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      Integrating cereal genomics to support innovation in the Triticeae

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          Abstract

          The genomic resources of small grain cereals that include some of the most important crop species such as wheat, barley, and rye are attaining a level of completion that now is contributing to new structural and functional studies as well as refining molecular marker development and mapping strategies for increasing the efficiency of breeding processes. The integration of new efforts to obtain reference sequences in bread wheat and barley, in particular, is accelerating the acquisition and interpretation of genome-level analyses in both of these major crops.

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          The Sorghum bicolor genome and the diversification of grasses.

          Sorghum, an African grass related to sugar cane and maize, is grown for food, feed, fibre and fuel. We present an initial analysis of the approximately 730-megabase Sorghum bicolor (L.) Moench genome, placing approximately 98% of genes in their chromosomal context using whole-genome shotgun sequence validated by genetic, physical and syntenic information. Genetic recombination is largely confined to about one-third of the sorghum genome with gene order and density similar to those of rice. Retrotransposon accumulation in recombinationally recalcitrant heterochromatin explains the approximately 75% larger genome size of sorghum compared with rice. Although gene and repetitive DNA distributions have been preserved since palaeopolyploidization approximately 70 million years ago, most duplicated gene sets lost one member before the sorghum-rice divergence. Concerted evolution makes one duplicated chromosomal segment appear to be only a few million years old. About 24% of genes are grass-specific and 7% are sorghum-specific. Recent gene and microRNA duplications may contribute to sorghum's drought tolerance.
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            Genome plasticity a key factor in the success of polyploid wheat under domestication.

            Wheat was domesticated about 10,000 years ago and has since spread worldwide to become one of the major crops. Its adaptability to diverse environments and end uses is surprising given the diversity bottlenecks expected from recent domestication and polyploid speciation events. Wheat compensates for these bottlenecks by capturing part of the genetic diversity of its progenitors and by generating new diversity at a relatively fast pace. Frequent gene deletions and disruptions generated by a fast replacement rate of repetitive sequences are buffered by the polyploid nature of wheat, resulting in subtle dosage effects on which selection can operate.
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              The barley Mlo gene: a novel control element of plant pathogen resistance.

              Mutation-induced recessive alleles (mlo) of the barley Mlo locus confer a leaf lesion phenotype and broad spectrum resistance to the fungal pathogen, Erysiphe graminis f. sp. hordei. The gene has been isolated using a positional cloning approach. Analysis of 11 mutagen-induced mlo alleles revealed mutations leading in each case to alterations of the deduced Mlo wild-type amino acid sequence. Susceptible intragenic recombinants, isolated from mlo heteroallelic crosses, show restored Mlo wild-type sequences. The deduced 60 kDa protein is predicted to be membrane-anchored by at least six membrane-spanning helices. The findings are compatible with a dual negative control function of the Mlo protein in leaf cell death and in the onset of pathogen defense; absence of Mlo primes the responsiveness for the onset of multiple defense functions.
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                Author and article information

                Contributors
                catherine.feuillet@clermont.inra.fr
                Journal
                Funct Integr Genomics
                Funct. Integr. Genomics
                Functional & Integrative Genomics
                Springer-Verlag (Berlin/Heidelberg )
                1438-793X
                1438-7948
                17 November 2012
                17 November 2012
                November 2012
                : 12
                : 4
                : 573-583
                Affiliations
                [1 ]INRA-UBP UMR 1095 Genetics and Diversity of Cereals, Clermont-Ferrand, France
                [2 ]Leibniz Institute of Plant Genetics and Crop Plant Research, Gatersleben, Germany
                [3 ]Dipartimento di Produzione Vegetale, Università degli Studi di Milano, Milan, Italy
                [4 ]Biogemma, Site de la Garenne, 90126 Chappes, France
                [5 ]Munich Information Center for Protein Sequences/Institute for Bioinformatics and Systems Biology, Helmholtz Center Munich, Neuherberg, Germany
                [6 ]MTT/BI Institute of Biotechnology, University of Helsinki, Helsinki, Finland
                [7 ]Plant Genomics Laboratory, MTT Agrifood Research, Jokioinen, Finland
                [8 ]Eversole Associates, Wyoming Road, 5207 Bethesda, USA
                [9 ]Center for Comparative Genomics, Murdoch University, Perth, WA 6150 Australia
                Article
                300
                10.1007/s10142-012-0300-5
                3508266
                23161406
                31276364-907e-4373-b073-685835b45ab0
                © The Author(s) 2012
                History
                : 29 October 2012
                : 31 October 2012
                Categories
                Review
                Custom metadata
                © Springer-Verlag Berlin Heidelberg 2012

                Genetics
                wheat,comparative genomics,molecular breeding,map-based cloning,genetics,genomics,barley,bioinformatics,triticeae,physical mapping

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