Articles
HIGH-DENSITY MARKER GENOTYPING IN HAZELNUT (CORYLUS AVELLANA). I. GENOTYPING-BY-SEQUENCING APPROACH FOR EFFICIENT SNP DISCOVERY AND DNA TYPING
Article number
1100_7
Pages
63 – 69
Language
English
Abstract
Abstract
Among the fundamental questions regarding vegetatively propagated fruit crop
species are critical those seeking a comprehensive understanding the genomic basis of
divergence among the cultivated local varieties, the genetic variation within crop
germplasm, and the best measure of the degree of similarity among plants of the same
local variety cultivated in different orchards.
Recent advances in whole-genome DNA
sequencing have revolutionized the researcher ability to discover genomic variation,
thus enabling highly powered genotyping studies.
DNA samples from 120 accessions
within four known hazelnut (Corylus avellana) landraces (Tonda Gentile Romana,
Nocchione, Tonda Gentile Romana Rosa, and Nociara) and 1 unknown accession,
were clearly differentiated using genotypes for Single Nucleotide Polymorphism (SNP)
alleles discovered at 4,200 loci using the Restriction Associated DNA tagging (RADtag)
methodology.
The over 13% of the SNP loci with alleles specific to one accession
(private alleles) revealed clonal variation within a landrace and lay the basis for
certification of hazelnut germplasm.
The validated SNPs will be used to develop SNP
arrays for genotyping F1 individuals in order to provide e genetic map of the SNPs and
perform a genome wide association study to locate the EVG locus where reside the
alleles controlling duration of winter-dormancy.
Among the fundamental questions regarding vegetatively propagated fruit crop
species are critical those seeking a comprehensive understanding the genomic basis of
divergence among the cultivated local varieties, the genetic variation within crop
germplasm, and the best measure of the degree of similarity among plants of the same
local variety cultivated in different orchards.
Recent advances in whole-genome DNA
sequencing have revolutionized the researcher ability to discover genomic variation,
thus enabling highly powered genotyping studies.
DNA samples from 120 accessions
within four known hazelnut (Corylus avellana) landraces (Tonda Gentile Romana,
Nocchione, Tonda Gentile Romana Rosa, and Nociara) and 1 unknown accession,
were clearly differentiated using genotypes for Single Nucleotide Polymorphism (SNP)
alleles discovered at 4,200 loci using the Restriction Associated DNA tagging (RADtag)
methodology.
The over 13% of the SNP loci with alleles specific to one accession
(private alleles) revealed clonal variation within a landrace and lay the basis for
certification of hazelnut germplasm.
The validated SNPs will be used to develop SNP
arrays for genotyping F1 individuals in order to provide e genetic map of the SNPs and
perform a genome wide association study to locate the EVG locus where reside the
alleles controlling duration of winter-dormancy.
Authors
D. Scaglione, A. Fornasiero, F. Cattonaro, A. Pitoni, D. Torelli, D. Vittori, C. De Pace
Keywords
genotyping-by-sequencing, SNP, plant germplasm, molecular markers, Corylus avellana
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