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Characterizing the composition and evolution of homoeologous genomes in hexaploid wheat through BAC-end sequencing on chromosome 3B.
Plant J. 2006 Nov; 48(3):463-74.PJ

Abstract

Bread wheat (Triticum aestivum) is one of the most important crops worldwide. However, because of its large, hexaploid, highly repetitive genome it is a challenge to develop efficient means for molecular analysis and genetic improvement in wheat. To better understand the composition and molecular evolution of the hexaploid wheat homoeologous genomes and to evaluate the potential of BAC-end sequences (BES) for marker development, we have followed a chromosome-specific strategy and generated 11 Mb of random BES from chromosome 3B, the largest chromosome of bread wheat. The sequence consisted of about 86% of repetitive elements, 1.2% of coding regions, and 13% remained unknown. With 1.2% of the sequence length corresponding to coding sequences, 6000 genes were estimated for chromosome 3B. New repetitive sequences were identified, including a Triticineae-specific tandem repeat (Fat) that represents 0.6% of the B-genome and has been differentially amplified in the homoeologous genomes before polyploidization. About 10% of the BES contained junctions between nested transposable elements that were used to develop chromosome-specific markers for physical and genetic mapping. Finally, sequence comparison with 2.9 Mb of random sequences from the D-genome of Aegilops tauschii suggested that the larger size of the B-genome is due to a higher content in repetitive elements. It also indicated which families of transposable elements are mostly responsible for differential expansion of the homoeologous wheat genomes during evolution. Our data demonstrate that BAC-end sequencing from flow-sorted chromosomes is a powerful tool for analysing the structure and evolution of polyploid and highly repetitive genomes.

Authors+Show Affiliations

UMR ASP 1095, INRA, Université Blaise Pascal, 63100 Clermont-Ferrand, France.No affiliation info availableNo affiliation info availableNo affiliation info availableNo affiliation info availableNo affiliation info availableNo affiliation info available

Pub Type(s)

Journal Article
Research Support, Non-U.S. Gov't

Language

eng

PubMed ID

17010109

Citation

Paux, Etienne, et al. "Characterizing the Composition and Evolution of Homoeologous Genomes in Hexaploid Wheat Through BAC-end Sequencing On Chromosome 3B." The Plant Journal : for Cell and Molecular Biology, vol. 48, no. 3, 2006, pp. 463-74.
Paux E, Roger D, Badaeva E, et al. Characterizing the composition and evolution of homoeologous genomes in hexaploid wheat through BAC-end sequencing on chromosome 3B. Plant J. 2006;48(3):463-74.
Paux, E., Roger, D., Badaeva, E., Gay, G., Bernard, M., Sourdille, P., & Feuillet, C. (2006). Characterizing the composition and evolution of homoeologous genomes in hexaploid wheat through BAC-end sequencing on chromosome 3B. The Plant Journal : for Cell and Molecular Biology, 48(3), 463-74.
Paux E, et al. Characterizing the Composition and Evolution of Homoeologous Genomes in Hexaploid Wheat Through BAC-end Sequencing On Chromosome 3B. Plant J. 2006;48(3):463-74. PubMed PMID: 17010109.
* Article titles in AMA citation format should be in sentence-case
TY - JOUR T1 - Characterizing the composition and evolution of homoeologous genomes in hexaploid wheat through BAC-end sequencing on chromosome 3B. AU - Paux,Etienne, AU - Roger,Delphine, AU - Badaeva,Ekatherina, AU - Gay,Georges, AU - Bernard,Michel, AU - Sourdille,Pierre, AU - Feuillet,Catherine, Y1 - 2006/09/29/ PY - 2006/10/3/pubmed PY - 2006/12/13/medline PY - 2006/10/3/entrez SP - 463 EP - 74 JF - The Plant journal : for cell and molecular biology JO - Plant J VL - 48 IS - 3 N2 - Bread wheat (Triticum aestivum) is one of the most important crops worldwide. However, because of its large, hexaploid, highly repetitive genome it is a challenge to develop efficient means for molecular analysis and genetic improvement in wheat. To better understand the composition and molecular evolution of the hexaploid wheat homoeologous genomes and to evaluate the potential of BAC-end sequences (BES) for marker development, we have followed a chromosome-specific strategy and generated 11 Mb of random BES from chromosome 3B, the largest chromosome of bread wheat. The sequence consisted of about 86% of repetitive elements, 1.2% of coding regions, and 13% remained unknown. With 1.2% of the sequence length corresponding to coding sequences, 6000 genes were estimated for chromosome 3B. New repetitive sequences were identified, including a Triticineae-specific tandem repeat (Fat) that represents 0.6% of the B-genome and has been differentially amplified in the homoeologous genomes before polyploidization. About 10% of the BES contained junctions between nested transposable elements that were used to develop chromosome-specific markers for physical and genetic mapping. Finally, sequence comparison with 2.9 Mb of random sequences from the D-genome of Aegilops tauschii suggested that the larger size of the B-genome is due to a higher content in repetitive elements. It also indicated which families of transposable elements are mostly responsible for differential expansion of the homoeologous wheat genomes during evolution. Our data demonstrate that BAC-end sequencing from flow-sorted chromosomes is a powerful tool for analysing the structure and evolution of polyploid and highly repetitive genomes. SN - 0960-7412 UR - https://www.unboundmedicine.com/medline/citation/17010109/Characterizing_the_composition_and_evolution_of_homoeologous_genomes_in_hexaploid_wheat_through_BAC_end_sequencing_on_chromosome_3B_ L2 - https://doi.org/10.1111/j.1365-313X.2006.02891.x DB - PRIME DP - Unbound Medicine ER -