Journal article

Gene content evolution in the arthropods.

  • Thomas GWC Department of Biology and Department of Computer Science, Indiana University, Bloomington, IN, USA.
  • Dohmen E Institute for Evolution and Biodiversity, University of Münsterss, 48149, Münster, Germany.
  • Hughes DST Human Genome Sequencing Center, Department of Human and Molecular Genetics, Baylor College of Medicine, One Baylor Plaza, Houston, TX, 77030, USA.
  • Murali SC Human Genome Sequencing Center, Department of Human and Molecular Genetics, Baylor College of Medicine, One Baylor Plaza, Houston, TX, 77030, USA.
  • Poelchau M National Agricultural Library, USDA, Beltsville, MD, 20705, USA.
  • Glastad K School of Biological Sciences, Georgia Institute of Technology, Atlanta, GA, 30332, USA.
  • Anstead CA Faculty of Veterinary and Agricultural Sciences, The University of Melbourne, Parkville, VIC, 3010, Australia.
  • Ayoub NA Department of Biology, Washington and Lee University, 204 West Washington Street, Lexington, VA, 24450, USA.
  • Batterham P School of BioSciences Science Faculty, The University of Melbourne, Melbourne, VIC, 3010, Australia.
  • Bellair M Human Genome Sequencing Center, Department of Human and Molecular Genetics, Baylor College of Medicine, One Baylor Plaza, Houston, TX, 77030, USA.
  • Binford GJ Department of Biology, Lewis & Clark College, Portland, OR, 97219, USA.
  • Chao H Human Genome Sequencing Center, Department of Human and Molecular Genetics, Baylor College of Medicine, One Baylor Plaza, Houston, TX, 77030, USA.
  • Chen YH Department of Plant and Soil Sciences, University of Vermont, Burlington, USA.
  • Childers C National Agricultural Library, USDA, Beltsville, MD, 20705, USA.
  • Dinh H Human Genome Sequencing Center, Department of Human and Molecular Genetics, Baylor College of Medicine, One Baylor Plaza, Houston, TX, 77030, USA.
  • Doddapaneni HV Human Genome Sequencing Center, Department of Human and Molecular Genetics, Baylor College of Medicine, One Baylor Plaza, Houston, TX, 77030, USA.
  • Duan JJ Beneficial Insects Introduction Research Unit, United States Department of Agriculture, Agricultural Research Service, Newark, DE, USA.
  • Dugan S Human Genome Sequencing Center, Department of Human and Molecular Genetics, Baylor College of Medicine, One Baylor Plaza, Houston, TX, 77030, USA.
  • Esposito LA Institute for Biodiversity Science and Sustainability, California Academy of Sciences, 55 Music Concourse Drive, San Francisco, CA, 94118, USA.
  • Friedrich M Department of Biological Sciences, Wayne State University, Detroit, MI, 48202, USA.
  • Garb J Department of Biological Sciences, University of Massachusetts Lowell, 198 Riverside Street, Lowell, MA, 01854, USA.
  • Gasser RB Faculty of Veterinary and Agricultural Sciences, The University of Melbourne, Parkville, VIC, 3010, Australia.
  • Goodisman MAD School of Biological Sciences, Georgia Institute of Technology, Atlanta, GA, 30332, USA.
  • Gundersen-Rindal DE USDA-ARS Invasive Insect Biocontrol and Behavior Laboratory, Beltsville, MD, USA.
  • Han Y Human Genome Sequencing Center, Department of Human and Molecular Genetics, Baylor College of Medicine, One Baylor Plaza, Houston, TX, 77030, USA.
  • Handler AM USDA-ARS, Center for Medical, Agricultural, and Veterinary Entomology, 1700 S.W. 23rd Drive, Gainesville, FL, 32608, USA.
  • Hatakeyama M Division of Insect Sciences, National Institute of Agrobiological Sciences, Owashi, Tsukuba, 305-8634, Japan.
  • Hering L Department of Zoology, Institute of Biology, University of Kassel, 34132, Kassel, Germany.
  • Hunter WB USDA ARS, U. S. Horticultural Research Laboratory, Ft. Pierce, FL, 34945, USA.
  • Ioannidis P Department of Genetic Medicine and Development and Swiss Institute of Bioinformatics, University of Geneva, 1211, Geneva, Switzerland.
