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oai:recercat.cat:20.500.12327/29402025-10-22T11:18:22Zcom_2072_4428com_2072_4427col_2072_487898

A first insight into peach [Prunus persica (L.) Batsch] SNP variability Aranzana, Maria Jose Illa, Eudald Howad, Werner Arús, Pere Producció Vegetal Genòmica i Biotecnologia 633 Three factors may have reduced the diversity at both individual gene and whole genome levels in cultivated peach: its self-compatible mating system, the narrow genetic basis of most commercial cultivars, and the recent strong selection towards agronomically interesting traits. Previous diversity analyses with markers such as simple sequence repeats (SSRs) have revealed low levels of genetic variability. Here, we sequenced 23 genome-wide distributed DNA fragments in 47 occidental peach varieties, also observing reduced variability levels. On average, there was one single nucleotide polymorphism (SNP) every 598 bp and one indel every 4,189 bp. As expected, variability was higher in noncoding than in coding regions (one SNP every 390 noncoding bp versus one in 1,850 bp in coding DNA). In general, SNPs were observed at relatively high frequency, mean minor allele frequency00.225, meaning that a large proportion of the SNPs discovered by sequencing similar germplasm will be useful for other purposes, such as association mapping. The average heterozygosity of the varieties was 0.28, with a low correlation between SSR and SNP heterozygosity. The whole sequence of two candidate genes, a pectate lyase 1 candidate for fruit firmness (CGPAA2668) and a sucrose synthase 1 candidate for sugar content (CGPPB6189), in the 47 varieties revealed that they both may have suffered a process of balancing selection. This research was funded in part by Projects AGL2009-07305/AGR and by the Consolider-Ingenio 2010 Program (CSD2007-00036), both from the Spanish Ministry of Science and Innovation, and by the ISAFRUIT Integrated Project. The ISAFRUIT Project was funded by the European Commission under Thematic Priority 5—Food Quality and Safety of the 6th Framework Programme of RTD (Contract No. FP6-FOOD-CT-2006-016279). info:eu-repo/semantics/publishedVersion 2012-06-10 info:eu-repo/semantics/article Aranzana, María José, Eudald Illa, Werner Howad, and Pere Arús. 2012. “A First Insight Into Peach [Prunus Persica (L.) Batsch] SNP Variability.” Tree Genetics & Genomes 8 (6): 1359–1369. doi:10.1007/s11295-012-0523-6. 1614-2942 http://hdl.handle.net/20.500.12327/2940 https://doi.org/10.1007/s11295-012-0523-6 eng Tree Genetics and Genomes MICINN/Programa Nacional de Proyectos de Investigación Fundamental/AGL2009-07305/ES/Evaluacion E Introgresion De Nuevas Fuentes De Variabilidad Genetica En Germoplasma De Melocotonero Europeo Y Norte-Americano/AGR MEC/Programa nacional de medios de transporte/CSD2007-00036/ES/Centro de Genómica Básica y de orientación Agroalimentaria/ MEC/Programa nacional de medios de transporte/CSD2007-00036/ES/Centro de Genómica Básica y de orientación Agroalimentaria/ Attribution 4.0 International http://creativecommons.org/licenses/by/4.0/ info:eu-repo/semantics/openAccess 11 Springer