Utilization of next-generation sequencing platforms in plant genomics and genetic variant discovery

被引：86

作者：

Deschamps, Stephane ^{[1
]}

Campbell, Matthew A. ^{[2
]}

机构：

[1] DuPont Crop Genet, Expt Stn, Wilmington, DE 19880 USA

[2] Pioneer HiBred Int Inc, Johnston, IA 50131 USA

来源：

MOLECULAR BREEDING | 2010年 / 25卷 / 04期

关键词：

Plant genomics; SNP discovery; Genome; Transcriptome; Resequencing; Next generation sequencing; SHORT DNA-SEQUENCES; POLYMORPHISM SNP DISCOVERY; WHOLE-GENOME; LARGE-SCALE; DIFFERENTIAL METHYLATION; DRAFT SEQUENCE; BASE CALLER; SINGLE; IDENTIFICATION; ALIGNMENT;

D O I：

10.1007/s11032-009-9357-9

中图分类号：

S3 [农学（农艺学）];

学科分类号：

0901 ;

摘要：

Genome-wide variant detection within a species is the primary initial step towards linking genotypic variation and phenotypes. The conversion of these genetic variants (the most prevalent of these being single-nucleotide polymorphisms or SNPs) into genetic markers is particularly important in agronomically valuable crop species to allow for cost-effective marker-assisted selection strategies, whole-genome fingerprinting, association studies, map-based gene cloning and population-based analyses. Towards these goals, an increasing number of large-scale genetic variant discovery initiatives are being undertaken in conjunction with next-generation sequencing platforms, allowing for drastically quicker and cheaper variant discovery, and leading towards a far more comprehensive view of the genome or transcriptome. This review will summarize the current status of these initiatives and will discuss the expanding role of next-generation sequencing technologies in facilitating crop improvement.

引用

页码：553 / 570

页数：18

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