RT Journal Article
SR Electronic
T1 Genomic analyses provide insights into peach local adaptation and responses to climate change
JF bioRxiv
FD Cold Spring Harbor Laboratory
SP 2020.01.15.907709
DO 10.1101/2020.01.15.907709
A1 Yong Li
A1 Ke Cao
A1 Nan Li
A1 Gengrui Zhu
A1 Weichao Fang
A1 Changwen Chen
A1 Xinwei Wang
A1 Xiuli Zeng
A1 Jian Guo
A1 Shanshan Zhang
A1 Qi Wang
A1 Tiyu Ding
A1 Jiao Wang
A1 Liping Guan
A1 Junxiu Wang
A1 Kuozhan Liu
A1 Wenwu Guo
A1 Pere Arús
A1 Sanwen Huang
A1 Zhangjun Fei
A1 Lirong Wang
YR 2020
UL http://biorxiv.org/content/early/2020/01/15/2020.01.15.907709.abstract
AB The environment has constantly shaped plant genomes, but the genetic bases underlying how plants adapt to environmental influences remain largely unknown. We constructed a high-density genomic variation map by re-sequencing genomes of 263 geographically representative peach landraces and wild relatives. A combination of whole-genome selection scans and genome-wide environmental association studies (GWEAS) was performed to reveal the genomic bases of peach local adaptation to diverse climates comprehensively. A total of 2,092 selective sweeps that underlie local adaptation to both mild and extreme climates were identified, including 339 sweeps conferring genomic pattern of adaptation to high altitudes. Using GWEAS, a total of 3,496 genomic loci strongly associated with 51 specific environmental variables were detected. The molecular mechanism underlying adaptive evolution of high drought, strong UV-B, cold hardiness, sugar content, flesh color, and bloom date were revealed. Finally, based on 30 years of observation, a candidate gene associated with bloom date advance, representing peach responses to global warming, was identified. Collectively, our study provides insights into molecular bases of how environments have shaped peach genomes by natural selection and adds valuable genome resources and candidate genes for future studies on evolutionary genetics, adaptation to climate changes, and future breeding.