Phylogeny and highland adaptation of Chinese species in Allium section Daghestanica (Amaryllidaceae) revealed by transcriptome sequencing.

摘要: Allium L. is one of the largest monocotyledonous genera with extensive distribution in Northern Hemisphere. The fundamental phylogenies have been investigated using many morphological and molecular characters. However, characters may not agree results some groups or sections (such as Chinese section Daghestanica), which result ambiguous species relationships hinder further evolutionary adaptive researches. Here, transcriptome sequences six endemics from Daghestanica were collected, their single-copy genes (SCGs) extracted. interspecies analyzed concatenation coalescent methods. branch-site model (BSM) was conducted to detect positively selected (PSGs) five highland this section. Based on 1644, 1281 1580 SCGs flowers, leaves, flowers-leaves combination respectively, a robust consistent well-resolved phylogeny generated method. Strong conflicts among individual gene trees detected method, incongruent degree. Many PSGs involved responses various stresses stimuli (e.g. hypoxia, low temperature, aridity), DNA repair, metabolism, nutrient energy intake, photosynthesis, signal transduction. Our study revealed clear relationship suggested that discordance between might former are more susceptible convergence compared latter. our provide insights into adaptation species.