Leisingera methylohalidivorans (DSM 14336, ATCC BAA-92, MB2)

Name: Leisingera methylohalidivorans (DSM 14336, ATCC BAA-92, MB2)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 13669

Type strain

Strain Designation MB2

Culture col. no. DSM 14336 ATCC BAA-92 MB2

NCBI tax ID(s) 999552 133924

Special Collections DSMZ

History <- J. Switzer Blum; MB2 <- S. Baesman <- J. K. Schaefer

Links

Leisingera methylohalidivorans MB2 is a psychrophilic prokaryote that was isolated from seawater collected from a tide pool.

psychrophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 100720

ATCC BAA-92,DSM 14336,LMG 23656

@ref 20215

Last LPSN update 2026-02-09 11:21:12

Domain Bacteria

Phylum Pseudomonadota

Class Alphaproteobacteria

Order Rhodobacterales

Family Roseobacteraceae

Genus Leisingera

Species Leisingera methylohalidivorans

Full scientific name Leisingera methylohalidivorans Schaefer et al. 2002

Morphology

Cell morphology

@ref	Gram stain	Confidence
125438	negative	99
125439	negative	97.5

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
5309	BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)		Medium recipe at MediaDive	Name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514) Composition: NaCl 19.45 g/l MgCl2 5.9 g/l Bacto peptone 5.0 g/l Na2SO4 3.24 g/l CaCl2 1.8 g/l Yeast extract 1.0 g/l KCl 0.55 g/l NaHCO3 0.16 g/l Fe(III) citrate 0.1 g/l KBr 0.08 g/l SrCl2 0.034 g/l H3BO3 0.022 g/l Na2HPO4 0.008 g/l Na-silicate 0.004 g/l NaF 0.0024 g/l (NH4)NO3 0.0016 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
5309	positive	growth	20	psychrophilic

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	aerobe	93

Spore formation

@ref	Spore formation	Confidence
125438		92.859
125439		95.5

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
68369	17128 ChEBI	adipate	-	assimilation	from API 20NE
68368	27613 ChEBI	amygdalin	-	fermentation	from API 20E
68369	29016 ChEBI	arginine	-	hydrolysis	from API 20NE
68368	29016 ChEBI	arginine	-	hydrolysis	from API 20E
68368	16947 ChEBI	citrate	-	assimilation	from API 20E
68369	17634 ChEBI	D-glucose	-	assimilation	from API 20NE
68369	17634 ChEBI	D-glucose	-	fermentation	from API 20NE
68368	17634 ChEBI	D-glucose	-	fermentation	from API 20E
68369	16899 ChEBI	D-mannitol	+	assimilation	from API 20NE
68368	16899 ChEBI	D-mannitol	-	fermentation	from API 20E
68369	16024 ChEBI	D-mannose	-	assimilation	from API 20NE
68369	27689 ChEBI	decanoate	-	assimilation	from API 20NE
68369	4853 ChEBI	esculin	-	hydrolysis	from API 20NE
68369	5291 ChEBI	gelatin	-	hydrolysis	from API 20NE
68368	5291 ChEBI	gelatin	-	hydrolysis	from API 20E
68369	24265 ChEBI	gluconate	-	assimilation	from API 20NE
68369	30849 ChEBI	L-arabinose	-	assimilation	from API 20NE
68368	30849 ChEBI	L-arabinose	-	fermentation	from API 20E
68368	62345 ChEBI	L-rhamnose	-	fermentation	from API 20E
68368	25094 ChEBI	lysine	-	degradation	from API 20E
68369	25115 ChEBI	malate	+	assimilation	from API 20NE
68369	17306 ChEBI	maltose	-	assimilation	from API 20NE
68368	28053 ChEBI	melibiose	-	fermentation	from API 20E
68368	17268 ChEBI	myo-inositol	-	fermentation	from API 20E
68369	59640 ChEBI	N-acetylglucosamine	-	assimilation	from API 20NE
68369	17632 ChEBI	nitrate	-	reduction	from API 20NE
68368	18257 ChEBI	ornithine	-	degradation	from API 20E
68368	30911 ChEBI	sorbitol	-	fermentation	from API 20E
68368	17992 ChEBI	sucrose	-	fermentation	from API 20E
68369	27897 ChEBI	tryptophan	-	energy source	from API 20NE
68368	27897 ChEBI	tryptophan	-	energy source	from API 20E
68369	16199 ChEBI	urea	-	hydrolysis	from API 20NE
68368	16199 ChEBI	urea	-	hydrolysis	from API 20E

