A physical map of the short arm of wheat chromosome 1A
2013
Breen, James | Wicker, Thomas | Shatalina, Margarita | Frenkel, Zeev | Bertin, Isabelle, I. | Philippe, Romain | Spielmeyer, Wolfgang | Cattonaro, Federica | Scalabrin, Simone | Magni, Federica | Vautrin, Sonia, S. | Berges, Helene, H. | Paux, Etienne | Fahima, Tzion | Dolezel, Jaroslav | Korol, Abraham | Feuillet, Catherine, C. | Keller, Beat | Institute of Plant Biology [UZH, Zürich] ; Universität Zürich [Zürich] = University of Zurich (UZH) | Institute of Evolution ; Ǧāmiʿat͏̈ Hayfā = University of Haifa | Génétique Diversité et Ecophysiologie des Céréales (GDEC) ; Institut National de la Recherche Agronomique (INRA)-Université Blaise Pascal - Clermont-Ferrand 2 (UBP) | Commonwealth Scientific and Industrial Research Organisation [Australia] (CSIRO) | Istituto di Genomica Applicata (IGA) | Centre National de Ressources Génomiques Végétales (CNRGV) ; Institut National de la Recherche Agronomique (INRA) | Institute of Experimental Botany of the Czech Academy of Sciences (IEB / CAS) ; Czech Academy of Sciences [Prague] (CAS) | University of Zurich; European Community [FP7-212019]
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Afficher plus [+] Moins [-]anglais. Bread wheat (Triticum aestivum) has a large and highly repetitive genome which poses major technical challenges for its study. To aid map-based cloning and future genome sequencing projects, we constructed a BAC-based physical map of the short arm of wheat chromosome 1A (1AS). From the assembly of 25,918 high information content (HICF) fingerprints from a 1AS-specific BAC library, 715 physical contigs were produced that cover almost 99% of the estimated size of the chromosome arm. The 3,414 BAC clones constituting the minimum tiling path were end-sequenced. Using a gene microarray containing similar to 40 K NCBI UniGene EST clusters, PCR marker screening and BAC end sequences, we arranged 160 physical contigs (97 Mb or 35.3% of the chromosome arm) in a virtual order based on synteny with Brachypodium, rice and sorghum. BAC end sequences and information from microarray hybridisation was used to anchor 3.8 Mbp of Illumina sequences from flow-sorted chromosome 1AS to BAC contigs. Comparison of genetic and synteny-based physical maps indicated that similar to 50% of all genetic recombination is confined to 14% of the physical length of the chromosome arm in the distal region. The 1AS physical map provides a framework for future genetic mapping projects as well as the basis for complete sequencing of chromosome arm 1AS.
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