The sequence and de novo assembly of the giant panda genome

Research output: Journal Publications and Reviews (RGC: 21, 22, 62)21_Publication in refereed journalNot applicablepeer-review

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Author(s)

  • Ruiqiang Li
  • Wei Fan
  • Geng Tian
  • Hongmei Zhu
  • Lin He
  • Jing Cai
  • Quanfei Huang
  • Qingle Cai
  • Bo Li
  • Yinqi Bai
  • Zhihe Zhang
  • Yaping Zhang
  • Wen Wang
  • Fuwen Wei
  • Heng Li
  • Min Jian
  • Jianwen Li
  • Zhaolei Zhang
  • Rasmus Nielsen
  • Dawei Li
  • Wanjun Gu
  • Zhentao Yang
  • Zhaoling Xuan
  • Oliver A. Ryder
  • Frederick Chi-Ching Leung
  • Yan Zhou
  • Jianjun Cao
  • Xiao Sun
  • Yonggui Fu
  • Xiaodong Fang
  • Xiaosen Guo
  • Bo Wang
  • Rong Hou
  • Fujun Shen
  • Bo Mu
  • Peixiang Ni
  • Runmao Lin
  • Wubin Qian
  • Guodong Wang
  • Chang Yu
  • Wenhui Nie
  • Jinhuan Wang
  • Zhigang Wu
  • Huiqing Liang
  • Jiumeng Min
  • Qi Wu
  • Shifeng Cheng
  • Jue Ruan
  • Mingwei Wang
  • Zhongbin Shi
  • Ming Wen
  • Binghang Liu
  • Xiaoli Ren
  • Huisong Zheng
  • Dong Dong
  • Kathleen Cook
  • Gao Shan
  • Hao Zhang
  • Carolin Kosiol
  • Xueying Xie
  • Zuhong Lu
  • Hancheng Zheng
  • Yingrui Li
  • Cynthia C. Steiner
  • Tommy Tsan-Yuk Lam
  • Siyuan Lin
  • Qinghui Zhang
  • Guoqing Li
  • Jing Tian
  • Timing Gong
  • Hongde Liu
  • Dejin Zhang
  • Lin Fang
  • Chen Ye
  • Juanbin Zhang
  • Wenbo Hu
  • Anlong Xu
  • Yuanyuan Ren
  • Guojie Zhang
  • Michael W. Bruford
  • Qibin Li
  • Lijia Ma
  • Yiran Guo
  • Na An
  • Yujie Hu
  • Yang Zheng
  • Yongyong Shi
  • Zhiqiang Li
  • Qing Liu
  • Yanling Chen
  • Jing Zhao
  • Ning Qu
  • Shancen Zhao
  • Feng Tian
  • Xiaoling Wang
  • Haiyin Wang
  • Lizhi Xu
  • Xiao Liu
  • Tomas Vinar
  • Yajun Wang
  • Tak-Wah Lam
  • Siu-Ming Yiu
  • Shiping Liu
  • Hemin Zhang
  • Desheng Li
  • Yan Huang
  • Xia Wang
  • Guohua Yang
  • Zhi Jiang
  • Junyi Wang
  • Nan Qin
  • Li Li
  • Jingxiang Li
  • Lars Bolund
  • Karsten Kristiansen
  • Gane Ka-Shu Wong
  • Maynard Olson
  • Xiuqing Zhang
  • Songgang Li
  • Huanming Yang
  • Jian Wang
  • Jun Wang

Detail(s)

Original languageEnglish
Pages (from-to)311-317
Journal / PublicationNature
Volume463
Issue number7279
Early online date13 Dec 2009
Publication statusPublished - 21 Jan 2010
Externally publishedYes

