Genome-wide association study of seedling stage salinity tolerance in temperate japonica rice germplasm.
Genome-wide association study of seedling stage salinity tolerance in temperate japonica rice germplasm.
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DOI：
10.1186/s12863-017-0590-7
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发表时间：
2018-01-03
期刊：
影响因子：
2.9
通讯作者：
Leung H
中科院分区：
文献类型：
--
作者：
Batayeva D;Labaco B;Ye C;Li X;Usenbekov B;Rysbekova A;Dyuskalieva G;Vergara G;Reinke R;Leung H
盐度对许多国家沿海、干旱和半干旱地区的水稻生产有重大影响，包括哈萨克斯坦等种植温带水稻的国家。最近，通过3K水稻基因组计划对3000份水稻材料的全基因组进行了测序，这组材料包括203份温带水稻材料。为了鉴定水稻耐盐性种质和相关基因，为培育温带水稻新的耐盐性育种品系，我们对测序的温带水稻材料进行了苗期耐盐性评价，并对一系列耐盐性相关性状进行了全基因组关联研究。27份材料(Ses <； 5.0)在中等盐度胁迫(EC12)下表现良好，5份材料在EC12和EC18下均表现耐性。共检测到9个性状的26个QTL。其中11个QTL与已知的耐盐性基因共定位。在第1、2、3、6、8和9号染色体上观察到QTL/基因簇，在5个有前景的QTL中确定了6个候选基因。与温带粳稻相比，籼稻材料的主要QTL Salto1和Na+/K+比值基因OSHKT1；5(SKC1)的等位基因有所不同。本研究鉴定了耐盐性温带水稻材料，这些材料是育种的重要资源。位于有前景的QTL和候选基因上的SNPs可用于未来的基因验证和标记辅助选择。本研究为今后温带粳稻耐盐性的遗传育种研究提供了有用的信息。本文的在线版本(10.1186/s12863-0170590-7)包含向授权用户提供的补充材料。
Salinity has a significant impact on rice production in coastal, arid and semi-arid areas in many countries, including countries growing temperate rice, such as Kazakhstan. Recently, the complete genomes of 3000 rice accessions were sequenced through the 3 K rice genome project, and this set included 203 temperate japonica rice accessions. To identify salinity-tolerant germplasm and related genes for developing new salinity-tolerant breeding lines for the temperate japonica rice growing regions, we evaluated the seedling stage salinity tolerance of these sequenced temperate japonica rice accessions, and conducted genome-wide association studies (GWAS) for a series of salinity tolerance related traits. There were 27 accessions performed well (SES < 5.0) under moderate salinity stress (EC12), and 5 accessions were tolerant under both EC12 and EC18. A total of 26 QTLs were identified for 9 measured traits. Eleven of these QTLs were co-located with known salinity tolerance genes. QTL/gene clusters were observed on chromosome 1, 2, 3, 6, 8 and 9. Six candidate genes were identified for five promising QTLs. The alleles of major QTL Saltol and gene OSHKT1;5 (SKC1) for Na+/K+ ratio identified in indica rice accessions were different from those in the temperate japonica rice accessions used in this study. Salinity tolerant temperate japonica rice accessions were identified in this study, these accessions are important resources for breeding programs. SNPs located in the promising QTLs and candidate genes could be used for future gene validation and marker assisted selection. This study provided useful information for future studies on genetics and breeding of salinity tolerance in temperate japonica rice. The online version of this article (10.1186/s12863-017-0590-7) contains supplementary material, which is available to authorized users.
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影响因子：
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