2-AIN-505, 2-AIN-251: Seminár z bioinformatiky (1) a (3)
Zima 2019

Zhenchang Liang, Shengchang Duan, Jun Sheng, Shusheng Zhu, Xuemei Ni, Jianhui Shao, Chonghuai Liu, Peter Nick, Fei Du, Peige Fan, Ruzhi Mao, Yifan Zhu, Weiping Deng, Min Yang, Huichuan Huang, Yixiang Liu, Yiqing Ding, Xianju Liu, Jianfu Jiang, Youyong Zhu, Shaohua Li, Xiahong He, Wei Chen, Yang Dong. Whole-genome resequencing of 472 Vitis accessions for grapevine diversity and demographic history analyses. Nat Commun, 10(1):1190. 2019.

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Understanding the Vitis species at the genomic level is important for cultivar
improvement of grapevine. Here we report whole-genome genetic variation at
single-base resolution of 472 Vitis accessions, which cover 48 out of 60 extant
Vitis species from a wide geographic distribution. The variation helps to
identify a recent dramatic expansion and contraction of effective population size
in the domesticated grapevines and that cultivars from the pan-Black Sea region
have a unique demographic history in comparison to the other domesticated
cultivars. We also find selective sweeps for berry edibility and stress
resistance improvement. Furthermore, we find associations between candidate genes
and important agronomic traits, such as berry shape and aromatic compounds. These
results demonstrate resource value of the resequencing data for illuminating the 
evolutionary biology of Vitis species and providing targets for grapevine genetic