  • Jayaseelan JC Human Genome Sequencing Center, Department of Human and Molecular Genetics, Baylor College of Medicine, One Baylor Plaza, Houston, TX, 77030, USA.
  • Kalra D Human Genome Sequencing Center, Department of Human and Molecular Genetics, Baylor College of Medicine, One Baylor Plaza, Houston, TX, 77030, USA.
  • Khila A Université de Lyon, Institut de Génomique Fonctionnelle de Lyon, CNRS UMR 5242, Ecole Normale Supérieure de Lyon, Université Claude Bernard Lyon 1, 46 allée d'Italie, 69364, Lyon, France.
  • Korhonen PK Faculty of Veterinary and Agricultural Sciences, The University of Melbourne, Parkville, VIC, 3010, Australia.
  • Lee CE Department of Integrative Biology, University of Wisconsin, Madison, WI, 53706, USA.
  • Lee SL Human Genome Sequencing Center, Department of Human and Molecular Genetics, Baylor College of Medicine, One Baylor Plaza, Houston, TX, 77030, USA.
  • Li Y Department of Biological Sciences, University of Notre Dame, 109B Galvin Life Sciences, Notre Dame, IN, 46556, USA.
  • Lindsey ARI Department of Entomology, University of California Riverside, Riverside, CA, USA.
  • Mayer G Department of Zoology, Institute of Biology, University of Kassel, 34132, Kassel, Germany.
  • McGregor AP Department of Biological and Medical Sciences, Oxford Brookes University, Gipsy Lane, Oxford, OX3 0BP, UK.
  • McKenna DD Department of Biological Sciences, University of Memphis, 3700 Walker Ave, Memphis, TN, 38152, USA.
  • Misof B Center for Molecular Biodiversity Research, Zoological Research Museum Alexander Koenig, Bonn, Germany.
  • Munidasa M Human Genome Sequencing Center, Department of Human and Molecular Genetics, Baylor College of Medicine, One Baylor Plaza, Houston, TX, 77030, USA.
  • Munoz-Torres M Environmental Genomics and Systems Biology Division, Lawrence Berkeley National Laboratory, Berkeley, USA.
  • Muzny DM Human Genome Sequencing Center, Department of Human and Molecular Genetics, Baylor College of Medicine, One Baylor Plaza, Houston, TX, 77030, USA.
  • Niehuis O Evolutionary Biology and Ecology, Institute of Biology I (Zoology), Albert Ludwig University of Freiburg, 79104, Freiburg (Brsg.), Germany.
  • Osuji-Lacy N Human Genome Sequencing Center, Department of Human and Molecular Genetics, Baylor College of Medicine, One Baylor Plaza, Houston, TX, 77030, USA.
  • Palli SR Department of Entomology, University of Kentucky, Lexington, KY, 40546, USA.
  • Panfilio KA School of Life Sciences, University of Warwick, Gibbet Hill Campus, Coventry, CV4 7AL, UK.
  • Pechmann M Cologne Biocenter, Zoological Institute, Department of Developmental Biology, University of Cologne, 50674, Cologne, Germany.
  • Perry T School of BioSciences Science Faculty, The University of Melbourne, Melbourne, VIC, 3010, Australia.
  • Peters RS Centre of Taxonomy and Evolutionary Research, Arthropoda Department, Zoological Research Museum Alexander Koenig, Bonn, Germany.
  • Poynton HC School for the Environment, University of Massachusetts Boston, Boston, MA, 02125, USA.
  • Prpic NM Johann-Friedrich-Blumenbach-Institut für Zoologie und Anthropologie, Abteilung für Entwicklungsbiologie, Georg-August-Universität Göttingen, Göttingen, Germany.
  • Qu J Human Genome Sequencing Center, Department of Human and Molecular Genetics, Baylor College of Medicine, One Baylor Plaza, Houston, TX, 77030, USA.
  • Rotenberg D Department of Entomology and Plant Pathology, North Carolina State University, Raleigh, NC, 27606, USA.
  • Schal C Department of Entomology and W.M. Keck Center for Behavioral Biology, North Carolina State University, Raleigh, NC, 27695, USA.
  • Schoville SD Department of Entomology, University of Wisconsin-Madison, Madison, USA.
