Scientia Agricultura Sinica ›› 2017, Vol. 50 ›› Issue (23): 4613-4621.doi: 10.3864/j.issn.0578-1752.2017.23.014

• HORTICULTURE • Previous Articles     Next Articles

Gene Mapping of Aphid-Resistant for Peach Using SNP Markers

ZHANG NanNan, LU ZhenHua, CUI GuoChao, PAN Lei, ZENG WenFang, NIU Liang, WANG ZhiQiang   

  1. Zhengzhou Fruit Research Institute, Chinese Academy of Agricultural Sciences/National Peach and Grape Improvement Center/ Key Laboratory of Fruit Breeding Technology of Ministry of Agriculture, Zhengzhou 450009
  • Received:2017-06-02 Online:2017-12-01 Published:2017-12-01

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Abstract: 【Objective】 The objective of this study is to identify the SNP loci tightly linked to peach( Prunus persica (L.) Batsch ) aphid(Myzus persicae (Sulzer)) resistance traits, revealing its genetic basis and laying a foundation for the marker assistant selection in resistance breeding of peach.【Method】In this study, the population used for the mapping study consisted of141 individuals which were obtained from a cross between female parent (‘01-77-3’ ) and male parent (‘CN13’). Referencing the peach genome and using Sanger sequencing, single nucleotide polymorphism (SNP) markers were developed in female and male parents and 8 progenies to obtain markers linked to the target loci which were tested on the whole population. Subsequently, using whole genome re-sequencing data of two parents, SNPs for fine mapping were selected based on the genotype of two parents, andemployed to conduct genotyping to obtain the SNP marker linked to resistance traits. Ultimately, the fine mapping region was validated by using an InDel marker to verify the genotype of F1 population generated from ‘96-5-1’ × ‘10-7’. 【Result】 As a result of phenotype identification of 141 progenies, the segregation ratio of resistance to aphid to susceptible ones showed 1﹕1 (P: 0.556; χ2: 0.348). Using Sanger sequencing we mapped the resistant gene to an approximate 9.92 Mb physical distance between two SNP markers, Pp01_38011783 and Pp01_47231340 on Pp01. For fine mapping, a total of 17.109 Gb clean data was generated from genome re-sequencing and the average coverage depth is 75.19×. 11 of 29 pairs of primers which were designed based on genome re-sequencing data were effective and linked to target trait. As a result of genotyping, we obtained two SNP makers tightly linked to desired trait, SNP_Pp01_45665389 and SNP_Pp01_46120950, with genetic distance of 1.4 cM and 2.1 cM, respectively. The target locus was between these two markers, an approximate physical distance of 460 Kb, and the gene was co-segregating with another marker SNP_Pp01_45712702. With fine gene mapping region, an InDel marker, KYYZ_Pp01_45799758, was designed and used to verify the phenotype of 92 individuals generated from an F1 segregation population of ‘96-5-1’ ב10-7’ with 98.91% accuracy.【Conclusion】The SNP loci and candidate genes related closely with aphid-resistant gene of peach were identified in this study. The resistant gene had been mapped to an approximate 460 kb physical distance between two SNP markers, SNP_Pp01_45665389 and SNP_Pp01_46120950 at the bottom of Pp01 which contains 56 transcripts (52 candidate genes).

Key words: Prunus persica, SNP markers, aphid-resistant, gene mapping

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