Novel SNP markers in InvGE and SssI genes are associated with natural variation of sugar contents and frying color in Solanum tuberosum Group Phureja.
Novel SNP markers in InvGE and SssI genes are associated with natural variation of sugar contents and frying color in Solanum tuberosum Group Phureja.
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DOI：
10.1186/s12863-017-0489-3
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发表时间：
2017-03-09
期刊：
影响因子：
2.9
通讯作者：
Mosquera-Vásquez T
中科院分区：
文献类型：
--
作者：
Duarte-Delgado D;Juyó D;Gebhardt C;Sarmiento F;Mosquera-Vásquez T
马铃薯油炸色泽是一种受块茎含糖量影响的农艺性状。本文采用候选基因方法，对二倍体马铃薯育种重要遗传资源——龙茄（Solanum tuberosum Group Phureja）这一性状的分子基础进行了研究。本研究的目的是在碳水化合物代谢的关键位点上发现与油炸品质相关的新遗传变异，以发现对育种计划有用的遗传变异。因此，对10个候选基因的109个SNP标记进行了关联分析。分析显示，编码外胞体转化酶的基因座InvGE有4个关联，编码可溶性淀粉合成酶的基因座SssI有1个关联。SNPs ssi - c 45711901 T和InvGE-C 2475454 T分别与蔗糖含量和油炸颜色相关，此前未在四倍体基因型中发现。罕见的单倍型InvGE-A 2475187 C 2475295 A 2475344与较高的果糖含量相关。我们的研究允许对来自InvGE的外显子3的序列变化进行更详细的分析，这在以前的研究中是不可能的，因为四倍体马铃薯中插入-删除多态性的频率很高。在Phureja群体中使用候选基因方法进行关联定位策略，可以鉴定出与油炸颜色和块茎糖含量相关的InvGE和SssI的新SNP标记。这些新的关联可能有助于马铃薯育种计划，以改善品质性状和增加作物遗传变异。结果表明，参与块茎含糖量和油炸颜色自然变异的部分基因在普瑞亚和四倍体种质中都是保守的。然而，这两种种质的相关变异存在于这些基因的不同区域。本研究有助于了解普雷贾族块茎糖含量和油炸色泽的遗传结构。本文的在线版本（doi:10.1186/s12863-017-0489-3）包含补充材料，可供授权用户使用。
Potato frying color is an agronomic trait influenced by the sugar content of tubers. The candidate gene approach was employed to elucidate the molecular basis of this trait in Solanum tuberosum Group Phureja, which is mainly diploid and represents an important genetic resource for potato breeding. The objective of this research was to identify novel genetic variants related with frying quality in loci with key functions in carbohydrate metabolism, with the purpose of discovering genetic variability useful in breeding programs. Therefore, an association analysis was implemented with 109 SNP markers identified in ten candidate genes. The analyses revealed four associations in the locus InvGE coding for an apoplastic invertase and one association in the locus SssI coding for a soluble starch synthase. The SNPs SssI-C 45711901 T and InvGE-C 2475454 T were associated with sucrose content and frying color, respectively, and were not found previously in tetraploid genotypes. The rare haplotype InvGE-A 2475187 C 2475295 A 2475344 was associated with higher fructose contents. Our study allowed a more detailed analysis of the sequence variation of exon 3 from InvGE, which was not possible in previous studies because of the high frequency of insertion-deletion polymorphisms in tetraploid potatoes. The association mapping strategy using a candidate gene approach in Group Phureja allowed the identification of novel SNP markers in InvGE and SssI associated with frying color and the tuber sugar content measured by High Performance Liquid Chromatography (HPLC). These novel associations might be useful in potato breeding programs for improving quality traits and to increase crop genetic variability. The results suggest that some genes involved in the natural variation of tuber sugar content and frying color are conserved in both Phureja and tetraploid germplasm. Nevertheless, the associated variants in both types of germplasm were present in different regions of these genes. This study contributes to the understanding of the genetic architecture of tuber sugar contents and frying color at harvest in Group Phureja. The online version of this article (doi:10.1186/s12863-017-0489-3) contains supplementary material, which is available to authorized users.