亚洲热带木本竹类系统发育基因组学研究

	亚洲热带木本竹类系统发育基因组学研究; Phylogenomic studies of Asian tropical woody bamboos (Poaceae: Bambusoideae)
	刘泾霞
导师	李德铢
摘要	Paleotropical woody bamboos (PWB) is a monophyletic clade of the tribe Bambuseae Kunth ex Dumort (Poaceae: Bambusoideae), which are widely distributed across tropical and subtropical areas of the Asia, Africa and Oceania. There are ca. 53 genera and 534 known species in this clade. As an ecologically and economically important clade of bamboos of East Asia, PWB are rich in species and has been received extensiveextensive attention. As for the limited DNA markers and lack of broad sampling, the phylogenetic relationships among subtribes, most genera and the clades in PWB are still ambiguous. Here, based on the widely sampling, we used plastome, Modified ddRAD-seq (MiddRAD) and Angiosperms-353 target capture seq data to elucidate the phylogenetic relationships of PWB, particularly the generic relationships within Melocanninae and Bambusinae sensu lato. Together with the plastome data, we elucidated the evolutionary and introgression of the Bambusa-Dendrocalamus- Gigantochloa (BDG) complex. Finally, we compared the phylogenetic results from three different sequenced data sets, major conclusions were summarized as follows: 1. PWB phylogeny based on plastome data For plastome data, we newly sequenced and assembled a total of 132 taxa in 118 species from 33 genera of PWB. Phylogenetic analyses of plastomes recovered six well-supported clades, i.e., Melocanninae, Dinochloinae + Greslaniinae clade, Racemobambosinae, Hickeliinae, and Temburongiinae + Bambusinae + Holttumochloinae clade. The position of Temburongiinae, Racemobambosinae and Hickeliinae were not well supported. And the plastome data could not well resolved the deep relationship within the BDG complex. We chose 18 species in 8 genera of Melocanninae to compare the phylogeny results from different regions and elucidate the structural characteristics of the plastome, the results indicated that both the genome size and structure were conserve, but the phylogenetic relationships were different from those resulted from the data of regions IRb and SSC compared with the topology from other regions. The results from sliding windows showed that there were 11 small regions may have undergone a faster nucleotide substitution process in the 18 sampled species, especially the trnG-trnT region. 2. Well-resolved PWB phylogeny with MiddRAD-seq We concentrated on the species of Melocanninae and a broadest defined Bambusinae from Asia, a total of 266 samples in 209 species from 30 genera were sampled. Taking the gene tree, species tree and the Network result together, MiddRAD resolved a well-supported topology in four major clades, including Melocanninae, Hickeliinae, the Dinochloinae-Racemobambosinae-Temburongiinae clade (DRT clade) and the Bambusinae-Holttumochloinae clade were resolved. The genera relationships were also highly resolved in Melocanninae and the broadest defined Bambusinae. MiddRAD data supported Cephalostachyum as the monophyletic genus but neither Schizostachyum nor Neohouzeaua were mon
	2020-11
文献类型	学位论文
条目标识符	http://ir.kib.ac.cn/handle/151853/74241
专题	昆明植物所硕博研究生毕业学位论文
推荐引用方式 GB/T 7714	刘泾霞. 亚洲热带木本竹类系统发育基因组学研究, Phylogenomic studies of Asian tropical woody bamboos (Poaceae: Bambusoideae)[D],2020.

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