Cassava genome from a wild ancestor to cultivated varieties

Wenquan Wang, Binxiao Feng, Jingfa Xiao, Zhiqiang Xia, Xincheng Zhou, Pinghua Li, Weixiong Zhang, Ying Wang, Birger Lindberg Møller, Peng Zhang, Ming Cheng Luo, Gong Xiao, Jingxing Liu, Jun Yang, Songbi Chen, Pablo D. Rabinowicz, Xin Chen, Hong Bin Zhang, Henan Ceballos, Qunfeng LouMeiling Zou, Luiz J.C.B. Carvalho, Changying Zeng, Jing Xia, Shixiang Sun, Yuhua Fu, Haiyan Wang, Cheng Lu, Mengbin Ruan, Shuigeng Zhou, Zhicheng Wu, Hui Liu, Rubini Maya Kannangara, Kirsten Jørgensen, Rebecca Louise Neale, Maya Bonde, Nanna Heinz, Wenli Zhu, Shujuan Wang, Yang Zhang, Kun Pan, Mingfu Wen, Ping An Ma, Zhengxu Li, Meizhen Hu, Wenbin Liao, Wenbin Hu, Shengkui Zhang, Jinli Pei, Anping Guo, Jianchun Guo, Jiaming Zhang, Zhengwen Zhang, Jianqiu Ye, Wenjun Ou, Yaqin Ma, Xinyue Liu, Luke J. Tallon, Kevin Galens, Sandra Ott, Jie Huang, Jingjing Xue, Feifei An, Qingqun Yao, Xiaojing Lu, Martin Fregene, L. Augusto Becerra López-Lavalle, Jiajie Wu, Frank M. You, Meili Chen, Songnian Hu, Guojiang Wu, Silin Zhong, Peng Ling, Yeyuan Chen, Qinghuang Wang, Guodao Liu, Bin Liu, Kaimian Li, Ming Peng

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198 Scopus citations

Abstract

Cassava is a major tropical food crop in the Euphorbiaceae family that has high carbohydrate production potential and adaptability to diverse environments. Here we present the draft genome sequences of a wild ancestor and a domesticated variety of cassava and comparative analyses with a partial inbred line. We identify 1,584 and 1,678 gene models specific to the wild and domesticated varieties, respectively, and discover high heterozygosity and millions of single-nucleotide variations. Our analyses reveal that genes involved in photosynthesis, starch accumulation and abiotic stresses have been positively selected, whereas those involved in cell wall biosynthesis and secondary metabolism, including cyanogenic glucoside formation, have been negatively selected in the cultivated varieties, reflecting the result of natural selection and domestication. Differences in microRNA genes and retrotransposon regulation could partly explain an increased carbon flux towards starch accumulation and reduced cyanogenic glucoside accumulation in domesticated cassava. These results may contribute to genetic improvement of cassava through better understanding of its biology.

Original languageEnglish
Article number5110
JournalNature communications
Volume5
DOIs
StatePublished - Oct 10 2014

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