Strain identifier

BacDive ID: 17501

Type strain: Yes

Species: Lysobacter bugurensis

Strain Designation: ZLD-29

Strain history: <- L Zhang, Northewest A&F Univ., China

NCBI tax ID(s): 543356 (species)

For citation purpose refer to the digital object identifier (doi) of the current version.
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General

@ref: 18149

BacDive-ID: 17501

DSM-Number: 26007

keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-negative

description: Lysobacter bugurensis ZLD-29 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from soil of arid aerea.

NCBI tax id

  • NCBI tax id: 543356
  • Matching level: species

strain history

@refhistory
18149<- KCTC <- C.-X. Fang, Wuhan Univ., China; ZLD-29
67771<- L Zhang, Northewest A&F Univ., China

doi: 10.13145/bacdive17501.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Lysobacterales
  • family: Lysobacteraceae
  • genus: Lysobacter
  • species: Lysobacter bugurensis
  • full scientific name: Lysobacter bugurensis Zhang et al. 2011

@ref: 18149

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Xanthomonadales

family: Lysobacteraceae

genus: Lysobacter

species: Lysobacter bugurensis

full scientific name: Lysobacter bugurensis Zhang et al. 2011

strain designation: ZLD-29

type strain: yes

Morphology

cell morphology

@refgram stainconfidence
67771negative
69480negative99.996

Culture and growth conditions

culture medium

  • @ref: 18149
  • name: HALF STRENGTH BACTO MARINE BROTH (DSMZ Medium 514a)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/514a
  • composition: Name: HALF STRENGTH BACTO MARINE BROTH (DSMZ Medium 514a) Composition: Agar 15.0 g/l NaCl 9.725 g/l MgCl2 2.95 g/l Bacto peptone 2.5 g/l Na2SO4 1.62 g/l CaCl2 0.9 g/l Yeast extract 0.5 g/l KCl 0.275 g/l NaHCO3 0.08 g/l Fe(III) citrate 0.05 g/l KBr 0.04 g/l SrCl2 0.017 g/l H3BO3 0.011 g/l Na2HPO4 0.004 g/l Na-silicate 0.002 g/l NaF 0.0012 g/l (NH4)NO3 0.0008 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
18149positivegrowth28mesophilic
67771positivegrowth30mesophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 67771
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.991

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentlatitudelongitude
18149soil of arid aereaXinjiang ProvinceChinaCHNAsia43.266789.2333
67771From soilGobiChinaCHNAsia

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Terrestrial
  • Cat3: #Soil

taxonmaps

  • @ref: 69479
  • File name: preview.99_30395.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_17;96_14890;97_18180;98_22616;99_30395&stattab=map
  • Last taxonomy: Lysobacter bugurensis subclade
  • 16S sequence: EU780693
  • Sequence Identity:
  • Total samples: 1035
  • soil counts: 423
  • aquatic counts: 90
  • animal counts: 448
  • plant counts: 74

Safety information

risk assessment

  • @ref: 18149
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 18149
  • description: UNVERIFIED: Lysobacter bugurensis strain ZLD-29 16S ribosomal RNA gene, partial sequence
  • accession: EU780693
  • length: 1453
  • database: ena
  • NCBI tax ID: 543356

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Lysobacter bugurensis KCTC 23077GCA_014652095scaffoldncbi543356
66792Lysobacter bugurensis strain KCTC 23077543356.4wgspatric543356

GC content

  • @ref: 18149
  • GC-content: 68.2
  • method: high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileyes79.841no
flagellatedno82.49no
gram-positiveno98.184no
anaerobicno98.529yes
aerobicyes92.139no
halophileno93.156no
spore-formingno95.801no
thermophileno95.935no
glucose-utilyes86.174no
glucose-fermentno90.504no

External links

@ref: 18149

culture collection no.: DSM 26007, CCTCC AB 207175, KCTC 23077

straininfo link

  • @ref: 86498
  • straininfo: 405922

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny20952549Lysobacter korlensis sp. nov. and Lysobacter bugurensis sp. nov., isolated from soil.Zhang L, Bai J, Wang Y, Wu GL, Dai J, Fang CXInt J Syst Evol Microbiol10.1099/ijs.0.024448-02010Bacterial Typing Techniques, Base Composition, China, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Locomotion, Lysobacter/*classification/genetics/*isolation & purification/physiology, Molecular Sequence Data, Phospholipids, Phylogeny, Pigments, Biological/metabolism, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Salts/metabolism, Sequence Analysis, DNA, *Soil MicrobiologyGenetics
Phylogeny25500457Lysobacter mobilis sp. nov., isolated from abandoned lead-zinc ore.Yang SZ, Feng GD, Zhu HH, Wang YHInt J Syst Evol Microbiol10.1099/ijs.0.0000262014Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Lead, Lysobacter/*classification/genetics/isolation & purification, Mining, Molecular Sequence Data, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Ubiquinone/chemistry, ZincGenetics
Phylogeny30906954Lysobacter helvus sp. nov. and Lysobacter xanthus sp. nov., isolated from Soil in South Korea.Kim I, Choi J, Chhetri G, Seo TAntonie Van Leeuwenhoek10.1007/s10482-019-01256-w2019Bacterial Typing Techniques, Base Composition, Cluster Analysis, Cytosol/chemistry, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Lysobacter/*classification/genetics/*isolation & purification/physiology, Nucleic Acid Hybridization, Phospholipids/analysis, Phylogeny, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, *Soil MicrobiologyTranscriptome

Reference

@idauthorscataloguedoi/urltitle
18149Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 26007)https://www.dsmz.de/collection/catalogue/details/culture/DSM-26007
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)
67771Curators of the KCTChttps://kctc.kribb.re.kr/En/Kctc
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
86498Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID405922.1StrainInfo: A central database for resolving microbial strain identifiers