Genotyping by Sequencing for SNP-Based Linkage Map Construction and QTL Analysis of Chilling Requirement and Bloom Date in Peach [Prunus persica (L.) Batsch].
Genotyping by Sequencing for SNP-Based Linkage Map Construction and QTL Analysis of Chilling Requirement and Bloom Date in Peach [Prunus persica (L.) Batsch].
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DOI：
10.1371/journal.pone.0139406
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发表时间：
2015
期刊：
影响因子：
3.7
通讯作者：
Wells CE
中科院分区：
文献类型：
--
作者：
Bielenberg DG;Rauh B;Fan S;Gasic K;Abbott AG;Reighard GL;Okie WR;Wells CE
低成本、高通量的基因分型方法对于标记发现和标记辅助育种工作至关重要，但对于许多“特种作物”如水果和坚果树还没有。在这里，我们应用基因分型测序（GBS）方法开发的谷物发现单核苷酸多态性（SNP）在桃F2作图群体。桃是蔷薇科内的遗传和基因组模型，并将为该家族的其他成员使用该方法提供模板。我们的F2作图群体的57个基因型分离的开花时间（BD）和需冷量（CR），我们已经广泛的表型这个群体。该群体来自'Hakuho'（高CR）和'UFGold'（低CR）杂交的自交F1后代。我们能够成功地采用GBS和TASSEL GBS流水线，而无需修改使用ApeKI限制性酶的原始方法，并以每个Illumina HiSeq 2000泳道96个样品的等效量进行多路复用。我们获得了数百个SNP标记，然后用于构建遗传连锁图谱，并确定BD和CR的数量性状位点（QTL）。
Low-cost, high throughput genotyping methods are crucial to marker discovery and marker-assisted breeding efforts, but have not been available for many ‘specialty crops’ such as fruit and nut trees. Here we apply the Genotyping-By-Sequencing (GBS) method developed for cereals to the discovery of single nucleotide polymorphisms (SNPs) in a peach F2 mapping population. Peach is a genetic and genomic model within the Rosaceae and will provide a template for the use of this method with other members of this family. Our F2 mapping population of 57 genotypes segregates for bloom time (BD) and chilling requirement (CR) and we have extensively phenotyped this population. The population derives from a selfed F1 progeny of a cross between ‘Hakuho’ (high CR) and ‘UFGold’ (low CR). We were able to successfully employ GBS and the TASSEL GBS pipeline without modification of the original methodology using the ApeKI restriction enzyme and multiplexing at an equivalent of 96 samples per Illumina HiSeq 2000 lane. We obtained hundreds of SNP markers which were then used to construct a genetic linkage map and identify quantitative trait loci (QTL) for BD and CR.