新疆核桃‘新露’与‘新萃丰’全基因组重测序分析

Whole genome resequencing analysis of Xinjiang walnut‘Xinlu’and‘Xincuifeng’

新疆是我国核桃重要的产区之一,核桃果皮发育不全(露仁)不利于核桃的运输与储存,为清晰新疆核桃露仁机理,对新疆核桃薄壳露仁品种‘新露’与薄壳不露仁品种‘新萃丰’进行全基因组重测序分析,获得2种核桃SNP和InDel的变异位置及注释,筛选两者的差异基因并富集分析。结果表明:‘新露’的总SNP数量为4700220个,编码区内非同义突变(nsSNP)总数为81580个;‘新萃丰’的总SNP数量为4675346个,nsSNP数量为83811个;‘新露’与‘新萃丰’的总InDel数量分别为648603个、712868个。共检测到36515个变异SNPs和3830个InDels,富集分析发现‘新露’主要集中在基础代谢过程和细胞壁的形成,‘新萃丰’集中在微管过程和囊泡运输。与基因组序列比对分析,获得7个可能参与调控木质素代谢的关键基因,其中LOC109019252等基因调控木质素代谢过程中苯丙烷途径的天冬氨酸转氨酶。通过对2种新疆核桃的全基因组重测序分析,获取变异位点数量与位置信息,分析获得可能调控核桃木质素代谢的基因,为木质素代谢调控提供数据支持。

Xinjiang is one of the important walnut producing areas in China,and the incomplete development of walnut husk(dew kernel)is not conducive to the transportation and storage of walnut.In order to clarify the mechanism of walnut dew kernel,The wal-nut variety‘Xinlu’with thin-shelled dew kernel and‘Xincuifeng’with thin-shelled non-dew kernel were used as test materials for whole-genome resequencing analysis.And to obtain variant positions and annotations of 2 walnut SNPs and InDels,screen the dif-ferential genes of both and enrichment analysis.The results showed that:the total number of SNPs in‘Xinlu’was 4700220 and the total number of nonsynonymous SNPs(nsSNPs)in the code area was 81580;The total number of SNPs in‘Xincuifeng’was 4675346 and the total number of nsSNPs was 83811;The total number of InDels in‘Xinlu’and‘Xincuifeng’was 648603 and 712868.And the total of 36515 variant SNPs and 3830 InDels were detected,which revealed that the‘Xinlu’was mainly concen-trated in basal metabolic processes and cell wall formation,and the‘Xincuifeng’was concentrated in microtubule processes and vesi-cle transport.Seven key genes that may be involved in the regulation of lignin metabolism were screened by sequence alignment analysis with the genome,including LOC109019252 and other genes that regulate aspartate aminotransferase in the phenyl propane pathway of lignin metabolism.The whole genome resequencing analysis of two Xinjiang walnut varieties were performed to obtain information on the number and location of variant loci,and analyze the genes that may regulate lignin metabolism in walnut,which can provide data to support the regulation of lignin metabolism.