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McKenna DD, Scully ED, Pauchet Y, Hoover K, Kirsch R, Geib SM, Mitchell RF, Waterhouse RM, Ahn SJ, Arsala D, Benoit JB, Blackmon H, Bledsoe T, Bowsher JH, Busch A, Calla B, Chao H, Childers AK, Childers C, Clarke DJ, Cohen L, Demuth JP, Dinh H, Doddapaneni H, Dolan A, Duan JJ, Dugan S, Friedrich M, Glastad KM, Goodisman MAD, Haddad S, Han Y, Hughes DST, Ioannidis P, Johnston JS, Jones JW, Kuhn LA, Lance DR, Lee CY, Lee SL, Lin H, Lynch JA, Moczek AP, Murali SC, Muzny DM, Nelson DR, Palli SR, Panfilio KA, Pers D, Poelchau MF, Quan H, Qu J, Ray AM, Rinehart JP, Robertson HM, Roehrdanz R, Rosendale AJ, Shin S, Silva C, Torson AS, Jentzsch IMV, Werren JH, Worley KC, Yocum G, Zdobnov EM, Gibbs RA, Richards S. Genome of the Asian longhorned beetle (Anoplophora glabripennis), a globally significant invasive species, reveals key functional and evolutionary innovations at the beetle-plant interface. Genome Biol 2016; 17:227. [PMID: 27832824 PMCID: PMC5105290 DOI: 10.1186/s13059-016-1088-8] [Citation(s) in RCA: 187] [Impact Index Per Article: 23.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/04/2016] [Accepted: 10/19/2016] [Indexed: 11/30/2022] Open
Abstract
BACKGROUND 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. RESULTS The Asian longhorned beetle genome encodes a uniquely diverse arsenal of enzymes that can degrade the main polysaccharide networks in plant cell walls, detoxify plant allelochemicals, and otherwise facilitate feeding on woody plants. It has the metabolic plasticity needed to feed on diverse plant species, contributing to its highly invasive nature. Large expansions of chemosensory genes involved in the reception of pheromones and plant kairomones are consistent with the complexity of chemical cues it uses to find host plants and mates. CONCLUSIONS Amplification and functional divergence of genes associated with specialized feeding on plants, including genes originally obtained via horizontal gene transfer from fungi and bacteria, contributed to the addition, expansion, and enhancement of the metabolic repertoire of the Asian longhorned beetle, certain other phytophagous beetles, and to a lesser degree, other phytophagous insects. Our results thus begin to establish a genomic basis for the evolutionary success of beetles on plants.
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Affiliation(s)
- Duane D. McKenna
- Department of Biological Sciences, University of Memphis, 3700 Walker Ave., Memphis, TN 38152 USA
- Feinstone Center for Genomic Research, University of Memphis, Memphis, TN 38152 USA
| | - Erin D. Scully
- USDA, Agricultural Research Service, Center for Grain and Animal Health, Stored Product Insect and Engineering Research Unit, Manhattan, KS 66502 USA
| | - Yannick Pauchet
- Department of Entomology, Max Planck Institute for Chemical Ecology, Jena, 07745, Germany
| | - Kelli Hoover
- Department of Entomology and Center for Chemical Ecology, The Pennsylvania State University, University Park, PA 16802 USA
| | - Roy Kirsch
- Department of Entomology, Max Planck Institute for Chemical Ecology, Jena, 07745, Germany
| | - Scott M. Geib
- USDA, Agricultural Research Service, Daniel K Inouye US Pacific Basin Agricultural Research Center, Tropical Crop and Commodity Protection Research Unit, Hilo, HI 96720 USA
| | - Robert F. Mitchell
- Center for Insect Science and Department of Neuroscience, University of Arizona, Tucson, AZ 85721 USA
- Department of Biology, University of Wisconsin Oshkosh, Oshkosh, WI 54901 USA
| | - Robert M. Waterhouse
- Department of Genetic Medicine and Development and Swiss Institute of Bioinformatics, University of Geneva, Geneva, 1211 Switzerland
- The Massachusetts Institute of Technology and The Broad Institute of MIT and Harvard, Cambridge, MA 02142 USA
