Genetics, Vol. 168, 639-650, October 2004, Copyright © 2004
doi:10.1534/genetics.104.034819

Group 3 Chromosome Bin Maps of Wheat and Their Relationship to Rice Chromosome 1

J. D. Munkvold^*, R. A. Greene^*, C. E. Bermudez-Kandianis^*, C. M. La Rota^*, H. Edwards, S. F. Sorrells^*, T. Dake^*, D. Benscher^*, R. Kantety^*, A. M. Linkiewicz^,1, J. Dubcovsky, E. D. Akhunov, J. Dvoák, Miftahudin, J. P. Gustafson^¶, M. S. Pathan, H. T. Nguyen, D. E. Matthews^*,&, S. Chao^,2, G. R. Lazo^&, D. D. Hummel, O. D. Anderson^&, J. A. Anderson^**, J. L. Gonzalez-Hernandez^**,3, J. H. Peng, N. Lapitan, L. L. Qi, B. Echalier, B. S. Gill, K. G. Hossain, V. Kalavacharla, S. F. Kianian, D. Sandhu^¶¶,4, M. Erayman^¶¶, K. S. Gill^¶¶, P. E. McGuire, C. O. Qualset and M. E. Sorrells^*,5

^* Department of Plant Breeding, Cornell University, Ithaca, New York 14853
Genetic Resources Conservation Program, University of California, Davis, California 95616
Department of Agronomy and Range Science, University of California, Davis, California 95616
Department of Agronomy, University of Missouri, Columbia, Missouri 65211
^¶ USDA-ARS Plant Genetics Research Unit, Department of Agronomy, University of Missouri, Columbia, Missouri 65211
^& USDA-ARS Western Regional Research Center, Albany, California 94710-1105
^** Department of Agronomy and Plant Genetics, University of Minnesota, St Paul, Minnesota 55108
Department of Soil and Crop Sciences, Colorado State University, Fort Collins, Colorado 80523-1170
Department of Plant Pathology, Wheat Genetics Resource Center, Kansas State University, Manhattan, Kansas 66506-5502
Department of Plant Sciences, North Dakota State University, Fargo, North Dakota 58105
^¶¶ Department of Crop and Soil Sciences, Washington State University, Pullman, Washington 99164-6420

⁵ Corresponding author: Department of Plant Breeding, Cornell University, 240 Emerson Hall, Ithaca, NY 14853-1902.
E-mail: mes12{at}cornell.edu

The focus of this study was to analyze the content, distribution, and comparative genome relationships of 996 chromosome bin-mapped expressed sequence tags (ESTs) accounting for 2266 restriction fragments (loci) on the homoeologous group 3 chromosomes of hexaploid wheat (Triticum aestivum L.). Of these loci, 634, 884, and 748 were mapped on chromosomes 3A, 3B, and 3D, respectively. The individual chromosome bin maps revealed bins with a high density of mapped ESTs in the distal region and bins of low density in the proximal region of the chromosome arms, with the exception of 3DS and 3DL. These distributions were more localized on the higher-resolution group 3 consensus map with intermediate regions of high-mapped-EST density on both chromosome arms. Gene ontology (GO) classification of mapped ESTs was not significantly different for homoeologous group 3 chromosomes compared to the other groups. A combined analysis of the individual bin maps using 537 of the mapped ESTs revealed rearrangements between the group 3 chromosomes. Approximately 232 (44%) of the consensus mapped ESTs matched sequences on rice chromosome 1 and revealed large- and small-scale differences in gene order. Of the group 3 mapped EST unigenes 21 and 32% matched the Arabidopsis coding regions and proteins, respectively, but no chromosome-level gene order conservation was detected.

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