Tazib Tanveer, Kobayashi Yuriko, Ikka Takashi, Zhao Cheng-Ri, Iuchi Satoshi, Kobayashi Masatomo, Kimura Kazuhiko, Koyama Hiroyuki
Laboratory of Plant Cell Technology, Faculty of Applied Biological Sciences, Gifu University, Gifu, Japan.
Physiol Plant. 2009 Nov;137(3):235-48. doi: 10.1111/j.1399-3054.2009.01286.x.
Association mapping analysis of Cd, Cu and H (2)O (2) tolerance, judged by relative root length (RRL: % of root length in stress condition relative to that in control condition), and Cd and Cu translocation ratios (amount of metal in the shoot to the total) were performed using 90 accessions of Arabidopsis thaliana. Using 140 SNPs that were distributed across the genome, association mapping analysis was performed with a haploid setting by the Q + K method, which minimizes detection of false associations by combining the Q-matrix of the structured association (Q) with kinship (K) to control for the population structure. Six, five and five significant (-log (10)P-value is 1.3 > or =) linkages were detected between the SNPs and Cd, Cu and H(2)O(2) resistant RRLs, respectively. In addition, six significant linkages were identified with translocation capacities of Cd and Cu. Among those detected loci, two each of Cu and Cd tolerance RRLs were collocated with those of H(2)O(2) tolerance RRL, while one locus each was detected by Cu and Cd tolerance RRLs that collocated with their translocation ratios. These results suggested that these factors might partly explain the phenotypic variation of tolerance RRLs to Cd and Cu of Arabidopsis thaliana. Finally, using a different approach to analyze interactions between individual phenotypes, namely clustering analysis, we found an expected segregation of resistant SNPs (single-nucleotide polymorphisms) of the multiple RRLs in the typical accession groups carrying multiple traits. Almost none of the loci detected by association mapping analysis were linked to the loci of previously identified critical genes regulating the traits, suggesting that this could be useful to identify complex architecture of genetic factors determining variation among multiple accessions.
通过相对根长（RRL：胁迫条件下的根长相对于对照条件下根长的百分比）以及镉（Cd）和铜（Cu）的转运率（地上部金属含量与总量之比）来判断镉、铜和过氧化氢（H₂O₂）耐受性，并使用90份拟南芥材料进行关联图谱分析。利用分布在全基因组的140个单核苷酸多态性（SNP），通过Q + K方法在单倍体背景下进行关联图谱分析，该方法通过将结构化关联的Q矩阵（Q）与亲缘关系（K）相结合来控制群体结构，从而最大限度地减少假关联的检测。分别在SNP与镉、铜和H₂O₂抗性RRL之间检测到6个、5个和5个显著的（-log(10)P值≥1.3）连锁关系。此外，还鉴定出与镉和铜转运能力相关的6个显著连锁关系。在检测到的这些位点中，铜和镉耐受性RRL各有两个位点与H₂O₂耐受性RRL的位点位于同一位置，而铜和镉耐受性RRL各有一个位点与其转运率位于同一位置。这些结果表明，这些因素可能部分解释了拟南芥对镉和铜耐受性RRL的表型变异。最后，使用一种不同的方法来分析个体表型之间的相互作用，即聚类分析，我们发现在具有多种性状的典型材料组中，多个RRL的抗性单核苷酸多态性（SNP）出现了预期的分离。几乎没有一个通过关联图谱分析检测到的位点与先前鉴定的调控这些性状的关键基因位点相连，这表明这可能有助于识别决定多个材料间变异的遗传因素的复杂结构。
