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      Genome of the Asian longhorned beetle (Anoplophora glabripennis), a globally significant invasive species, reveals key functional and evolutionary innovations at the beetle-plant interface.

      1 , 2 , 3 , 4 , 5 , 4 , 6 , 7 , 8 , 9 , 10 , 4 , 11 , 12 , 13 , 7 , 14 , 4 , 6 , 15 , 16 , 17 , 18 , 11 , 13 , 15 , 15 , 19 , 20 , 15 , 21 , 22 , 22 , 18 , 15 , 15 , 9 , 23 , 21 , 24 , 25 , 17 , 26 , 15 , 17 , 26 , 11 , 27 , 15 , 15 , 28 , 29 , 30 , 11 , 17 , 11 , 15 , 31 , 16 , 32 , 16 , 12 , 18 , 19 , 14 , 30 , 19 , 15 , 16 , 9 , 15 , 33
      Genome biology
      Springer Nature
      Chemoperception, Detoxification, Glycoside hydrolase, Horizontal gene transfer, Phytophagy, Xylophagy

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          Abstract

          Relatively little is known about the genomic basis and evolution of wood-feeding in beetles. We undertook genome sequencing and annotation, gene expression assays, studies of plant cell wall degrading enzymes, and other functional and comparative studies of the Asian longhorned beetle, Anoplophora glabripennis, a globally significant invasive species capable of inflicting severe feeding damage on many important tree species. Complementary studies of genes encoding enzymes involved in digestion of woody plant tissues or detoxification of plant allelochemicals were undertaken with the genomes of 14 additional insects, including the newly sequenced emerald ash borer and bull-headed dung beetle.

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          Most cited references58

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          The genome of the model beetle and pest Tribolium castaneum.

          Tribolium castaneum is a member of the most species-rich eukaryotic order, a powerful model organism for the study of generalized insect development, and an important pest of stored agricultural products. We describe its genome sequence here. This omnivorous beetle has evolved the ability to interact with a diverse chemical environment, as shown by large expansions in odorant and gustatory receptors, as well as P450 and other detoxification enzymes. Development in Tribolium is more representative of other insects than is Drosophila, a fact reflected in gene content and function. For example, Tribolium has retained more ancestral genes involved in cell-cell communication than Drosophila, some being expressed in the growth zone crucial for axial elongation in short-germ development. Systemic RNA interference in T. castaneum functions differently from that in Caenorhabditis elegans, but nevertheless offers similar power for the elucidation of gene function and identification of targets for selective insect control.
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            Temporal lags and overlap in the diversification of weevils and flowering plants.

            The extraordinary diversity of herbivorous beetles is usually attributed to coevolution with angiosperms. However, the degree and nature of contemporaneity in beetle and angiosperm diversification remain unclear. Here we present a large-scale molecular phylogeny for weevils (herbivorous beetles in the superfamily Curculionoidea), one of the most diverse lineages of insects, based on approximately 8 kilobases of DNA sequence data from a worldwide sample including all families and subfamilies. Estimated divergence times derived from the combined molecular and fossil data indicate diversification into most families occurred on gymnosperms in the Jurassic, beginning approximately 166 Ma. Subsequent colonization of early crown-group angiosperms occurred during the Early Cretaceous, but this alone evidently did not lead to an immediate and major diversification event in weevils. Comparative trends in weevil diversification and angiosperm dominance reveal that massive diversification began in the mid-Cretaceous (ca. 112.0 to 93.5 Ma), when angiosperms first rose to widespread floristic dominance. These and other evidence suggest a deep and complex history of coevolution between weevils and angiosperms, including codiversification, resource tracking, and sequential evolution.
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              Draft genome of the mountain pine beetle, Dendroctonus ponderosae Hopkins, a major forest pest

              Background The mountain pine beetle, Dendroctonus ponderosae Hopkins, is the most serious insect pest of western North American pine forests. A recent outbreak destroyed more than 15 million hectares of pine forests, with major environmental effects on forest health, and economic effects on the forest industry. The outbreak has in part been driven by climate change, and will contribute to increased carbon emissions through decaying forests. Results We developed a genome sequence resource for the mountain pine beetle to better understand the unique aspects of this insect's biology. A draft de novo genome sequence was assembled from paired-end, short-read sequences from an individual field-collected male pupa, and scaffolded using mate-paired, short-read genomic sequences from pooled field-collected pupae, paired-end short-insert whole-transcriptome shotgun sequencing reads of mRNA from adult beetle tissues, and paired-end Sanger EST sequences from various life stages. We describe the cytochrome P450, glutathione S-transferase, and plant cell wall-degrading enzyme gene families important to the survival of the mountain pine beetle in its harsh and nutrient-poor host environment, and examine genome-wide single-nucleotide polymorphism variation. A horizontally transferred bacterial sucrose-6-phosphate hydrolase was evident in the genome, and its tissue-specific transcription suggests a functional role for this beetle. Conclusions Despite Coleoptera being the largest insect order with over 400,000 described species, including many agricultural and forest pest species, this is only the second genome sequence reported in Coleoptera, and will provide an important resource for the Curculionoidea and other insects.
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                Author and article information

