Sequence and analysis of rice chromosome 4 |
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Authors: | Feng Qi Zhang Yujun Hao Pei Wang Shengyue Fu Gang Huang Yucheng Li Ying Zhu Jingjie Liu Yilei Hu Xin Jia Peixin Zhang Yu Zhao Qiang Ying Kai Yu Shuliang Tang Yesheng Weng Qijun Zhang Lei Lu Ying Mu Jie Lu Yiqi Zhang Lei S Yu Zhen Fan Danlin Liu Xiaohui Lu Tingting Li Can Wu Yongrui Sun Tongguo Lei Haiyan Li Tao Hu Hao Guan Jianping Wu Mei Zhang Runquan Zhou Bo Chen Zehua Chen Ling Jin Zhaoqing Wang Rong Yin Haifeng Cai Zhen Ren Shuangxi Lv Gang Gu Wenyi Zhu Genfeng Tu Yuefeng Jia Jia Zhang Yi Chen Jie Kang Hui Chen Xiaoyun Shao Chunyan Sun Yun Hu Qiuping Zhang Xianglin Zhang Wei Wang Lijun |
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Affiliation: | National Center for Gene Research, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, 500 Caobao Road, Shanghai 200233, China. |
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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 research. Here we report the sequence analysis of chromosome 4 of O. sativa, one of the first two rice chromosomes to be sequenced completely. 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. |
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