isolated from chironomid egg mass.

Gram-positive
rod-shaped
aerobe
mesophilic
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	*Leucobacter*
	Species	**Leucobacter chironomi**
	Full Scientific Name (LPSN)	Leucobacter chironomi Halpern et al. 2009

Information on morphological and physiological properties Morphology

[Ref.: #29040]	Gram stain	positive
[Ref.: #69480]	Gram stain	positive Confidence in %100

[Ref.: #29040]	Cell length	1.175 µm

[Ref.: #29040]	Cell width	0.625 µm

[Ref.: #29040]	Cell shape	rod-shaped

[Ref.: #29040]	Motility	no
[Ref.: #69480]	Motility	no Confidence in %90.104

[Ref.: #18617]	Colony color	Rapeseed yellow (1021)
[Ref.: #18617]	Incubation period	10-14 days
[Ref.: #18617]	Cultivation medium used	ISP 2

[Ref.: #18617]	Colony color	Rapeseed yellow (1021)
[Ref.: #18617]	Incubation period	10-14 days
[Ref.: #18617]	Cultivation medium used	ISP 4

[Ref.: #18617]	Colony color	Rapeseed yellow (1021)
[Ref.: #18617]	Incubation period	10-14 days
[Ref.: #18617]	Cultivation medium used	ISP 5

[Ref.: #18617]	Colony color	Rapeseed yellow (1021)
[Ref.: #18617]	Incubation period	10-14 days
[Ref.: #18617]	Cultivation medium used	ISP 6

[Ref.: #18617]	Colony color	Rapeseed yellow (1021)
[Ref.: #18617]	Incubation period	10-14 days
[Ref.: #18617]	Cultivation medium used	ISP 7

[Ref.: #18617]	Incubation period	10-14 days
[Ref.: #18617]	Cultivation medium used	ISP 3

[Ref.: #29040]

Pigment production

yes

[Ref.: #18617]	Multicellular complex forming ability	no
[Ref.: #18617]	Medium Name (multicellularity)	ISP 2

[Ref.: #18617]	Multicellular complex forming ability	no
[Ref.: #18617]	Medium Name (multicellularity)	ISP 3

[Ref.: #18617]	Multicellular complex forming ability	no
[Ref.: #18617]	Medium Name (multicellularity)	ISP 4

[Ref.: #18617]	Multicellular complex forming ability	no
[Ref.: #18617]	Medium Name (multicellularity)	ISP 5

[Ref.: #18617]	Multicellular complex forming ability	no
[Ref.: #18617]	Medium Name (multicellularity)	ISP 6

[Ref.: #18617]	Multicellular complex forming ability	no
[Ref.: #18617]	Medium Name (multicellularity)	ISP 7

Information on culture and growth conditions Culture and growth conditions

[Ref.: #8366]

Culture medium

TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)

[Ref.: #8366]

Culture medium growth

[Ref.: #8366]

Culture medium link

Medium recipe at MediaDive

[Ref.: #8366]

Culture medium composition

expand / minimize

[Ref.: #18617]

Culture medium

ISP 2

[Ref.: #18617]

Culture medium growth

[Ref.: #18617]

Culture medium composition

expand / minimize

[Ref.: #18617]

Culture medium

ISP 3

[Ref.: #18617]

Culture medium growth

[Ref.: #18617]

Culture medium composition

expand / minimize

[Ref.: #18617]

Culture medium

ISP 4

[Ref.: #18617]

Culture medium growth

[Ref.: #18617]

Culture medium composition

expand / minimize

[Ref.: #18617]

Culture medium

ISP 5

[Ref.: #18617]

Culture medium growth

[Ref.: #18617]

Culture medium composition

expand / minimize

[Ref.: #18617]

Culture medium

ISP 6

[Ref.: #18617]

Culture medium growth

[Ref.: #18617]

Culture medium composition

expand / minimize

[Ref.: #18617]

Culture medium

ISP 7

[Ref.: #18617]

Culture medium growth

[Ref.: #18617]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #8366]	growth	28 °C
[Ref.: #18617]	optimum	28 °C
[Ref.: #29040]	growth	17-37 °C
[Ref.: #29040]	optimum	30 °C
[Ref.: #67770]	growth	28 °C