Metabolite production

@ref	Chebi-ID	Metabolite
68368	15688 ChEBI	acetoin	from API 20E
68368	16136 ChEBI	hydrogen sulfide	from API 20E
68368	35581 ChEBI	indole	from API 20E
68369	35581 ChEBI	indole	from API 20NE

Metabolite tests

@ref	Chebi-ID	Metabolite	Voges-proskauer-test	Indole test
68368	15688 ChEBI	acetoin	-		from API 20E
68369	35581 ChEBI	indole		-	from API 20NE
68368	35581 ChEBI	indole		-	from API 20E

Enzymes

@ref	Value	Activity	Ec
68369	arginine dihydrolase	-	3.5.3.6	from API 20NE
68368	arginine dihydrolase	-	3.5.3.6	from API 20E
68368	beta-galactosidase	-	3.2.1.23	from API 20E
68369	beta-glucosidase	-	3.2.1.21	from API 20NE
5309	catalase	+	1.11.1.6
68369	cytochrome oxidase	+	1.9.3.1	from API 20NE
68368	cytochrome oxidase	-	1.9.3.1	from API 20E
5309	cytochrome-c oxidase	+	1.9.3.1
68369	gelatinase	-		from API 20NE
68368	gelatinase	-		from API 20E
68368	lysine decarboxylase	-	4.1.1.18	from API 20E
68368	ornithine decarboxylase	-	4.1.1.17	from API 20E
68368	tryptophan deaminase	-	4.1.99.1	from API 20E
68369	urease	-	3.5.1.5	from API 20NE
68368	urease	-	3.5.1.5	from API 20E

API 20E

@ref	ONPG	ADH (Arg)	LDC (Lys)	ODC	CIT	H2S productionH2S	URE	TDA (Trp)	IND	Acetoin production (Voges Proskauer test)VP	GEL	GLU	MAN	INO	Sor	RHA	SAC	MEL	AMY	ARA	OX	Nitrite productionNO2	Reduction to N2N2	MotilityMOB	Growth on MacConkey mediumMAC	OF-O	OF-F
5309	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.

API 20NE

@ref	Reduction of nitratesNO3	TRP	GLU_ Ferm	ADH (Arg)	URE	ESC	GEL	PNPG	GLU_ Assim	ARA	MNE	MAN	NAG	MAL	GNT	CAP	ADI	MLT	CIT	PAC	OX
5309	-	-	-	-	-	-	-	-	-	-	-	+	-	-	-	-	-	+	-	-	+

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Aquatic	#Marine
#Environmental	#Terrestrial	#Tidal flat

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
5309	seawater collected from a tide pool	coast of central California	USA	USA	North America

Taxonmaps

69479

Global distribution of 16S sequence AY005463 (>99% sequence identity) for Leisingera from Microbeatlas

Aquatic Samples	358
Soil Samples	32
Animal Samples	114
Plant Samples	6
Total Samples	510

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
5309	1	Risk group (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
66792	ASM51135v1 assembly for Leisingera methylohalidivorans DSM 14336 DSM 14336; MB2	complete	GCA_000511355	999552.6	2512564009	999552	98.76

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
5309	Ruegeria sp. MB2 16S ribosomal RNA gene, partial sequence	AY005463	1431		999552
124043	Leisingera methylohalidivorans strain DSM14336 16S ribosomal RNA gene, partial sequence.	DQ915607	1309		999552

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Leisingera methylohalidivorans DSM 14336
PATRIC: 999552.6

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	95.50	no
125439	motility	BacteriaNetⓘ	yes	71.70	no
125439	gram_stain	BacteriaNetⓘ	negative	97.50	no
125439	oxygen_tolerance	BacteriaNetⓘ	aerobe	93.00	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Leisingera methylohalidivorans DSM 14336
NCBI: GCA_000511355.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	99.00	no
125438	anaerobic	anaerobicⓘ	no	95.31	no
125438	aerobic	aerobicⓘ	yes	83.16	no
125438	spore-forming	spore-formingⓘ	no	92.86	no
125438	thermophilic	thermophileⓘ	no	98.33	yes
125438	flagellated	motile2+ⓘ	yes	67.37	no