                Journal
                Genome Biol.
                Genome biology
                Springer Nature
                1474-760X
                1474-7596
                Nov 11 2016
                : 17
                : 1
                Affiliations
                [1 ] Department of Biological Sciences, University of Memphis, 3700 Walker Ave., Memphis, TN, 38152, USA. dmckenna@memphis.edu.
                [2 ] Feinstone Center for Genomic Research, University of Memphis, Memphis, TN, 38152, USA. dmckenna@memphis.edu.
                [3 ] USDA, Agricultural Research Service, Center for Grain and Animal Health, Stored Product Insect and Engineering Research Unit, Manhattan, KS, 66502, USA.
                [4 ] Department of Entomology, Max Planck Institute for Chemical Ecology, Jena, 07745, Germany.
                [5 ] Department of Entomology and Center for Chemical Ecology, The Pennsylvania State University, University Park, PA, 16802, USA.
                [6 ] USDA, Agricultural Research Service, Daniel K Inouye US Pacific Basin Agricultural Research Center, Tropical Crop and Commodity Protection Research Unit, Hilo, HI, 96720, USA.
                [7 ] Center for Insect Science and Department of Neuroscience, University of Arizona, Tucson, AZ, 85721, USA.
                [8 ] Department of Biology, University of Wisconsin Oshkosh, Oshkosh, WI, 54901, USA.
                [9 ] Department of Genetic Medicine and Development and Swiss Institute of Bioinformatics, University of Geneva, Geneva, 1211, Switzerland.
                [10 ] The Massachusetts Institute of Technology and The Broad Institute of MIT and Harvard, Cambridge, MA, 02142, USA.
                [11 ] Department of Biological Sciences, University of Illinois at Chicago, Chicago, IL, 60607, USA.
                [12 ] Department of Biological Sciences, University of Cincinnati, Cincinnati, OH, 45221, USA.
                [13 ] Department of Biology, University of Texas at Arlington, Arlington, TX, 76019, USA.
                [14 ] Department of Biological Sciences, North Dakota State University, Fargo, ND, 58108, USA.
                [15 ] Human Genome Sequencing Center, Department of Human and Molecular Genetics, Baylor College of Medicine, One Baylor Plaza, Houston, TX, 77030, USA.
                [16 ] USDA, Agricultural Research Service, Red River Valley Agricultural Research Center, Biosciences Research Laboratory, Fargo, ND, 58102, USA.
                [17 ] USDA, Agricultural Research Service, National Agricultural Library, Beltsville, MD, 20705, USA.
                [18 ] Department of Biological Sciences, University of Memphis, 3700 Walker Ave., Memphis, TN, 38152, USA.
                [19 ] Department of Biology, University of Rochester, Rochester, NY, 14627, USA.
                [20 ] USDA, Agricultural Research Service, Beneficial Insects Introduction Research, Newark, DE, 19713, USA.
                [21 ] Department of Biological Sciences, Wayne State University, Detroit, MI, 48202, USA.
                [22 ] School of Biology, Georgia Institute of Technology, Atlanta, GA, 30332, USA.
                [23 ] Department of Entomology, Texas A&M University, College Station, TX, 77843, USA.
                [24 ] Department of Biochemistry and Molecular Biology, Department of Computers Science and Engineering, and Department of Fisheries and Wildlife, Michigan State University, East Lansing, MI, 48824, USA.
                [25 ] USDA, Animal and Plant Health Inspection Service, Plant Pest and Quarantine, Center for Plant Health Science and Technology, Otis Laboratory, Buzzards Bay, MA, 02542, USA.
                [26 ] Graduate Institute of Biomedical Electronics and Bioinformatics, National Taiwan University, Taipei, 10617, Taiwan.
                [27 ] Department of Biology, Indiana University, Blomington, IN, 47405, USA.
                [28 ] Department of Microbiology, Immunology, and Biochemistry, University of Tennessee Health Science Center, Memphis, TN, 38163, USA.
                [29 ] Department of Entomology, University of Kentucky, Lexington, KY, 40546, USA.
                [30 ] Institute for Developmental Biology, University of Cologne, Cologne, 50674, Germany.
                [31 ] Department of Biology, Xavier University, Cincinnati, OH, 45207, USA.
                [32 ] Department of Entomology, University of Illinois at Urbana-Champaign, Urbana, IL, 61801, USA.
                [33 ] Human Genome Sequencing Center, Department of Human and Molecular Genetics, Baylor College of Medicine, One Baylor Plaza, Houston, TX, 77030, USA. stephenr@bcm.edu.
                Article
                10.1186/s13059-016-1088-8
                10.1186/s13059-016-1088-8
                5105290
                27832824
                a4a342f2-152f-41f0-8fce-c4edbfb401c0
                History

                Chemoperception,Detoxification,Glycoside hydrolase,Horizontal gene transfer,Phytophagy,Xylophagy

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