[Ref.: #8366]	Temperature range	mesophilic
[Ref.: #18617]	Temperature range	mesophilic
[Ref.: #29040]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #29040]			optimum	7
[Ref.: #29040]			growth	4-9.5

Information on physiology and metabolism Physiology and metabolism

[Ref.: #29040]

Oxygen tolerance

aerobe

[Ref.: #69480]

Ability of spore formation

no Confidence in %99.997

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #29040]		NaCl		growth	0-7	%
[Ref.: #29040]		NaCl		optimum	0.5	%

[Ref.: #67770]

Observation

quinones: MK-11, MK-10, MK-12

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #29040]	alanine ChEBI	+	carbon source
[Ref.: #68379]	D-glucose ChEBI	-	fermentation	* from API Coryne
[Ref.: #68379]	D-mannitol ChEBI	-	fermentation	* from API Coryne
[Ref.: #68379]	D-ribose ChEBI	-	fermentation	* from API Coryne
[Ref.: #68379]	D-xylose ChEBI	-	fermentation	* from API Coryne
[Ref.: #68379]	esculin ChEBI	-	hydrolysis	* from API Coryne
[Ref.: #68379]	gelatin ChEBI	-	hydrolysis	* from API Coryne
[Ref.: #29040]	glutamate ChEBI	+	carbon source
[Ref.: #29040]	glycerol ChEBI	+	carbon source
[Ref.: #29040]	glycine ChEBI	+	carbon source
[Ref.: #68379]	glycogen ChEBI	-	fermentation	* from API Coryne
[Ref.: #68379]	lactose ChEBI	-	fermentation	* from API Coryne
[Ref.: #68379]	maltose ChEBI	-	fermentation	* from API Coryne
[Ref.: #29040]	nitrate ChEBI	+	reduction
[Ref.: #68379]	nitrate ChEBI	-	reduction	* from API Coryne
[Ref.: #29040]	putrescine ChEBI	+	carbon source
[Ref.: #68379]	sucrose ChEBI	-	fermentation	* from API Coryne
[Ref.: #29040]	threonine ChEBI	+	carbon source
[Ref.: #68379]	urea ChEBI	-	hydrolysis	* from API Coryne
	Only first 10 entries are displayed. Click here to see all.

	Enzyme	Enzyme activity	EC number
[Ref.: #68382]	acid phosphatase	+	3.1.3.2	* from API zym
[Ref.: #68382]	alkaline phosphatase	+	3.1.3.1	* from API zym
[Ref.: #68379]	alkaline phosphatase	-	3.1.3.1	* from API Coryne
[Ref.: #68382]	alpha-chymotrypsin	-	3.4.21.1	* from API zym
[Ref.: #68382]	alpha-fucosidase	-	3.2.1.51	* from API zym
[Ref.: #68382]	alpha-galactosidase	-	3.2.1.22	* from API zym
[Ref.: #68382]	alpha-glucosidase	+	3.2.1.20	* from API zym
[Ref.: #68379]	alpha-glucosidase	-	3.2.1.20	* from API Coryne
[Ref.: #68382]	alpha-mannosidase	-	3.2.1.24	* from API zym
[Ref.: #68382]	beta-galactosidase	-	3.2.1.23	* from API zym, API Coryne
[Ref.: #68382]	beta-glucosidase	-	3.2.1.21	* from API zym, API Coryne
[Ref.: #68382]	beta-glucuronidase	-	3.2.1.31	* from API zym, API Coryne
[Ref.: #29040]	catalase	+	1.11.1.6
[Ref.: #68382]	cystine arylamidase	+	3.4.11.3	* from API zym
[Ref.: #68382]	esterase (C 4)	+		* from API zym
[Ref.: #68382]	esterase lipase (C 8)	+		* from API zym
[Ref.: #68379]	gelatinase	-		* from API Coryne
[Ref.: #68382]	leucine arylamidase	+	3.4.11.1	* from API zym
[Ref.: #68382]	lipase (C 14)	+		* from API zym
[Ref.: #68382]	N-acetyl-beta-glucosaminidase	-	3.2.1.52	* from API zym, API Coryne
[Ref.: #68382]	naphthol-AS-BI-phosphohydrolase	+		* from API zym
[Ref.: #68379]	pyrazinamidase	-	3.5.1.B15	* from API Coryne
[Ref.: #68379]	pyrrolidonyl arylamidase	-	3.4.19.3	* from API Coryne
[Ref.: #68382]	trypsin	-	3.4.21.4	* from API zym
[Ref.: #68379]	urease	-	3.5.1.5	* from API Coryne
[Ref.: #68382]	valine arylamidase	-		* from API zym
	Only first 10 entries are displayed. Click here to see all.