| | - Seung-Joon Ahn
- Department of Entomology, Max Planck Institute for Chemical Ecology, Jena, 07745, Germany
| | - Deanna Arsala
- Department of Biological Sciences, University of Illinois at Chicago, Chicago, IL 60607 USA
| | - Joshua B. Benoit
- Department of Biological Sciences, University of Cincinnati, Cincinnati, OH 45221 USA
| | - Heath Blackmon
- Department of Biology, University of Texas at Arlington, Arlington, TX 76019 USA
| | - Tiffany Bledsoe
- Center for Insect Science and Department of Neuroscience, University of Arizona, Tucson, AZ 85721 USA
| | - Julia H. Bowsher
- Department of Biological Sciences, North Dakota State University, Fargo, ND 58108 USA
| | - André Busch
- Department of Entomology, Max Planck Institute for Chemical Ecology, Jena, 07745, Germany
| | - Bernarda Calla
- USDA, Agricultural Research Service, Daniel K Inouye US Pacific Basin Agricultural Research Center, Tropical Crop and Commodity Protection Research Unit, Hilo, HI 96720 USA
| | - Hsu Chao
- Human Genome Sequencing Center, Department of Human and Molecular Genetics, Baylor College of Medicine, One Baylor Plaza, Houston, TX 77030 USA
| | - Anna K. Childers
- USDA, Agricultural Research Service, Red River Valley Agricultural Research Center, Biosciences Research Laboratory, Fargo, ND 58102, USA
| | - Christopher Childers
- USDA, Agricultural Research Service, National Agricultural Library, Beltsville, MD 20705 USA
| | - Dave J. Clarke
- Department of Biological Sciences, University of Memphis, 3700 Walker Ave., Memphis, TN 38152 USA
| | - Lorna Cohen
- Department of Biological Sciences, University of Illinois at Chicago, Chicago, IL 60607 USA
| | - Jeffery P. Demuth
- Department of Biology, University of Texas at Arlington, Arlington, TX 76019 USA
| | - Huyen Dinh
- Human Genome Sequencing Center, Department of Human and Molecular Genetics, Baylor College of Medicine, One Baylor Plaza, Houston, TX 77030 USA
| | - HarshaVardhan Doddapaneni
- Human Genome Sequencing Center, Department of Human and Molecular Genetics, Baylor College of Medicine, One Baylor Plaza, Houston, TX 77030 USA
| | - Amanda Dolan
- Department of Biology, University of Rochester, Rochester, NY 14627 USA
| | - Jian J. Duan
- USDA, Agricultural Research Service, Beneficial Insects Introduction Research, Newark, DE 19713 USA
| | - Shannon Dugan
- Human Genome Sequencing Center, Department of Human and Molecular Genetics, Baylor College of Medicine, One Baylor Plaza, Houston, TX 77030 USA
| | - Markus Friedrich
- Department of Biological Sciences, Wayne State University, Detroit, MI 48202 USA
| | - Karl M. Glastad
- School of Biology, Georgia Institute of Technology, Atlanta, GA 30332 USA
| | | | - Stephanie Haddad
- Department of Biological Sciences, University of Memphis, 3700 Walker Ave., Memphis, TN 38152 USA
| | - Yi Han
- Human Genome Sequencing Center, Department of Human and Molecular Genetics, Baylor College of Medicine, One Baylor Plaza, Houston, TX 77030 USA
| | - Daniel S. T. Hughes
- Human Genome Sequencing Center, Department of Human and Molecular Genetics, Baylor College of Medicine, One Baylor Plaza, Houston, TX 77030 USA
| | - Panagiotis Ioannidis
- Department of Genetic Medicine and Development and Swiss Institute of Bioinformatics, University of Geneva, Geneva, 1211 Switzerland
| | - J. Spencer Johnston
- Department of Entomology, Texas A&M University, College Station, TX 77843 USA
| | - Jeffery W. Jones
- Department of Biological Sciences, Wayne State University, Detroit, MI 48202 USA
| | - Leslie A. Kuhn
- 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
| | - David R. Lance
- 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
| | - Chien-Yueh Lee
- USDA, Agricultural Research Service, National Agricultural Library, Beltsville, MD 20705 USA
