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United States Department of Agriculture

Agricultural Research Service

Title: A CHROMOSOME BIN MAP OF 16,000 EST LOCI AND DISTRIBUTION OF GENES AMONG THE THREE GENOMES OF POLYPLOID WHEAT)

Author
item Qi, L
item Echalier, B
item Chao, Shiaoman
item Lazo, Gerard
item Anderson, Olin
item Akhunov, E
item Dvorak, J
item Linkiewicz, A
item Ratnasiri, A
item Dubcovsky, J
item Bermudez-kandianis, C
item Greene, R
item Kantety, R
item La rota, M
item Munkvold, J
item Sorrells, S
item Sorrells, M
item Dilbirligi, M
item Sidhu, D
item Eryman, M
item Randhawa, H
item Sandhu, D
item Bondareva, Svetlana
item Gill, K
item Mahmoud, A
item Ma, Xeufeng
item Miftahudin,
item Gustafson, J
item Wennerlind, E
item Nduati, V
item Gonzalez-hernandez, J
item Anderson, J
item Peng, J
item Lapitan, N l
item Hossain, K
item Kalavacharla, V
item Kianian, S
item Pathan, M
item Zhang, D
item Nguyen, H
item Choi, D
item Close, T
item Mcguire, P
item Qualset, C
item Gill, B

Submitted to: Genetics
Publication Type: Peer reviewed journal
Publication Acceptance Date: 6/1/2004
Publication Date: 10/1/2004
Citation: Qi, L.L., Echalier, B., Chao, S., Lazo, G.R., Anderson, O.D., Akhunov, E.D., Dvorak, J., Linkiewicz, A.M., Ratnasiri, A., Dubcovsky, J., Bermudez-Kandianis, C.E., Greene, R.A., Kantety, R., La Rota, M., Munkvold, J.D., Sorrells, S.F., Sorrells, M.E., Dilbirligi, M., Sidhu, D., Eryman, M., Randhawa, H.S., Sandhu, D., Bondareva, S., Gill, K.S., Mahmoud, A., Ma, X., Miftahudin, Gustafson, J.P., Wennerlind, E.J., Nduati, V., Gonzalez-Hernandez, J.L., Anderson, J.A., Peng, J., Lapitan, N.V., Hossain, K.S., Kalavacharla, V., Kianian, S.F., Pathan, M.S., Zhang, D., Nguyen, H.T., Choi, D.W., Close, T.J., Mcguire, P.E., Qualset, C.O., Gill, B.S. 2004. A chromosome bin map of 16,000 est loci and distribution of genes among the three genomes of polyploid wheat. Genetics. 168:701-712.

Interpretive Summary: Because the hexaploid wheat genome is about 17,300 Mb in size, mapping of the expressed portion is the first step in gene discovery. We report on the mapping of 7104 expressed sequence tags (ESTs) into chromosome deletion bin maps. The EST density was higher depending on the particular region of the hexaploid wheat genome. In general, EST density increased relative to the physical distance from the middle of individual wheat chromosomes. It appears that most of the agronomically-important genes are located in these EST-dense regions. The chromosome bin map of ESTs is a unique resource available to wheat researchers for comparative mapping, structural, and functional analysis, and the study of polyploid evolution in wheat.

Technical Abstract: Because of the huge size (17,300 Mb) of the common wheat (Triticum aestivum L., 2n=6x=42, AABBDD) genome, sequencing and mapping of the expressed portion is a logical first step for gene discovery. Here, we report mapping of 7104 expressed sequence tag (EST) unigenes by Southern hybridization into a chromosome bin map using a set of wheat aneuploids. An EST detected an average of 4.8 restriction fragments and 2.8 loci were mapped per EST. More loci were mapped in the B genome (5774) than in the A (5173) or D (5146) genomes. The EST density was significantly higher for the D genome than for the A or B. In general, EST density increased relative to the physical distance from the centromere. The majority of EST-dense regions are in the distal parts of chromosomes. Most of the agronomically-important genes are located in EST-dense regions. The chromosome bin map of ESTs is a unique resource for SNP analysis, comparative mapping, structural and functional analysis, and polyploid evolution, as well as providing a framework for constructing a sequence-ready, BAC-contig map of the wheat genome.

Last Modified: 8/24/2016
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