趋同进化是进化遗传学的中心主题之一，从基因组水平证实趋同进化及解析其机制是进化生物学领域的热点和难点。在前期已获得多种红树代表植物的全基因组序列和已开发基因组保守位点趋同分析方法的良好基础上，本项目拟采用第三和第二代测序技术获取更多红树植物及近缘种全基因组、重测序群体基因组和转录组，通过多组学比较分析和功能鉴定，并结合数学建模和计算机模拟，进一步深入研究红树多物种趋同适应性进化的基因组机制。解析红树多个物种基因组在氨基酸替代、组成、新基因产生、全基因组重复、基因组大小及转座子活性等方面的变异模式和适应性机制上可能的趋同；探究红树植物胎萌、耐盐、单宁等重要性状在基因组水平的趋同模式和分子基础；从群体基因组水平诠释全球变化下红树多物种群体演化可能的趋同适应策略。本研究将提供植物趋同进化基因组模式的实例，评估红树面对海平面上升等全球变化的适应潜力，为生物多样性的有效保护提供有价值的理论指导。

Convergent evolution is a key topic in evolutionary genetics. Probing the molecular mechanism of convergent adaptation on the genomic level is a hot and difficult issue. We are already a main player in this field that we obtained genome sequence of several mangrove plants and developed a genome analysis method of convergence at conserved sites (CCS). In this project, we plan to sequence genomes of more mangrove species and their closely-related species, resequenced genomes of population samples as well as transcriptomes through the third and second-generation sequencing technologies. Comprehensive analyses of comparative genomics and functional identification, combing with mathematical modeling and computer simulation would be conducted to elucidate the genomic patterns and mechanisms of convergent adaptation among mangrove taxa. Efforts will be paid to unravel: (1) the possible convergence on the variations and adaptations in these aspects including amino acid substitution, amino acid composition, new gene origination, whole genome duplication, genome size and transposon activity; (2) the molecular basis of important traits such as vivipary, salt tolerance and high tannin content and how the mechanisms of a similar trait converge among different species; and (3) the possible convergent response and adaptation strategies of mangroves to global changes. This study would provide important cases of convergent adaptations which deepen our understandings at the genomic level. It would also offer valuable insights into the conservation of mangroves by evaluating mangrove taxa’s evolution potential and adaptive response to global changes such as sea-level rise.