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The Plant Cell, Vol. 14, 537-545, March 2002, Copyright © 2002,
American Society of Plant Biologists

GENOMICS ARTICLE

An Integrated Physical and Genetic Map of the Rice Genome

Mingsheng Chen1,a, Gernot Presting1,a, W. Brad Barbazuk1,b, Jose Luis Goicoecheaa, Barbara Blackmona, Guangchen Fanga, Hyeran Kima, David Frischa, Yeisoo Yua, Shouhong Suna, Stephanie Higingbottoma, John Phimphilaia, Dao Phimphilaia, Scheen Thurmonda, Brian Gaudettea, Ping Lib, Jingdong Liub, Jamie Hatfielda, Dorrie Maina, Kasey Farrara, Caroline Hendersona, Laura Barnetta, Ravi Costaa, Brian Williamsa, Suzanne Walsera, Michael Atkinsa, Caroline Hallc, Muhammad A. Budimana, Jeffery P. Tomkinsa, Meizhong Luoa, Ian Bancroftc, Jerome Salsed, Farid Regade, Trilochan Mohapatraf, Nagendra K. Singhf, Akhilesh K. Tyagig, Carol Soderlunda, Ralph A. Deana and Rod A. Wing2,a

a Clemson University Genomics Institute, 100 Jordan Hall, Clemson, South Carolina 29634-5727
b Monsanto Company, 800 North Lindbergh Boulevard, St. Louis, Missouri 63167
c John Innes Centre Plant Science Research, Department of Brassica and Oilseeds Research, Norwich Research Park, Norwich NR4 7UH, Norfolk, United Kingdom
d University of Perpignan, Centre National de la Recherche Scientifique Unité Mixte de Recherche 5096, Laboratoire Genome et Development Plantes, F-66860 Perpignan, France
e Cirad, Amis, Biotrop, F-34398 Montpellier, France
f Indian Initiative on Rice Genome Sequencing, National Research Centre Plant Biotechnology, Indian Agricultural Research Institute, New Delhi 110112, India
g Indian Initiative on Rice Genome Sequencing, University of Delhi South Campus, New Delhi 110021, India

2 To whom correspondence should be addressed. E-mail rwing{at}clemson.edu; fax 864-656-4293

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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Mapping and Sequencing the Rice Genome
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Plant Cell 2002 14: 521-523. [Full Text]  



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