Strain identifier

BacDive ID: 13670

Type strain: Yes

Species: Leisingera aquimarina

Strain Designation: R-26159

Strain history: <- CCUG <- LMG <- <- I. Vandecandelaere, Lab. Microbiology, Ghent Univ., Belgium

NCBI tax ID(s): 999611 (strain), 476529 (species)

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General

@ref: 17697

BacDive-ID: 13670

DSM-Number: 24565

keywords: genome sequence, 16S sequence, Bacteria, aerobe, psychrophilic, Gram-negative, motile, ovoid-shaped

description: Leisingera aquimarina R-26159 is an aerobe, psychrophilic, Gram-negative bacterium that was isolated from Marine biofilm on stainless steel electrode.

NCBI tax id

NCBI tax idMatching level
476529species
999611strain

strain history

  • @ref: 17697
  • history: <- CCUG <- LMG <- <- I. Vandecandelaere, Lab. Microbiology, Ghent Univ., Belgium

doi: 10.13145/bacdive13670.20230509.8.1

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 aquimarina
  • full scientific name: Leisingera aquimarina Vandecandelaere et al. 2008

@ref: 17697

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Rhodobacterales

family: Rhodobacteraceae

genus: Leisingera

species: Leisingera aquimarina

full scientific name: Leisingera aquimarina Vandecandelaere et al. 2008

strain designation: R-26159

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
32650negative1.4 µm1 µmovoid-shapedyes
69480negative99.999

colony morphology

@refincubation period
176973-7 days
607642-3 days

pigmentation

  • @ref: 32650
  • production: yes

multimedia

  • @ref: 66793
  • multimedia content: EM_DSM_24565_1.jpg
  • caption: electron microscopic image
  • intellectual property rights: © HZI/Manfred Rohde

Culture and growth conditions

culture medium

  • @ref: 17697
  • 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

@refgrowthtypetemperaturerange
17697positivegrowth20psychrophilic
32650positivegrowth04-37
32650positiveoptimum30mesophilic
60764positivegrowth20psychrophilic

culture pH

@refabilitytypepHPH range
32650positivegrowth5.5-9alkaliphile
32650positiveoptimum6.5-8

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
32650aerobe
60764aerobe

spore formation

@refspore formationconfidence
32650no
69481no99
69480no99.997

halophily

@refsaltgrowthtested relationconcentration
32650NaClpositivegrowth01-07 %
32650NaClpositiveoptimum01-07 %

observation

  • @ref: 32650
  • observation: aggregates in chains

enzymes

@refvalueactivityec
17697catalase+1.11.1.6
17697cytochrome-c oxidase+1.9.3.1
32650alkaline phosphatase+3.1.3.1
32650catalase+1.11.1.6
32650gelatinase+
32650cytochrome oxidase+1.9.3.1

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentsampling date
17697Marine biofilm on stainless steel electrodeGenoa, harbourItalyITAEurope
60764Marine biofilm on stainless steel electrodeGenoa,the harbourItalyITAEurope2004-10-01

isolation source categories

Cat1Cat2Cat3
#Engineered#Industrial#Engineered product
#Environmental#Aquatic#Marine
#Environmental#Biofilm

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: AM900415
  • Sequence Identity:
  • Total samples: 510
  • soil counts: 32
  • aquatic counts: 358
  • animal counts: 114
  • plant counts: 6

Safety information

risk assessment

  • @ref: 17697
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 17697
  • description: Leisingera aquimarina partial 16S rRNA gene, type strain LMG 24366T
  • accession: AM900415
  • length: 1396
  • database: ena
  • NCBI tax ID: 476529

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Leisingera aquimarina DSM 24565GCA_000473165scaffoldncbi999611
66792Leisingera aquimarina DSM 24565999611.3wgspatric999611
66792Leisingera aquimarina DSM 245652521172617draftimg999611

GC content

  • @ref: 17697
  • GC-content: 61.4

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno99no
motileyes82.57yes
flagellatedno73.925no
gram-positiveno98.536yes
anaerobicno98.99no
aerobicyes93.112yes
halophileyes80.641no
spore-formingno95.418yes
thermophileno97.199yes
glucose-utilyes66.912no
glucose-fermentno91.15no

External links

@ref: 17697

culture collection no.: DSM 24565, CCUG 55860, LMG 24366

straininfo link

  • @ref: 82853
  • straininfo: 343774

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny19060059Leisingera aquimarina sp. nov., isolated from a marine electroactive biofilm, and emended descriptions of Leisingera methylohalidivorans Schaefer et al. 2002, Phaeobacter daeponensis Yoon et al. 2007 and Phaeobacter inhibens Martens et al. 2006.Vandecandelaere I, Segaert E, Mollica A, Faimali M, Vandamme PInt J Syst Evol Microbiol10.1099/ijs.0.65844-02008*Biofilms, DNA Fingerprinting, Electricity, Electrodes/*microbiology, Marine Biology, Microscopy, Electron, Transmission, Molecular Sequence Data, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Rhodobacteraceae/*classification/genetics/*physiology/ultrastructure, Species SpecificityGenetics
Phylogeny19651744Leisingera nanhaiensis sp. nov., isolated from marine sediment.Sun F, Wang B, Liu X, Lai Q, Du Y, Li G, Luo J, Shao ZInt J Syst Evol Microbiol10.1099/ijs.0.010439-02009Base Composition, Base Sequence, China, DNA, Bacterial/chemistry, Geologic Sediments/*microbiology, Molecular Sequence Data, Oceans and Seas, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Rhodobacteraceae/*classification/genetics/physiology, Seawater/*microbiology, *Water MicrobiologyGenetics
Genetics24501625Genome sequence of the Leisingera aquimarina type strain (DSM 24565(T)), a member of the marine Roseobacter clade rich in extrachromosomal elements.Riedel T, Teshima H, Petersen J, Fiebig A, Davenport K, Daligault H, Erkkila T, Gu W, Munk C, Xu Y, Chen A, Pati A, Ivanova N, Goodwin LA, Chain P, Detter JC, Rohde M, Gronow S, Kyrpides NC, Woyke T, Goker M, Brinkhoff T, Klenk HPStand Genomic Sci10.4056/sigs.38581832013

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmedjournal
17697Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 24565)https://www.dsmz.de/collection/catalogue/details/culture/DSM-24565
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
32650Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2886128776041
60764Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 55860)https://www.ccug.se/strain?id=55860
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)
66793Mukherjee et al.10.1038/nbt.3886GEBA: 1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life28604660 35: 676-683 2017
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
82853Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID343774.1StrainInfo: A central database for resolving microbial strain identifiers