ARS | Publication request: GROUP 3 CHROMOSOME BIN MAPS OF WHEAT AND THEIR RELATIONSHIP TO RICE CHROMOSOME 1

Submitted to: Genetics
Publication Type: Peer Reviewed Journal
Publication Acceptance Date: June 1, 2004
Publication Date: October 1, 2004
Citation: Munkvold, J.D., Greene, R.A., Bermudez-Kandianis, C.E., La Rota, C.M., Edwards, H., Sorrells, S.F., Dake, T., Benscher, D., Kantety, R., Linkiewicz, A.M., Dubcovsky, J., Akhunov, E.D., Dvorak, J., Miftahudin, Gustafson, J.P., Pathan, M.S., Nguyen, H.T., Matthews, D.E., Chao, S., Lazo, G.R., Hummel, D., Anderson, O.D., Anderson, J.A., Gonzalez-Hernandez, J.L., Peng, J., Lapitan, N.V., Qi, L.L., Echalier, B., Gill, B.S., Hossain, K.S., Kalavacharla, V., Kianian, S.F., Sandhu, D., Eryman, M., Gill, K.S., Mcguire, P.E., Qualset, C.O., Sorrells, M.E. 2004. Group 3 chromosome bin maps of wheat and their relationship to rice chromosome 1. Genetics. 168:639-650.

Interpretive Summary: Expressed DNA sequences were taken from 47 cDNA libraries and were physically mapped to specific chromosome regions of wheat homoeologous group 3 chromosomes. We found that the expressed sequences were not scattered from one end to the other of the group 3 chromosomes, but seemed to be clustered in more distal regions of the chromosomes. From our physical map, we were also able to establish the location of group 3 chromosome re-arrangements. This information will be of value to wheat geneticists in map-based cloning of expressed sequences located on wheat homoeologous group 3 chromosomes.

Technical Abstract: There are many genes controlling traits of agronomic importance on the group 3 chromosomes of hexaploid wheat (Triticum aestivum L.). The focus of this study was to analyze the content, distribution, and comparative genome relationships of 996 bin-mapped expressed sequence tags (ESTs) accounting for 2266 restriction fragments (loci). 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 found to be more localized on the higher-resolution group 3 consensus map with intermediate regions of high mapped EST density on both chromosome arms. Gene ontology classification of mapped ESTs was not significantly different for group 3 chromosomes compared to the other groups. A combined analysis of the individual bin maps using 528 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 (E<10^-01) and revealed large- and small-scale differences in gene order. Of the group 3 mapped-EST unigenes approximately 21% matched the Arabidopsis coding regions and 32% matched Arabidopsis proteins, respectively, but no chromosome-level, gene-order conservation was detected.