Physical mapping of a large plant genome using global high-information-content-fingerprinting: the distal region of the wheat ancestor Aegilops tauschii chromosome 3DS

dc.contributor.authorFleury, D.
dc.contributor.authorLuo, M.
dc.contributor.authorDvorak, J.
dc.contributor.authorRamsay, L.
dc.contributor.authorGill, B.
dc.contributor.authorAnderson, O.
dc.contributor.authorYou, F.
dc.contributor.authorShoaei, Z.
dc.contributor.authorDeal, K.
dc.contributor.authorLangridge, P.
dc.date.issued2010
dc.descriptionExtent: 10p.
dc.description.abstractBackground: Physical maps employing libraries of bacterial artificial chromosome (BAC) clones are essential for comparative genomics and sequencing of large and repetitive genomes such as those of the hexaploid bread wheat. The diploid ancestor of the D-genome of hexaploid wheat (Triticum aestivum), Aegilops tauschii, is used as a resource for wheat genomics. The barley diploid genome also provides a good model for the Triticeae and T. aestivum since it is only slightly larger than the ancestor wheat D genome. Gene co-linearity between the grasses can be exploited by extrapolating from rice and Brachypodium distachyon to Ae. tauschii or barley, and then to wheat. Results: We report the use of Ae. tauschii for the construction of the physical map of a large distal region of chromosome arm 3DS. A physical map of 25.4 Mb was constructed by anchoring BAC clones of Ae. tauschii with 85 EST on the Ae. tauschii and barley genetic maps. The 24 contigs were aligned to the rice and B. distachyon genomic sequences and a high density SNP genetic map of barley. As expected, the mapped region is highly collinear to the orthologous chromosome 1 in rice, chromosome 2 in B. distachyon and chromosome 3H in barley. However, the chromosome scale of the comparative maps presented provides new insights into grass genome organization. The disruptions of the Ae. tauschii-rice and Ae. tauschii-Brachypodium syntenies were identical. We observed chromosomal rearrangements between Ae. tauschii and barley. The comparison of Ae. tauschii physical and genetic maps showed that the recombination rate across the region dropped from 2.19 cM/Mb in the distal region to 0.09 cM/Mb in the proximal region. The size of the gaps between contigs was evaluated by comparing the recombination rate along the map with the local recombination rates calculated on single contigs. Conclusions: The physical map reported here is the first physical map using fingerprinting of a complete Triticeae genome. This study demonstrates that global fingerprinting of the large plant genomes is a viable strategy for generating physical maps. Physical maps allow the description of the co-linearity between wheat and grass genomes and provide a powerful tool for positional cloning of new genes.
dc.description.statementofresponsibilityDelphine Fleury, Ming-Cheng Luo, Jan Dvorak, Luke Ramsay, Bikram S Gill, Olin D Anderson, Frank M You, Zahra Shoaei, Karin R Deal and Peter Langridge
dc.identifier.citationBMC Genomics, 2010; 11(1):1-10
dc.identifier.doi10.1186/1471-2164-11-382
dc.identifier.issn1471-2164
dc.identifier.issn1471-2164
dc.identifier.orcidFleury, D. [0000-0002-7077-4103]
dc.identifier.orcidLangridge, P. [0000-0001-9494-400X]
dc.identifier.urihttp://hdl.handle.net/2440/62207
dc.language.isoen
dc.publisherBioMed Central Ltd.
dc.relation.grantARC
dc.rights© 2010 Fleury et al; licensee BioMed Central Ltd. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.
dc.source.urihttp://www.biomedcentral.com/1471-2164/11/382
dc.subjectChromosomes, Artificial, Bacterial
dc.subjectChromosomes, Plant
dc.subjectPoaceae
dc.subjectHordeum
dc.subjectTriticum
dc.subjectPhysical Chromosome Mapping
dc.subjectDNA Fingerprinting
dc.subjectEvolution, Molecular
dc.subjectSequence Deletion
dc.subjectRecombination, Genetic
dc.subjectSynteny
dc.subjectGenome, Plant
dc.subjectX-Rays
dc.subjectOryza
dc.titlePhysical mapping of a large plant genome using global high-information-content-fingerprinting: the distal region of the wheat ancestor Aegilops tauschii chromosome 3DS
dc.typeJournal article
pubs.publication-statusPublished

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