API® Coryne:

Note that the displayed test results represent raw data and therefore may deviate!

	API ID	Reduction of nitrateNIT	PyrazinamidasePYZ	Pyrrolidonyl arylamidasePYRA	Alkaline phosphatasePAL	beta-Glucuronidasebeta GUR	beta-Galactosidasebeta GAL	alpha-Glucosidasealpha GLU	N-Acetyl-beta-Glucosidasebeta NAG	Esculin hydrolysis/beta-GlucosidaseESC	Urease/urea hydrolysisURE	Gelatinase/gelatin hydrolysisGEL	Control fermentationControl	Fermentation of D-glucoseGLU	Fermentation of D-riboseRIB	Fermentation of D-xyloseXYL	Fermentation of D-mannitolMAN	Fermentation of maltoseMAL	Fermentation of lactoseLAC	Fermentation of sucroseSAC	Fermentation of glycogenGLYG	CatalaseCAT
[Ref.: #18617]	169	-	-	-	-	-	-	-	-	-	-	-	not determinedn.d.	-	-	-	-	-	-	-	-	not determinedn.d.

API® zym:

Note that the displayed test results represent raw data and therefore may deviate!

	API ID	Control	2-naphthyl phosphateAlkaline phosphatase	2-naphthyl butyrateEsterase (C 4)	2-naphtyl caprylateEsterase Lipase (C 8)	2-naphthyl myristateLipase (C 14)	L-leucyl-2-naphthylamideLeucine arylamidase	L-valyl-2-naphthylamideValine arylamidase	L-cystyl-2-naphthylamideCystine arylamidase	N-benzoyl-DL-arginine-2-naphthylamideTrypsin	N-glutaryl-phenylalanine-2-naphthylamidealpha- Chymotrypsin	2-naphthyl phosphateAcid phosphatase	Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase	6-Br-2-naphthyl-alphaD-galactpyranosidealpha- Galactosidase	2-naphthyl-betaD-galactpyranosidebeta- Galactosidase	Naphthol-AS-BI-betaD-glucuronidebeta- Glucuronidase	2-naphthyl-alphaD-glucopyranosidealpha- Glucosidase	6-Br-2-naphthyl-betaD-glucopyranosidebeta- Glucosidase	1-naphthyl-N-acetyl-betaD-glucosaminideN-acetyl-beta- glucosaminidase	6-Br-2-naphthyl-alphaD-mannopyranosidealpha- Mannosidase	2-naphthyl-alphaL-fucopyranosidealpha- Fucosidase
[Ref.: #18617]	256	not determinedn.d.	+	+	+	+	+	-	+	-	-	+	+	-	-	-	+	-	-	-	-

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

[Ref.: #8366]	Sample type/isolated from	chironomid (nonbiting midges) egg mass
[Ref.: #8366]	Geographic location (country and/or sea, region)	Tivon waste stabilization pond
[Ref.: #8366]	Country	Israel
[Ref.: #8366]	Country ISO 3 Code	ISR
[Ref.: #8366]	Continent	Asia

[Ref.: #67770]	Sample type/isolated from	Chironomid egg mass in Tivon waste stabilization pond
[Ref.: #67770]	Geographic location (country and/or sea, region)	northern Israel
[Ref.: #67770]	Country	Israel
[Ref.: #67770]	Country ISO 3 Code	ISR
[Ref.: #67770]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Host	#Arthropoda	#Insecta
#Host Body Product	#Urogenital tract	#Egg

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence EU346911 (>99% sequence identity) for Leucobacter from Microbeatlas

Aquatic Samples	361
Soil Samples	164
Animal Samples	797
Plant Samples	44
Total Samples	1366

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

[Ref.: #8366]

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.: #8366]	Leucobacter chironomi strain MM2LB 16S ribosomal RNA gene, partial sequence	EU346911	1481	ENA	491918 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Leucobacter chironomi DSM 19883	GCA_000421845	contig	GenBank	1122175 tax ID
[Ref.: #66792]	Leucobacter chironomi DSM 19883	1122175.4	wgs	PATRIC	1122175 tax ID	*
[Ref.: #66792]	Leucobacter chironomi DSM 19883	2524023214	draft	JGI IMG/M	1122175 tax ID	*