Abstract

Using next-generation sequencing technology alone, we have successfully generated and assembled a draft sequence of the giant panda genome. The assembled contigs (2.25 gigabases (Gb)) cover approximately 94% of the whole genome, and the remaining gaps (0.05 Gb) seem to contain carnivore-specific repeats and tandem repeats. Comparisons with the dog and human showed that the panda genome has a lower divergence rate. The assessment of panda genes potentially underlying some of its unique traits indicated that its bamboo diet might be more dependent on its gut microbiome than its own genetic composition. We also identified more than 2.7 million heterozygous single nucleotide polymorphisms in the diploid genome. Our data and analyses provide a foundation for promoting mammalian genetic research, and demonstrate the feasibility for using next-generation sequencing technologies for accurate, cost-effective and rapid de novo assembly of large eukaryotic genomes.

Citation Format(s)

The sequence and de novo assembly of the giant panda genome. / Li, Ruiqiang; Fan, Wei; Tian, Geng; Zhu, Hongmei; He, Lin; Cai, Jing; Huang, Quanfei; Cai, Qingle; Li, Bo; Bai, Yinqi; Zhang, Zhihe; Zhang, Yaping; Wang, Wen; Li, Jun; Wei, Fuwen; Li, Heng; Jian, Min; Li, Jianwen; Zhang, Zhaolei; Nielsen, Rasmus; Li, Dawei; Gu, Wanjun; Yang, Zhentao; Xuan, Zhaoling; Ryder, Oliver A.; Leung, Frederick Chi-Ching; Zhou, Yan; Cao, Jianjun; Sun, Xiao; Fu, Yonggui; Fang, Xiaodong; Guo, Xiaosen; Wang, Bo; Hou, Rong; Shen, Fujun; Mu, Bo; Ni, Peixiang; Lin, Runmao; Qian, Wubin; Wang, Guodong; Yu, Chang; Nie, Wenhui; Wang, Jinhuan; Wu, Zhigang; Liang, Huiqing; Min, Jiumeng; Wu, Qi; Cheng, Shifeng; Ruan, Jue; Wang, Mingwei; Shi, Zhongbin; Wen, Ming; Liu, Binghang; Ren, Xiaoli; Zheng, Huisong; Dong, Dong; Cook, Kathleen; Shan, Gao; Zhang, Hao; Kosiol, Carolin; Xie, Xueying; Lu, Zuhong; Zheng, Hancheng; Li, Yingrui; Steiner, Cynthia C.; Lam, Tommy Tsan-Yuk; Lin, Siyuan; Zhang, Qinghui; Li, Guoqing; Tian, Jing; Gong, Timing; Liu, Hongde; Zhang, Dejin; Fang, Lin; Ye, Chen; Zhang, Juanbin; Hu, Wenbo; Xu, Anlong; Ren, Yuanyuan; Zhang, Guojie; Bruford, Michael W.; Li, Qibin; Ma, Lijia; Guo, Yiran; An, Na; Hu, Yujie; Zheng, Yang; Shi, Yongyong; Li, Zhiqiang; Liu, Qing; Chen, Yanling; Zhao, Jing; Qu, Ning; Zhao, Shancen; Tian, Feng; Wang, Xiaoling; Wang, Haiyin; Xu, Lizhi; Liu, Xiao; Vinar, Tomas; Wang, Yajun; Lam, Tak-Wah; Yiu, Siu-Ming; Liu, Shiping; Zhang, Hemin; Li, Desheng; Huang, Yan; Wang, Xia; Yang, Guohua; Jiang, Zhi; Wang, Junyi; Qin, Nan; Li, Li; Li, Jingxiang; Bolund, Lars; Kristiansen, Karsten; Wong, Gane Ka-Shu; Olson, Maynard; Zhang, Xiuqing; Li, Songgang; Yang, Huanming; Wang, Jian; Wang, Jun.

In: Nature, Vol. 463, No. 7279, 21.01.2010, p. 311-317.

Research output: Journal Publications and Reviews (RGC: 21, 22, 62)21_Publication in refereed journalNot applicablepeer-review