Literature

Topic	Title	Authors	Journal	DOI	Year
	Arcanobacterium pinnipediorum Strain DSM 28752 Isolated from a Harbour Seal: Complete Genome Sequence.	Borowiak M, Kreitlow A, Malorny B, Alssahen M, Lammler C, Prenger-Berninghoff E, Ewers C, Siebert U, Plotz M, Abdulmawjood A.	Microbiol Resour Announc	10.1128/mra.01180-22	2023
Genetics	Genomic exploration of coral-associated bacteria: identifying probiotic candidates to increase coral bleaching resilience in Galaxea fascicularis.	Doering T, Tandon K, Topa SH, Pidot SJ, Blackall LL, van Oppen MJH.	Microbiome	10.1186/s40168-023-01622-x	2023
	Genome-Wide Discovery of Putative sRNAs in Paracoccus denitrificans Expressed under Nitrous Oxide Emitting Conditions.	Gaimster H, Chalklen L, Alston M, Munnoch JT, Richardson DJ, Gates AJ, Rowley G.	Front Microbiol	10.3389/fmicb.2016.01806	2016
Genetics	Probing the diversity of chloromethane-degrading bacteria by comparative genomics and isotopic fractionation.	Nadalig T, Greule M, Bringel F, Keppler F, Vuilleumier S.	Front Microbiol	10.3389/fmicb.2014.00523	2014
Phylogeny	Bacterial community segmentation facilitates the prediction of ecosystem function along the coast of the western Antarctic Peninsula.	Bowman JS, Amaral-Zettler LA, J Rich J, M Luria C, Ducklow HW.	ISME J	10.1038/ismej.2016.204	2017
	Genome sequence of Phaeobacter inhibens type strain (T5(T)), a secondary metabolite producing representative of the marine Roseobacter clade, and emendation of the species description of Phaeobacter inhibens.	Dogs M, Voget S, Teshima H, Petersen J, Davenport K, Dalingault H, Chen A, Pati A, Ivanova N, Goodwin LA, Chain P, Detter JC, Standfest S, Rohde M, Gronow S, Kyrpides NC, Woyke T, Simon M, Klenk HP, Goker M, Brinkhoff T.	Stand Genomic Sci	10.4056/sigs.4448212	2013
Phylogeny	Single cells within the Puerto Rico trench suggest hadal adaptation of microbial lineages.	Leon-Zayas R, Novotny M, Podell S, Shepard CM, Berkenpas E, Nikolenko S, Pevzner P, Lasken RS, Bartlett DH.	Appl Environ Microbiol	10.1128/aem.01659-15	2015
Genetics	Comparative genomics defines the core genome of the growing N4-like phage genus and identifies N4-like Roseophage specific genes.	Chan JZ, Millard AD, Mann NH, Schafer H.	Front Microbiol	10.3389/fmicb.2014.00506	2014
Genetics	Complete genome sequence of the marine methyl-halide oxidizing Leisingera methylohalidivorans type strain (DSM 14336(T)), a representative of the Roseobacter clade.	Buddruhs N, Chertkov O, Petersen J, Fiebig A, Chen A, Pati A, Ivanova N, Lapidus A, Goodwin LA, Chain P, Detter JC, Gronow S, Kyrpides NC, Woyke T, Goker M, Brinkhoff T, Klenk HP	Stand Genomic Sci	10.4056/sigs.4297965	2013
	Leisingera thetidis sp. nov., isolated from coastal water.	Kim MJ, Guan Y, Choe H, Li Z, Chung N, Kang YH, Lee MK.	Int J Syst Evol Microbiol	10.1099/ijsem.0.005945	2023
Enzymology	Seohaeicola saemankumensis gen. nov., sp. nov., isolated from a tidal flat.	Yoon JH, Kang SJ, Lee SY, Oh KH, Oh TK.	Int J Syst Evol Microbiol	10.1099/ijs.0.011312-0	2009
Phylogeny	Leisingera nanhaiensis sp. nov., isolated from marine sediment.	Sun F, Wang B, Liu X, Lai Q, Du Y, Li G, Luo J, Shao Z.	Int J Syst Evol Microbiol	10.1099/ijs.0.010439-0	2010
Phylogeny	Leisingera methylohalidivorans gen. nov., sp. nov., a marine methylotroph that grows on methyl bromide.	Schaefer JK, Goodwin KD, McDonald IR, Murrell JC, Oremland RS	Int J Syst Evol Microbiol	10.1099/00207713-52-3-851	2002

References

#5309	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 14336
#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 )
#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) .
#68368	Automatically annotated from API 20E .
#68369	Automatically annotated from API 20NE .
#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 .
#124043	Isabel Schober, Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy .
#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 )

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Leisingera methylohalidivorans (DSM 14336, ATCC BAA-92, MB2)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Metabolite utilization

Metabolite production

Metabolite tests

Enzymes

API 20E

API 20NE

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_000511355

16S sequences

Genome-based predictions

Predictions

Literature

Literature

References

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