Engineering Research Center of South Upland Agriculture, Ministry of Education, Southwest University, Chongqing, 400716, China.
State Key Laboratory of Cotton Biology/Cotton Research Institute, Chinese Academy of Agricultural Sciences, Anyang, 455000, China.
Sci Rep. 2017 Aug 9;7(1):7640. doi: 10.1038/s41598-017-08006-w.
A high-resolution genetic map is a useful tool for assaying genomic structural variation and clarifying the evolution of polyploid cotton. A total of 36956 SSRs, including 11289 released in previous studies and 25567 which were newly developed based on the genome sequences of G. arboreum and G. raimondii, were utilized to construct a new genetic map. The new high-density genetic map includes 6009 loci and spanned 3863.97 cM with an average distance of 0.64 cM between consecutive markers. Four inversions (one between Chr08 and Chr24, one between Chr09 and Chr23 and two between Chr10 and Chr20) were identified by homology analysis. Comparative genomic analysis between genetic map and two diploid cottons showed that structural variations between the A genome and At subgenome are more extensive than between D genome and Dt subgenome. A total of 17 inversions, seven simple translocations and two reciprocal translocations were identified between genetic map and G. raimondii. Good colinearity was revealed between the corresponding chromosomes of tetraploid G. hirsutum and G. barbadense genomes, but a total of 16 inversions were detected between them. These results will accelerate the process of evolution analysis of Gossipium genus.
高分辨率遗传图谱是分析基因组结构变异和阐明同源多倍体棉进化的有用工具。本研究共利用了 36956 个 SSR 标记，其中 11289 个标记来自先前的研究，25567 个标记是根据亚洲棉和雷蒙德氏棉基因组序列新开发的。利用这些 SSR 标记构建了一个新的遗传图谱，该图谱包含 6009 个标记，覆盖 3863.97cM，相邻标记之间的平均距离为 0.64cM。通过同源性分析，鉴定出 4 个倒位（1 个位于 Chr08 和 Chr24 之间，1 个位于 Chr09 和 Chr23 之间，2 个位于 Chr10 和 Chr20 之间）。遗传图谱与两个二倍体棉的比较基因组分析表明，A 基因组和 At 亚基因组之间的结构变异比 D 基因组和 Dt 亚基因组之间的结构变异更为广泛。在遗传图谱和雷蒙德氏棉之间共鉴定出 17 个倒位、7 个简单易位和 2 个相互易位。四倍体陆地棉和海岛棉基因组相应染色体之间表现出良好的共线性，但它们之间共检测到 16 个倒位。这些结果将加速棉属进化分析的进程。