  • Scully ED Stored Product Insect and Engineering Research Unit, USDA-ARS Center for Grain and Animal Health Research, Manhattan, KS, 66502, USA.
  • Skinner E Human Genome Sequencing Center, Department of Human and Molecular Genetics, Baylor College of Medicine, One Baylor Plaza, Houston, TX, 77030, USA.
  • Sloan DB Department of Biology, Colorado State University, Ft. Collins, CO, USA.
  • Stouthamer R Department of Entomology, University of California Riverside, Riverside, CA, USA.
  • Strand MR Department of Entomology, University of Georgia, Athens, GA, USA.
  • Szucsich NU Present Address: Arkansas Biosciences Institute, Arkansas State University, Jonesboro, AR, USA.
  • Wijeratne A Department of Biological Sciences, University of Memphis, 3700 Walker Ave, Memphis, TN, 38152, USA.
  • Young ND Faculty of Veterinary and Agricultural Sciences, The University of Melbourne, Parkville, VIC, 3010, Australia.
  • Zattara EE INIBIOMA, Univ. Nacional del Comahue - CONICET, Bariloche, Argentina.
  • Benoit JB Department of Biological Sciences, University of Cincinnati, Cincinnati, OH, 45221, USA.
  • Zdobnov EM Department of Genetic Medicine and Development and Swiss Institute of Bioinformatics, University of Geneva, 1211, Geneva, Switzerland.
  • Pfrender ME Department of Biological Sciences, University of Notre Dame, 109B Galvin Life Sciences, Notre Dame, IN, 46556, USA.
  • Hackett KJ Crop Production and Protection, U.S. Department of Agriculture-Agricultural Research Service, Beltsville, MD, 20705, USA.
  • Werren JH Department of Biology, University of Rochester, Rochester, NY, 14627, USA.
  • Worley KC Human Genome Sequencing Center, Department of Human and Molecular Genetics, Baylor College of Medicine, One Baylor Plaza, Houston, TX, 77030, USA.
  • Gibbs RA Human Genome Sequencing Center, Department of Human and Molecular Genetics, Baylor College of Medicine, One Baylor Plaza, Houston, TX, 77030, USA.
  • Chipman AD Department of Ecology, Evolution and Behavior, The Alexander Silberman Institute of Life Sciences, The Hebrew University of Jerusalem, Edmond J. Safra Campus, Givat Ram, 91904, Jerusalem, Israel.
  • Waterhouse RM Department of Ecology & Evolution and Swiss Institute of Bioinformatics, University of Lausanne, 1015, Lausanne, Switzerland.
  • Bornberg-Bauer E Institute for Evolution and Biodiversity, University of Münsterss, 48149, Münster, Germany.
  • Hahn MW Department of Biology and Department of Computer Science, Indiana University, Bloomington, IN, USA.
  • Richards S Human Genome Sequencing Center, Department of Human and Molecular Genetics, Baylor College of Medicine, One Baylor Plaza, Houston, TX, 77030, USA. srichards@ucdavis.edu.
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  • 2020-01-24
Published in:
  • Genome biology. - 2020
English BACKGROUND
Arthropods comprise the largest and most diverse phylum on Earth and play vital roles in nearly every ecosystem. Their diversity stems in part from variations on a conserved body plan, resulting from and recorded in adaptive changes in the genome. Dissection of the genomic record of sequence change enables broad questions regarding genome evolution to be addressed, even across hyper-diverse taxa within arthropods.


RESULTS
Using 76 whole genome sequences representing 21 orders spanning more than 500 million years of arthropod evolution, we document changes in gene and protein domain content and provide temporal and phylogenetic context for interpreting these innovations. We identify many novel gene families that arose early in the evolution of arthropods and during the diversification of insects into modern orders. We reveal unexpected variation in patterns of DNA methylation across arthropods and examples of gene family and protein domain evolution coincident with the appearance of notable phenotypic and physiological adaptations such as flight, metamorphosis, sociality, and chemoperception.


CONCLUSIONS
These analyses demonstrate how large-scale comparative genomics can provide broad new insights into the genotype to phenotype map and generate testable hypotheses about the evolution of animal diversity.
Language
  • English
Open access status
gold
Identifiers
Persistent URL
https://folia.unifr.ch/global/documents/29260
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