上饶早梨‘六月雪’和‘黄皮消’全基因组重测序分析

以上饶早梨Pyrus pyrifolia 2个品种‘六月雪’‘Liuyuexue’和‘黄皮消’‘Huangpixiao’试管苗为材料，进行全基因组重测序分析。结果表明:2个样本的总单核苷酸多态位点（SNP）数量分别为6 171 357和6 140 603个，编码区内无义突变位点（nsSNP）分别为335 659和332 280个。对nsSNP的常见变异（common variant，CV）分析发现，共有2 282个nsSNP关联了2 067个基因。2个样本的总插入缺失位点（INDEL）分别为800 388和799 603个，其中15 509和15 274个位于编码区，共5 115个差异INDEL关联到了3 682个基因，烟草花叶病毒（tobacco mosaic virus）耐药蛋白N，抗病蛋白等关键基因发生变异。差异nsSNP和差异INDEL富集得到的基因本体术语（GO terms）一致。本实验结果可为上饶早梨2个品种‘六月雪’和‘黄皮消’SNP和INDEL相关标记的开发、优异基因的挖掘提供参考。

Whole genome re-sequencing analysis of two cultivars ('Liuyuexue' and 'Huangpixiao') of Pyrus pyrifolia in Shangrao

A whole genome re-sequencing analysis was carried out with plantlets for two cultivars ('Liuyuexue' and 'Huangpixiao') of early pear (Pyrus pyrifolia) in Shangrao using a common variant analysis for nsSNPs (nonsynonymous mutations single-nucleotide polymorphism). Results showed a total number of single-nucleotide polymorphisms (SNP) in the two samples of 6 171 357 for 'Liuyuexue' and 6 140 603 for 'Huangpixiao', and a total number of nsSNP within the coding region of 335 659 for 'Liuyuexue' and 332 280 for 'Huangpixiao'. Using the common variant analysis for nsSNPs, 2 282 nsSNPs were found associated with 2 067 genes. The total indel numbers of the two samples were 800 388 for 'Liuyuexue' and 799 603 for 'Huangpixiao'. In the coding area, 15 509 indels for 'Liuyuexue' and 15 274 indels for 'Huangpixiao' were obtained, and 5 115 differential indels were associated with 3 682 genes. Key genes of the tobacco mosaic virus resistant protein N and the disease resistant protein as well as others were mutated. Enriched gene ontology (GO) terms of differential nsSNPs and differential indels were consistent. Results of this study could provide important references for the development of SNP and indel related markers and the extraction of excellent genes for the two cultivars ('Liuyuexue' and 'Huangpixiao') of early pear in Shangrao.