Strain identifier

BacDive ID: 158527

Type strain: Yes

Species: Pyruvatibacter mobilis

Strain Designation: GYP-11

NCBI tax ID(s): 1712261 (species)

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General

@ref: 65203

BacDive-ID: 158527

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

description: Pyruvatibacter mobilis GYP-11 is an aerobe, Gram-negative, motile bacterium that builds star-shaped-aggregate and was isolated from culture broth of a marine microalga, Picochloruma sp. 122.

NCBI tax id

  • NCBI tax id: 1712261
  • Matching level: species

doi: 10.13145/bacdive158527.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Hyphomicrobiales
  • family: Parvibaculaceae
  • genus: Pyruvatibacter
  • species: Pyruvatibacter mobilis
  • full scientific name: Pyruvatibacter mobilis Wang et al. 2016

@ref: 65203

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Hyphomicrobiales

family: Rhizobiales, not assigned to family

genus: Pyruvatibacter

species: Pyruvatibacter mobilis

strain designation: GYP-11

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityflagellum arrangementconfidence
65203negative1.3-2.45 µm0.22-0.48 µmrod-shapedyesmonotrichous, polar
69480negative99.998

colony morphology

  • @ref: 65203
  • colony color: pale, opaque
  • medium used: marine broth 2216 amended with 0.5 % pyruvate

multicellular morphology

  • @ref: 65203
  • forms multicellular complex: yes
  • complex name: star-shaped-aggregate
  • further description: cells are attached with stalks and non-motile

Culture and growth conditions

culture medium

  • @ref: 65203
  • name: marine broth 2216
  • growth: yes
  • composition: amended with 0.5 % pyruvate

culture temp

@refgrowthtypetemperaturerange
65203positivegrowth15-45
65203positiveoptimum30mesophilic

culture pH

@refabilitytypepHPH range
65203positivegrowth6.0-9.0alkaliphile
65203positiveoptimum7.0-8.0

Physiology and metabolism

oxygen tolerance

  • @ref: 65203
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
65203no
69480no99.997
69481no100

halophily

@refsaltgrowthtested relationconcentration
65203NaClpositivegrowth0.25-8 %(w/v)
65203NaClpositiveoptimum1-3 %(w/v)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
65203370543-hydroxybutyrate+assimilation
6520330089acetate-carbon source
6520313705acetoacetate+assimilation
6520317128adipate+assimilation
6520327689decanoate-assimilation
6520378697D-fructose 6-phosphate+assimilation
6520317634D-glucose-assimilation
6520317634D-glucose-fermentation
6520316899D-mannitol+assimilation
6520316024D-mannose+assimilation
652035291gelatin+hydrolysis
6520317234glucose-carbon source
6520332323glucuronamide+assimilation
6520317754glycerol-carbon source
6520330849L-arabinose+assimilation
6520315971L-histidine+assimilation
6520325115malate+assimilation
6520317306maltose+assimilation
6520317306maltose+carbon source
65203506227N-acetylglucosamine+assimilation
6520317632nitrate+reduction
6520318401phenylacetate+assimilation
6520332032potassium gluconate+assimilation
6520332032potassium gluconate+carbon source
6520317272propionate+assimilation
6520317272propionate+carbon source
6520315361pyruvate+assimilation
6520315361pyruvate+carbon source
6520364103sodium butyrate+assimilation
6520353258sodium citrate-assimilation
6520353258sodium citrate-carbon source
6520375228sodium lactate+assimilation
6520353424tween 20+hydrolysis
6520353423tween 40+hydrolysis
6520353426tween 80+hydrolysis

metabolite production

@refChebi-IDmetaboliteproduction
6520316136hydrogen sulfideno
6520335581indoleno

enzymes

@refvalueactivityec
65203catalase+1.11.1.6
65203cytochrome oxidase+1.9.3.1
65203protease+
65203beta-glucosidase+3.2.1.21
65203beta-galactosidase+3.2.1.23
65203arginine dihydrolase-3.5.3.6
65203urease-3.5.1.5

fatty acid profile

  • fatty acids

    @reffatty acidpercentageECL
    65203C18:1ω7c/ω6c48
    65203C18:1ω7c 11-methyl18.2
    65203C12:01.2
    65203C16:03.7
    65203C18:05.1
    65203C12:0 2OH4
    65203C16:0 3OH4.3
    65203C18:1 2OH1.3
    65203Cyclo C19:0ω8c5.9
    65203unknown ECL 10.928 and/or 12:0 aldehyde1.811
    65203unknown ECL 18.846 and/or C19:1ω6c2.419
  • type of FA analysis: whole cell analysis
  • incubation medium: MAP plates
  • agar/liquid: agar
  • incubation temperature: 28
  • software version: Sherlock 6.0
  • system: MIS MIDI

