An integrated physical and genetic map of the rice genome

Mingsheng Chen, Gernot Presting, W. Brad Barbazuk, Jose Luis Goicoechea, Barbara Blackmon, Guangchen Fang, Hyeran Kim, David Frisch, Yeisoo Yu, Shouhong Sun, Stephanie Higingbottom, John Phimphilai, Dao Phimphilai, Scheen Thurmond, Brian Gaudette, Ping Li, Jingdong Liu, Jamie Hatfield, Dorrie Main, Kasey FarrarCaroline Henderson, Laura Barnett, Ravi Costa, Brian Williams, Suzanne Walser, Michael Atkins, Caroline Hall, Muhammad A. Budiman, Jeffery P. Tomkins, Meizhong Luo, Ian Bancroft, Jerome Salse, Farid Regad, Trilochan Mohapatra, Nagendra K. Singh, Akhilesh K. Tyagi, Carol Soderlund, Ralph A. Dean, Rod A Wing

Research output: Contribution to journalArticle

309 Scopus citations

Abstract

Rice was chosen as a model organism for genome sequencing because of its economic importance, small genome size, and syntenic relationship with other cereal species. We have constructed a bacterial artificial chromosome fingerprint-based physical map of the rice genome to facilitate the whole-genome sequencing of rice. Most of the rice genome (∼90.6%) was anchored genetically by overgo hybridization, DNA gel blot hybridization, and in silico anchoring. Genome sequencing data also were integrated into the rice physical map. Comparison of the genetic and physical maps reveals that recombination is suppressed severely in centromeric regions as well as on the short arms of chromosomes 4 and 10. This integrated high-resolution physical map of the rice genome will greatly facilitate whole-genome sequencing by helping to identify a minimum tiling path of clones to sequence. Furthermore, the physical map will aid map-based cloning of agronomically important genes and will provide an important tool for the comparative analysis of grass genomes.

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ASJC Scopus subject areas

  • Plant Science
  • Biochemistry, Genetics and Molecular Biology(all)
  • Biochemistry
  • Cell Biology

Cite this

Chen, M., Presting, G., Barbazuk, W. B., Goicoechea, J. L., Blackmon, B., Fang, G., ... Wing, R. A. (2002). An integrated physical and genetic map of the rice genome. Plant Cell, 14(3), 537-545. https://doi.org/10.1105/tpc.010485