- Graduate Institute of Biomedical Electronics and Bioinformatics, National Taiwan University, Taipei, 10617 Taiwan
| | - Sandra L. Lee
- Human Genome Sequencing Center, Department of Human and Molecular Genetics, Baylor College of Medicine, One Baylor Plaza, Houston, TX 77030 USA
| | - Han Lin
- USDA, Agricultural Research Service, National Agricultural Library, Beltsville, MD 20705 USA
- Graduate Institute of Biomedical Electronics and Bioinformatics, National Taiwan University, Taipei, 10617 Taiwan
| | - Jeremy A. Lynch
- Department of Biological Sciences, University of Illinois at Chicago, Chicago, IL 60607 USA
| | - Armin P. Moczek
- Department of Biology, Indiana University, Blomington, IN 47405 USA
| | - Shwetha C. Murali
- Human Genome Sequencing Center, Department of Human and Molecular Genetics, Baylor College of Medicine, One Baylor Plaza, Houston, TX 77030 USA
| | - Donna M. Muzny
- Human Genome Sequencing Center, Department of Human and Molecular Genetics, Baylor College of Medicine, One Baylor Plaza, Houston, TX 77030 USA
| | - David R. Nelson
- Department of Microbiology, Immunology, and Biochemistry, University of Tennessee Health Science Center, Memphis, TN 38163 USA
| | - Subba R. Palli
- Department of Entomology, University of Kentucky, Lexington, KY 40546 USA
| | - Kristen A. Panfilio
- Institute for Developmental Biology, University of Cologne, Cologne, 50674 Germany
| | - Dan Pers
- Department of Biological Sciences, University of Illinois at Chicago, Chicago, IL 60607 USA
| | - Monica F. Poelchau
- USDA, Agricultural Research Service, National Agricultural Library, Beltsville, MD 20705 USA
| | - Honghu Quan
- Department of Biological Sciences, University of Illinois at Chicago, Chicago, IL 60607 USA
| | - Jiaxin Qu
- Human Genome Sequencing Center, Department of Human and Molecular Genetics, Baylor College of Medicine, One Baylor Plaza, Houston, TX 77030 USA
| | - Ann M. Ray
- Department of Biology, Xavier University, Cincinnati, OH 45207 USA
| | - Joseph P. Rinehart
- USDA, Agricultural Research Service, Red River Valley Agricultural Research Center, Biosciences Research Laboratory, Fargo, ND 58102, USA
| | - Hugh M. Robertson
- Department of Entomology, University of Illinois at Urbana-Champaign, Urbana, IL 61801 USA
| | - Richard Roehrdanz
- USDA, Agricultural Research Service, Red River Valley Agricultural Research Center, Biosciences Research Laboratory, Fargo, ND 58102, USA
| | - Andrew J. Rosendale
- Department of Biological Sciences, University of Cincinnati, Cincinnati, OH 45221 USA
| | - Seunggwan Shin
- Department of Biological Sciences, University of Memphis, 3700 Walker Ave., Memphis, TN 38152 USA
| | - Christian Silva
- Department of Biology, University of Rochester, Rochester, NY 14627 USA
| | - Alex S. Torson
- Department of Biological Sciences, North Dakota State University, Fargo, ND 58108 USA
| | | | - John H. Werren
- Department of Biology, University of Rochester, Rochester, NY 14627 USA
| | - Kim C. Worley
- Human Genome Sequencing Center, Department of Human and Molecular Genetics, Baylor College of Medicine, One Baylor Plaza, Houston, TX 77030 USA
| | - George Yocum
- USDA, Agricultural Research Service, Red River Valley Agricultural Research Center, Biosciences Research Laboratory, Fargo, ND 58102, USA
| | - Evgeny M. Zdobnov
- Department of Genetic Medicine and Development and Swiss Institute of Bioinformatics, University of Geneva, Geneva, 1211 Switzerland
| | - Richard A. Gibbs
- Human Genome Sequencing Center, Department of Human and Molecular Genetics, Baylor College of Medicine, One Baylor Plaza, Houston, TX 77030 USA
| | - Stephen Richards
- Human Genome Sequencing Center, Department of Human and Molecular Genetics, Baylor College of Medicine, One Baylor Plaza, Houston, TX 77030 USA
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