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A fine physical map of the rice chromosome 4. 2002
Qiang Zhao, and
Yu Zhang, and
Zhukuan Cheng, and
Mingsheng Chen, and
Shengyue Wang, and
Qi Feng, and
Yucheng Huang, and
Ying Li, and
Yesheng Tang, and
Bo Zhou, and
Zhehua Chen, and
Shuliang Yu, and
Jingjie Zhu, and
Xin Hu, and
Jie Mu, and
Kai Ying, and
Pei Hao, and
Lei Zhang, and
Yiqi Lu, and
Lei S Zhang, and
Yilei Liu, and
Zhen Yu, and
Danlin Fan, and
Qijun Weng, and
Ling Chen, and
Tingting Lu, and
Xiaohui Liu, and
Peixin Jia, and
Tongguo Sun, and
Yongrui Wu, and
Yujun Zhang, and
Ying Lu, and
Can Li, and
Rong Wang, and
Haiyan Lei, and
Tao Li, and
Hao Hu, and
Mei Wu, and
Runquan Zhang, and
Jianping Guan, and
Jia Zhu, and
Gang Fu, and
Minghong Gu, and
Guofan Hong, and
Yongbiao Xue, and
Rod Wing, and
Jiming Jiang, and
Bin Han
National Center for Gene Research, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Shanghai 200233, China.
As part of an international effort to completely sequence the rice genome, we have produced a fine bacterial artificial chromosome (BAC)-based physical map of the Oryza sativa japonica Nipponbare chromosome 4 through an integration of 114 sequenced BAC clones from a taxonomically related subspecies O. sativa indica Guangluai 4 and 182 RFLP and 407 expressed sequence tag (EST) markers with the fingerprinted data of the Nipponbare genome. The map consists of 11 contigs with a total length of 34.5 Mb covering 94% of the estimated chromosome size (36.8 Mb). BAC clones corresponding to telomeres, as well as to the centromere position, were determined by BAC-pachytene chromosome fluorescence in situ hybridization (FISH). This gave rise to an estimated length ratio of 5.13 for the long arm and 2.9 for the short arm (on the basis of the physical map), which indicates that the short arm is a highly condensed one. The FISH analysis and physical mapping also showed that the short arm and the pericentromeric region of the long arm are rich in heterochromatin, which occupied 45% of the chromosome, indicating that this chromosome is likely very difficult to sequence. To our knowledge, this map provides the first example of a rapid and reliable physical mapping on the basis of the integration of the data from two taxonomically related subspecies.
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