[Ref.: #67770]

GC-content

69.9 mol%

genome sequence analysis

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: Leucobacter chironomi DSM 19883 PATRIC: 1122175.4
[Ref.: #69481]	spore-forming	no	72	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Leucobacter chironomi DSM 19883 PATRIC: 1122175.4
[Ref.: #69480]	motile	no	89.696	yes
[Ref.: #69480]	flagellated	no	97.347	no
[Ref.: #69480]	gram-positive	yes	92.373	yes
[Ref.: #69480]	anaerobic	no	99.38	yes
[Ref.: #69480]	aerobic	yes	93.011	yes
[Ref.: #69480]	halophile	no	90.38	yes
[Ref.: #69480]	spore-forming	no	94.579	no
[Ref.: #69480]	thermophile	no	99.67	no
[Ref.: #69480]	glucose-util	yes	67.133	no
[Ref.: #69480]	glucose-ferment	no	91.819	yes

Availability in culture collections External links

[Ref.: #8366]

Culture collection no.

DSM 19883, LMG 24399, JCM 17022

[Ref.: #76805]

SI-ID 323222

Literature:

Only first 10 entries are displayed. Click here to see all.

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Leucobacter muris sp. nov., isolated from the nose of a laboratory mouse.	Benga L, Sproer C, Schumann P, Verbarg S, Bunk B, Engelhardt E, Benten WPM, Sager M	Int J Syst Evol Microbiol	10.1099/ijsem.0.003446	2019	*
Phylogeny	Leucobacter triazinivorans sp. nov., a s-triazine herbicide prometryn-degrading bacterium isolated from sludge.	Sun LN, Pan DD, Wu XW, Yang ED, Hua RM, Li QX	Int J Syst Evol Microbiol	10.1099/ijsem.0.002483	2017	*
Phylogeny	Leucobacter corticis sp. nov., isolated from symptomatic bark of Populus x euramericana canker.	Li Y, Fang W, Xie SJ, Yang X, Wang LF	Int J Syst Evol Microbiol	10.1099/ijsem.0.001934	2017	*
Phylogeny	Description of Leucobacter holotrichiae sp. nov., isolated from the gut of Holotrichia oblita larvae.	Zhu D, Zhang P, Li P, Wu J, Xie C, Sun J, Niu L	Int J Syst Evol Microbiol	10.1099/ijsem.0.000957	2016	*
Phylogeny	Leucobacter zeae sp. nov., isolated from the rhizosphere of maize (Zea mays L.).	Lai WA, Lin SY, Hameed A, Hsu YH, Liu YC, Huang HR, Shen FT, Young CC	Int J Syst Evol Microbiol	10.1099/ijsem.0.000640	2015	*
Genetics	High quality draft genome sequence of Leucobacter chironomi strain MM2LB(T) (DSM 19883(T)) isolated from a Chironomus sp. egg mass.	Laviad S, Lapidus A, Copeland A, Reddy T, Huntemann M, Pati A, Ivanova NN, Markowitz VM, Pukall R, Klenk HP, Woyke T, Kyrpides NC, Halpern M	Stand Genomic Sci	10.1186/s40793-015-0003-3	2015	*
Phylogeny	Leucobacter celer sp. nov., isolated from Korean fermented seafood.	Shin NR, Kim MS, Jung MJ, Roh SW, Nam YD, Park EJ, Bae JW	Int J Syst Evol Microbiol	10.1099/ijs.0.026211-0	2010	*
Phylogeny	Leucobacter chironomi sp. nov., a chromate-resistant bacterium isolated from a chironomid egg mass.	Halpern M, Shaked T, Pukall R, Schumann P	Int J Syst Evol Microbiol	10.1099/ijs.0.004663-0	2009	*

References

#8366

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 19883

#18617

Wink, J.: Compendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig .

#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 )

#29040

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 #25470 (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;

#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 .

#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 )

#76805

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-ID323222.1 )

#25470

IJSEM 665 2009 ( DOI 10.1099/ijs.0.004663-0 , PubMed 19329584 )

* These data were automatically processed and therefore are not curated

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Leucobacter chironomi DSM 19883

Leucobacter chironomi DSM 19883

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