Genetic Difference Analysis of Two Wheat Varieties Based on Whole Genome Sequence
Common wheat(Triticum aestivum L.)'8762'and'Keyi5214',which have large phenotypic differences in important agronomic traits and yield,are the two parents of a double haploid(DH)population.To investigate the differences in genetic composition at the whole genome sequence level,this study employed the Illumina HiSeq2500 sequencing platform to perform whole-genome sequencing(The sequencing depth of'8762'is 5.07×,and that of'Keyi5214'is 5.4×),and the sequence differences of copy number variation(CNV),single nucleotide polymorphism(SNP)and insertion/deletion(InDel)were systematically compared between the two parents.Com-pared with the Chinese spring reference genome sequences(IWGSC RefSeq v1.0),the total CNV deletion differ-ence interval on the genomes of the two parents was 834 Mb,while the identical interval was only 229 Mb;the total CNV duplication difference interval on the genomes was 94 Mb,while the same interval was only 9 Mb.There were 10 200 637 different SNP loci and 758 113 different InDel loci between'8762'and'Keyi5214'.The SNP se-quence divergence intervals between the two parents were much larger than the sequence similarity intervals,and these divergence intervals were mainly concentrated on chromosomes 3A,3B,4A,5A and 7A.Overall,this study provides an important reference for the analysis of genetic differences in wheat varieties based on whole-genome sequences using resequencing data and reveals the genetic similarity and different intervals between'8762'and'Keyi5214'.It also provides a theoretical basis for understanding the genetic differences between the two parents used to develop the DH population,as well as provides new insights for further QTL mapping of yield-related traits and marker development.
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