Akademik Veri Yönetim Sistemi
International Journal of Agriculture, Environment and Food Sciences, cilt.6, sa.1, ss.135-140, 2022 (Hakemli Dergi)
Abstract
Pistachio (Pistacia vera L.) is the only edible and cultivated species. Pistachio is
the only economically importance and dioecious species in the genus Pistacia.
There are basic problems in pistachio breeding such as dioecious flower structure,
long juvenile period and alternate bearing. These problems can be overcome not
with classical breeding methods, but with modern molecular breeding methods. In
this study, very high numbers of single nucleotide polymorphism (SNP),
insertion/deletion (InDel), structural variants (SV) and copy number variation
(CNV) were determined by using the next generation sequencing data of the
pistachio genotype obtained with 15x sequencing coverage. A total of 1,785,235
SNP, 260,683 InDel, 5,227 SV and 1,914 CNV variants identified in PvF217
pistachio genotype. The variant density was calculated as one variant per 292 base.
The distribution of the obtained variants to the Siirt reference genome was
obtained. In addition, all variants were annotated to the reference genome and
exonic and genomic variants were described using Annovar. These data will be
used to consist of a molecular database in pistachio breeding for DNA
fingerprinting, discovering unique cultivar specific alleles and to identify
quantitative trait loci related to important nut traits.
Keywords
Pistachio, Resequencing, Genome, SNP