Isolation, sampling and environmental information

isolation

  • @ref: 65203
  • sample type: culture broth of a marine microalga, Picochloruma sp. 122
  • country: Indian Ocean

isolation source categories

Cat1Cat2Cat3
#Host#Algae#Green algae
#Engineered#Laboratory#Lab enrichment

taxonmaps

  • @ref: 69479
  • File name: preview.99_73660.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_187;96_630;97_733;98_51573;99_73660&stattab=map
  • Last taxonomy: Pyruvatibacter mobilis subclade
  • 16S sequence: KR078282
  • Sequence Identity:
  • Total samples: 938
  • soil counts: 15
  • aquatic counts: 838
  • animal counts: 68
  • plant counts: 17

Sequence information

16S sequences

  • @ref: 65203
  • description: 16S rRNA gene sequence
  • accession: KR078282
  • database: nuccore

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Pyruvatibacter mobilis CGMCC 1.15125GCA_014640905contigncbi1712261
66792Pyruvatibacter mobilis CGMCC 1.15125GCA_012848855completencbi1712261
66792Pyruvatibacter mobilis GYP-11GCA_009910475contigncbi1712261
66792Pyruvatibacter mobilis strain CGMCC 1.151251712261.7completepatric1712261
66792Pyruvatibacter mobilis strain CGMCC 1.151251712261.8wgspatric1712261
66792Pyruvatibacter mobilis GYP-112889425356draftimg1712261
66792Pyruvatibacter mobilis CGMCC 1.151252883336408completeimg1712261

GC content

  • @ref: 65203
  • GC-content: 63
  • method: high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileyes88.991no
flagellatedyes61.613yes
gram-positiveno98.775yes
anaerobicno95.779no
aerobicyes76.796no
halophileyes54.016no
spore-formingno94.86no
thermophileno94.362yes
glucose-utilno50no
glucose-fermentno93.986yes

External links

@ref: 65203

culture collection no.: CGMCC 1.15125, KCTC 42509

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny26476620Pyruvatibacter mobilis gen. nov., sp. nov., a marine bacterium from the culture broth of Picochlorum sp. 122.Wang G, Tang M, Wu H, Dai S, Li T, Chen C, He H, Fan J, Xiang W, Li XInt J Syst Evol Microbiol10.1099/ijsem.0.0006922015Alphaproteobacteria/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, Chlorophyta/*microbiology, DNA, Bacterial/genetics, Fatty Acids/chemistry, Molecular Sequence Data, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Ubiquinone/analogs & derivatives/chemistryGenetics
Metabolism33517978Genomic insights into antioxidant activities of Pyruvatibacter mobilis CGMCC 1.15125(T), a pyruvate-requiring bacterium isolated from the marine microalgae culture.Rong JC, Ji BW, Zheng N, Sun ZZ, Li YS, Xie BBMar Genomics10.1016/j.margen.2020.1007912020Alphaproteobacteria/*genetics/metabolism, Antioxidants/*metabolism, Aquatic Organisms/genetics/metabolism, *Genome, Bacterial, Microalgae/*microbiology, Pyruvates/*metabolism, Whole Genome SequencingGenetics

Reference

@idauthorstitledoi/urljournalpubmed
20215Parte, 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 DSMZ10.1099/ijsem.0.004332
65203Guanghua Wang, Mingxing Tang, Hualian Wu, Shikun Dai, Tao Li, Chenghao Chen, Hui He, Jiewei Fan, Wenzhou Xiang, Xiang LPyruvatibacter mobilis gen. nov., sp. nov., a marine bacterium from the culture broth of Picochlorum sp. 12210.1099/ijsem.0.000692IJSEM 66: 184-188 201626476620
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
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.MicrobeAtlas 1.0 betahttps://microbeatlas.org/
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. MünchPredictions based on the model GenomeNet Sporulation v. 110.21203/rs.3.rs-2527258/v1