0000000000124023

AUTHOR

Giuseppina Schiavo

showing 3 related works from this author

Preselection statistics and Random Forest classification identify population informative single nucleotide polymorphisms in cosmopolitan and autochth…

2018

Commercial single nucleotide polymorphism (SNP) arrays have been recently developed for several species and can be used to identify informative markers to differentiate breeds or populations for several downstream applications. To identify the most discriminating genetic markers among thousands of genotyped SNPs, a few statistical approaches have been proposed. In this work, we compared several methods of SNPs preselection (Delta, F st and principal component analyses (PCA)) in addition to Random Forest classifications to analyse SNP data from six dairy cattle breeds, including cosmopolitan (Holstein, Brown and Simmental) and autochthonous Italian breeds raised in two different regions and …

0301 basic medicineGenetic MarkersLinkage disequilibriumGenotypePopulationAnimal Identification SystemsSNPSingle-nucleotide polymorphismBiologyBreedingPolymorphism Single NucleotideSF1-1100Linkage Disequilibrium03 medical and health sciencesSettore AGR/17 - Zootecnica Generale E Miglioramento GeneticoSNPAnimalsBos tauruSelection GeneticeducationSelection (genetic algorithm)Geneticseducation.field_of_studyPrincipal Component AnalysisRandom ForestBos taurus; breed assignment; Random Forest; SNP; Animal Science and Zoology0402 animal and dairy science04 agricultural and veterinary sciencesPhenotypic trait040201 dairy & animal scienceBos taurusSNP genotypingAnimal culture030104 developmental biologyPhenotypeItalyGenetic markerSNP breed assignment Random Forest Bos taurusCattleAnimal Science and Zoologybreed assignmentAnimal
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Whole genome semiconductor based sequencing of farmed European sea bass (Dicentrarchus labrax) Mediterranean genetic stocks using a DNA pooling appro…

2016

European sea bass (Dicentrarchus labrax) is an important marine species for commercial and sport fisheries and aquaculture production. Recently, the European sea bass genome has been sequenced and assembled. This resource can open new opportunities to evaluate and monitor variability and identify variants that could contribute to the adaptation to farming conditions. In this work, two DNA pools constructed from cultivated European sea bass were sequenced using a next generation semiconductor sequencing approach based on Ion Proton sequencer. Using the first draft version of the D. labrax genome as reference, sequenced reads obtained a total of about 1.6 million of single nucleotide polymorp…

0301 basic medicinefood.ingredientIon ProtonSNPBiologyAquatic ScienceGenomePolymorphism Single NucleotideCultivated sea baDNA sequencing03 medical and health sciencesBass (fish)Settore AGR/17 - Zootecnica Generale E Miglioramento Genetico0302 clinical medicinefoodChromosome regionsNext generation sequencingCultivated sea bass Next generation sequencing Ion Proton SNPGeneticsAnimalsSea bassGeneGeneticsGenomeCultivated sea bass; Ion Proton; Next generation sequencing; SNP; Aquatic Science; GeneticsHigh-Throughput Nucleotide SequencingIon semiconductor sequencingSequence Analysis DNA030104 developmental biologyItalyBassSelective sweepCultivated sea bass030217 neurology & neurosurgery
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Comparative selection signature analyses identify genomic footprints in Reggiana cattle, the traditional breed of the Parmigiano-Reggiano cheese prod…

2020

Reggiana is an autochthonous cattle breed reared mainly in the province of Reggio Emilia, located in the North of Italy. Reggiana cattle (originally a triple-purpose population largely diffused in the North of Italy) are characterised by a typical solid red coat colour. About 2500 cows of this breed are currently registered to its herd book. Reggiana is now considered a dual-purpose breed even if it is almost completely dedicated to the production of a mono-breed branded Protected Designation of Origin Parmigiano-Reggiano cheese, which is the main driver of the sustainable conservation of this local genetic resource. In this study, we provided the first overview of genomic footprints that c…

MaleCoat040301 veterinary sciencesPopulationselection signatureBreedingQuantitative trait locusBiologyPolymorphism Single NucleotideSF1-1100Fixation index0403 veterinary scienceCheeseAnimalsBos taurueducationAllele frequencygenomeeducation.field_of_studyGenomeAutochthonous breedHaplotypeautochthonous breed Bos taurus genome selection signature selection sweep0402 animal and dairy scienceGenomics04 agricultural and veterinary sciencesSelection signature040201 dairy & animal scienceBreedBos taurusAnimal cultureselection sweepautochthonous breedItalyEvolutionary biologyHerdCattleFemaleAnimal Science and ZoologySelection sweepAnimal
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