Strain identifier

BacDive ID: 13669

Type strain: Yes

Species: Leisingera methylohalidivorans

Strain Designation: MB2

Strain history: <- J. Switzer Blum; MB2 <- S. Baesman <- J. K. Schaefer

NCBI tax ID(s): 999552 (strain), 133924 (species)

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General

@ref: 5309

BacDive-ID: 13669

DSM-Number: 14336

keywords: genome sequence, 16S sequence, Bacteria, psychrophilic, Gram-negative

description: Leisingera methylohalidivorans MB2 is a psychrophilic, Gram-negative bacterium that was isolated from seawater collected from a tide pool.

NCBI tax id

NCBI tax idMatching level
133924species
999552strain

strain history

  • @ref: 5309
  • history: <- J. Switzer Blum; MB2 <- S. Baesman <- J. K. Schaefer

doi: 10.13145/bacdive13669.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Rhodobacterales
  • family: Roseobacteraceae
  • genus: Leisingera
  • species: Leisingera methylohalidivorans
  • full scientific name: Leisingera methylohalidivorans Schaefer et al. 2002

@ref: 5309

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Rhodobacterales

family: Rhodobacteraceae

genus: Leisingera

species: Leisingera methylohalidivorans

full scientific name: Leisingera methylohalidivorans Schaefer et al. 2002 emend. Vandecandelaere et al. 2008

strain designation: MB2

type strain: yes

Morphology

cell morphology

  • @ref: 69480
  • gram stain: negative
  • confidence: 99.997

Culture and growth conditions

culture medium

  • @ref: 5309
  • name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/514
  • composition: 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: 5309
  • growth: positive
  • type: growth
  • temperature: 20
  • range: psychrophilic

Physiology and metabolism

spore formation

@refspore formationconfidence
69481no100
69480no99.991

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6836925115malate+assimilation
6836917128adipate-assimilation
6836927689decanoate-assimilation
6836924265gluconate-assimilation
6836917306maltose-assimilation
6836959640N-acetylglucosamine-assimilation
6836916899D-mannitol+assimilation
6836916024D-mannose-assimilation
6836930849L-arabinose-assimilation
6836917634D-glucose-assimilation
683695291gelatin-hydrolysis
683694853esculin-hydrolysis
6836916199urea-hydrolysis
6836929016arginine-hydrolysis
6836917634D-glucose-fermentation
6836927897tryptophan-energy source
6836917632nitrate-reduction
6836830849L-arabinose-fermentation
6836827613amygdalin-fermentation
6836828053melibiose-fermentation
6836817992sucrose-fermentation
6836862345L-rhamnose-fermentation
6836830911sorbitol-fermentation
6836817268myo-inositol-fermentation
6836816899D-mannitol-fermentation
6836817634D-glucose-fermentation
683685291gelatin-hydrolysis
6836827897tryptophan-energy source
6836816199urea-hydrolysis
6836816947citrate-assimilation
6836818257ornithine-degradation
6836825094lysine-degradation
6836829016arginine-hydrolysis

metabolite production

@refChebi-IDmetaboliteproduction
6836935581indoleno
6836815688acetoinno
6836835581indoleno
6836816136hydrogen sulfideno

metabolite tests

@refChebi-IDmetaboliteindole testvoges-proskauer-test
6836935581indole-
6836815688acetoin-
6836835581indole-

enzymes

@refvalueactivityec
5309catalase+1.11.1.6
5309cytochrome-c oxidase+1.9.3.1
68369cytochrome oxidase+1.9.3.1
68369gelatinase-
68369beta-glucosidase-3.2.1.21
68369urease-3.5.1.5
68369arginine dihydrolase-3.5.3.6
68368cytochrome oxidase-1.9.3.1
68368gelatinase-
68368tryptophan deaminase-4.1.99.1
68368urease-3.5.1.5
68368ornithine decarboxylase-4.1.1.17
68368lysine decarboxylase-4.1.1.18
68368arginine dihydrolase-3.5.3.6
68368beta-galactosidase-3.2.1.23

API 20E

@refONPGADH ArgLDC LysODCCITH2SURETDA TrpINDVPGELGLUMANINOSorRHASACMELAMYARAOX
5309---------------------

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPACOX
5309-----------+-----+--+

Isolation, sampling and environmental information

isolation

  • @ref: 5309
  • sample type: seawater collected from a tide pool
  • geographic location: coast of central California
  • country: USA
  • origin.country: USA
  • continent: North America

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Marine
#Environmental#Terrestrial#Tidal flat

taxonmaps

  • @ref: 69479
  • File name: preview.99_817.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_19;96_355;97_566;98_651;99_817&stattab=map
  • Last taxonomy: Leisingera
  • 16S sequence: AY005463
  • Sequence Identity:
  • Total samples: 510
  • soil counts: 32
  • aquatic counts: 358
  • animal counts: 114
  • plant counts: 6

Safety information

risk assessment

  • @ref: 5309
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 5309
  • description: Ruegeria sp. MB2 16S ribosomal RNA gene, partial sequence
  • accession: AY005463
  • length: 1431
  • database: ena
  • NCBI tax ID: 999552

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Leisingera methylohalidivorans DSM 14336 DSM 14336; MB2GCA_000511355completencbi999552
66792Leisingera methylohalidivorans DSM 14336999552.6completepatric999552
66792Leisingera methylohalidivorans DSM 14336 strain DSM 14336; MB2999552.18plasmidpatric999552
66792Leisingera methylohalidivorans DSM 14336 strain DSM 14336; MB2999552.17plasmidpatric999552
66792Leisingera methylohalidivorans MB2, DSM 143362512564009completeimg999552

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileyes72.887no
flagellatedno74.145no
gram-positiveno98.541no
anaerobicno99.115no
halophileyes87.641no
spore-formingno95.329no
thermophileno95.941yes
glucose-utilyes80.093no
aerobicyes94.337no
glucose-fermentno90.199yes

External links

@ref: 5309

culture collection no.: DSM 14336, ATCC BAA 92

straininfo link

  • @ref: 82852
  • straininfo: 100720

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny12054249Leisingera methylohalidivorans gen. nov., sp. nov., a marine methylotroph that grows on methyl bromide.Schaefer JK, Goodwin KD, McDonald IR, Murrell JC, Oremland RSInt J Syst Evol Microbiol10.1099/00207713-52-3-8512002Alphaproteobacteria/*classification/genetics/*growth & development, Culture Media, DNA, Ribosomal/analysis, Hydrocarbons, Brominated/*metabolism, Methanol/*metabolism, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNACultivation
Genetics24501651Complete 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 HPStand Genomic Sci10.4056/sigs.42979652013

Reference

@idauthorscataloguedoi/urltitle
5309Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 14336)https://www.dsmz.de/collection/catalogue/details/culture/DSM-14336
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.10.1099/ijsem.0.004332List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
68368Automatically annotated from API 20E
68369Automatically annotated from API 20NE
69479João 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.https://microbeatlas.org/MicrobeAtlas 1.0 beta
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch10.21203/rs.3.rs-2527258/v1Predictions based on the model GenomeNet Sporulation v. 1
82852Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID100720.1StrainInfo: A central database for resolving microbial strain identifiers