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Sequence and analysis of rice chromosome 4

Author

Listed:
  • Qi Feng

    (Chinese Academy of Sciences)

  • Yujun Zhang

    (Chinese Academy of Sciences)

  • Pei Hao

    (Chinese Academy of Sciences)

  • Shengyue Wang

    (Chinese National Human Genome Center at Shanghai)

  • Gang Fu

    (Chinese National Human Genome Center at Shanghai)

  • Yucheng Huang

    (Chinese Academy of Sciences)

  • Ying Li

    (Chinese Academy of Sciences)

  • Jingjie Zhu

    (Chinese Academy of Sciences)

  • Yilei Liu

    (Chinese Academy of Sciences)

  • Xin Hu

    (Chinese Academy of Sciences)

  • Peixin Jia

    (Chinese Academy of Sciences)

  • Yu Zhang

    (Chinese Academy of Sciences)

  • Qiang Zhao

    (Chinese Academy of Sciences)

  • Kai Ying

    (Chinese Academy of Sciences)

  • Shuliang Yu

    (Chinese Academy of Sciences)

  • Yesheng Tang

    (Chinese Academy of Sciences)

  • Qijun Weng

    (Chinese Academy of Sciences)

  • Lei Zhang

    (Chinese Academy of Sciences)

  • Ying Lu

    (Chinese Academy of Sciences)

  • Jie Mu

    (Chinese Academy of Sciences)

  • Yiqi Lu

    (Chinese Academy of Sciences)

  • Lei S. Zhang

    (Chinese Academy of Sciences)

  • Zhen Yu

    (Chinese Academy of Sciences)

  • Danlin Fan

    (Chinese Academy of Sciences)

  • Xiaohui Liu

    (Chinese Academy of Sciences)

  • Tingting Lu

    (Chinese Academy of Sciences)

  • Can Li

    (Chinese Academy of Sciences)

  • Yongrui Wu

    (Chinese Academy of Sciences)

  • Tongguo Sun

    (Chinese Academy of Sciences)

  • Haiyan Lei

    (Chinese Academy of Sciences)

  • Tao Li

    (Chinese Academy of Sciences)

  • Hao Hu

    (Chinese Academy of Sciences)

  • Jianping Guan

    (Chinese Academy of Sciences)

  • Mei Wu

    (Chinese Academy of Sciences)

  • Runquan Zhang

    (Chinese Academy of Sciences)

  • Bo Zhou

    (Chinese Academy of Sciences)

  • Zehua Chen

    (Chinese Academy of Sciences)

  • Ling Chen

    (Chinese Academy of Sciences)

  • Zhaoqing Jin

    (Chinese Academy of Sciences)

  • Rong Wang

    (Chinese Academy of Sciences)

  • Haifeng Yin

    (Chinese National Human Genome Center at Shanghai)

  • Zhen Cai

    (Chinese National Human Genome Center at Shanghai)

  • Shuangxi Ren

    (Chinese National Human Genome Center at Shanghai)

  • Gang Lv

    (Chinese National Human Genome Center at Shanghai)

  • Wenyi Gu

    (Chinese National Human Genome Center at Shanghai)

  • Genfeng Zhu

    (Chinese National Human Genome Center at Shanghai)

  • Yuefeng Tu

    (Chinese National Human Genome Center at Shanghai)

  • Jia Jia

    (Chinese National Human Genome Center at Shanghai)

  • Yi Zhang

    (Chinese National Human Genome Center at Shanghai)

  • Jie Chen

    (Chinese National Human Genome Center at Shanghai)

  • Hui Kang

    (Chinese National Human Genome Center at Shanghai)

  • Xiaoyun Chen

    (Chinese National Human Genome Center at Shanghai)

  • Chunyan Shao

    (Chinese National Human Genome Center at Shanghai)

  • Yun Sun

    (Chinese National Human Genome Center at Shanghai)

  • Qiuping Hu

    (Chinese National Human Genome Center at Shanghai)

  • Xianglin Zhang

    (Chinese National Human Genome Center at Shanghai)

  • Wei Zhang

    (Chinese National Human Genome Center at Shanghai)

  • Lijun Wang

    (Chinese National Human Genome Center at Shanghai)

  • Chunwei Ding

    (Chinese National Human Genome Center at Shanghai)

  • Haihui Sheng

    (Chinese National Human Genome Center at Shanghai)

  • Jingli Gu

    (Chinese National Human Genome Center at Shanghai)

  • Shuting Chen

    (Chinese National Human Genome Center at Shanghai)

  • Lin Ni

    (Chinese National Human Genome Center at Shanghai)

  • Fenghua Zhu

    (Chinese National Human Genome Center at Shanghai)

  • Wei Chen

    (Chinese Academy of Sciences)

  • Lefu Lan

    (Chinese Academy of Sciences)

  • Ying Lai

    (Chinese Academy of Sciences)

  • Zhukuan Cheng

    (Yangzhou University
    University of Wisconsin)

  • Minghong Gu

    (Yangzhou University)

  • Jiming Jiang

    (University of Wisconsin)

  • Jiayang Li

    (Chinese Academy of Sciences)

  • Guofan Hong

    (Chinese Academy of Sciences)

  • Yongbiao Xue

    (Chinese Academy of Sciences)

  • Bin Han

    (Chinese Academy of Sciences)

Abstract

Rice is the principal food for over half of the population of the world. With its genome size of 430 megabase pairs (Mb), the cultivated rice species Oryza sativa is a model plant for genome research1. Here we report the sequence analysis of chromosome 4 of O. sativa, one of the first two rice chromosomes to be sequenced completely2. The finished sequence spans 34.6 Mb and represents 97.3% of the chromosome. In addition, we report the longest known sequence for a plant centromere, a completely sequenced contig of 1.16 Mb corresponding to the centromeric region of chromosome 4. We predict 4,658 protein coding genes and 70 transfer RNA genes. A total of 1,681 predicted genes match available unique rice expressed sequence tags. Transposable elements have a pronounced bias towards the euchromatic regions, indicating a close correlation of their distributions to genes along the chromosome. Comparative genome analysis between cultivated rice subspecies shows that there is an overall syntenic relationship between the chromosomes and divergence at the level of single-nucleotide polymorphisms and insertions and deletions. By contrast, there is little conservation in gene order between rice and Arabidopsis.

Suggested Citation

  • Qi Feng & Yujun Zhang & Pei Hao & Shengyue Wang & Gang Fu & Yucheng Huang & Ying Li & Jingjie Zhu & Yilei Liu & Xin Hu & Peixin Jia & Yu Zhang & Qiang Zhao & Kai Ying & Shuliang Yu & Yesheng Tang & Qi, 2002. "Sequence and analysis of rice chromosome 4," Nature, Nature, vol. 420(6913), pages 316-320, November.
    • Handle: RePEc:nat:nature:v:420:y:2002:i:6913:d:10.1038_nature01183
    DOI: 10.1038/nature01183
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