Gene and Protein Evolution
Our way of understanding evolution has changed completely with the era of genomics, particularly since the emergence of comparative genomics, a discipline allowing the analysis of complete genomes and biological processes over vast periods of time. In this volume, internationally recognized experts present and discuss an update of the evolutionary processes at the onset of organismal diversification and complexity, and review the mechanisms leading to the acquisition of new traits and functions. Different levels of evolution are considered, from internal modules in genes and proteins to interactomes and biological networks, with integration of the influence of both the genomic environment and the ecological context. Particular emphasis will be given to the origin of novel genes and gene functions as well as to the evolutionary impact of the duplication of genetic information, with several chapters devoted to transposable elements. Providing an excellent update on gene and protein evolution, this book will be appreciated by researchers in biology and medicine, biology teachers and anyone interested in evolution and genomics.
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Table of Contents
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1 - 12: Coevolution within and between GenesByN. Galtier;N. GaltierCNRS UMR 5171 – Génome, Populations, Interactions, Adaptation, UniversitéMontpellier 2, FranceSearch for other works by this author on:J. DutheilJ. DutheilCNRS UMR 5171 – Génome, Populations, Interactions, Adaptation, UniversitéMontpellier 2, FranceSearch for other works by this author on:
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13 - 29: Evolution of Protein-Protein Interaction NetworkByT. Makino;T. MakinoaCenter for Information Biology and DNA Data Bank of Japan, National Institute of Genetics, Yata, Mishima,bImmunotherapy Division, Shizuoka Cancer Center Research Institute, Shimonagakubo, Nagaizumi-cho, Shizuoka, Japan;c Department of Genetics, Smurfit Institute, University of Dublin, Trinity College, Dublin, Ireland;Search for other works by this author on:T. GojoboriT. GojoboriaCenter for Information Biology and DNA Data Bank of Japan, National Institute of Genetics, Yata, Mishima,dBiological Information Research Center, National Institute of Advanced Industrial Science and Technology, Aomi, Koto-ku, Tokyo, JapanSearch for other works by this author on:
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30 - 47: Bacterial Flagella and Type III Secretion: Case Studies in the Evolution of ComplexityByM.J. Pallen;M.J. PallenaUniversity of Birmingham Medical School, Birmingham, United Kingdom;Search for other works by this author on:U. GophnaU. GophnabDepartment of Molecular Microbiology and Biotechnology, The George S. Wise Faculty of Life Sciences, Tel-Aviv University, Tel-Aviv, IsraelSearch for other works by this author on:
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48 - 65: Comparative Genomics and Evolutionary Trajectories of Viral ATP Dependent DNA-Packaging SystemsByA.M. Burroughs;A.M. BurroughsaNational Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD,b Bioinformatics Program, Boston University, Boston, MA, USASearch for other works by this author on:L.M. Iyer;L.M. IyeraNational Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD,Search for other works by this author on:L. AravindL. AravindaNational Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD,Search for other works by this author on:
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66 - 80: General Trends in the Evolution of Prokaryotic Transcriptional Regulatory NetworksByM. Madan Babu;M. Madan BabuaNational Center for Biotechnology Information, National Institutes of Health, Bethesda, Md., USA;b MRC Laboratory of Molecular Biology, Hills Road, Cambridge, UKSearch for other works by this author on:S. Balaji;S. BalajiaNational Center for Biotechnology Information, National Institutes of Health, Bethesda, Md., USA;Search for other works by this author on:L. AravindL. AravindaNational Center for Biotechnology Information, National Institutes of Health, Bethesda, Md., USA;Search for other works by this author on:
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81 - 100: Divergence of Regulatory Sequences in Duplicated Fish GenesByR. Van Hellemont;R. Van HellemontaBIOI@SCD, Dept. Electrical Engineering, K.U.Leuven, Heverlee, Leuven,Search for other works by this author on:T. Blomme;T. BlommebDepartment of Plant Systems Biology, Flanders Interuniversity Institute for Biotechnology (VIB), Ghent University, Ghent,Search for other works by this author on:Y. Van de Peer;Y. Van de PeerbDepartment of Plant Systems Biology, Flanders Interuniversity Institute for Biotechnology (VIB), Ghent University, Ghent,Search for other works by this author on:K. MarchalK. MarchalaBIOI@SCD, Dept. Electrical Engineering, K.U.Leuven, Heverlee, Leuven,c Dept. Microbial and Molecular Systems, K.U.Leuven, Heverlee, Leuven, BelgiumSearch for other works by this author on:
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101 - 118: Evolution of Gene Function on the X Chromosome Versus the AutosomesByN.D. Singh;N.D. Singh371 Serra Mall, Stanford, Calif., USASearch for other works by this author on:D.A. PetrovD.A. Petrov371 Serra Mall, Stanford, Calif., USASearch for other works by this author on:
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119 - 130: Amino Acid Repeats and the Structure and Evolution of ProteinsByM.M. Albà;M.M. AlbàaResearch Unit on Biomedical Informatics, Catalan Institution for Research and Advanced Studies, Institut Municipal d’Investigació Mèdica, Universitat Pompeu Fabra, Barcelona, Spain;Search for other works by this author on:P. Tompa;P. Tompab Institute of Enzymology, Biological Research Center, Hungarian Academy of Sciences, Budapest, Hungary;Search for other works by this author on:R.A. VeitiaR.A. Veitiac INSERM E21, IFR Alfred Jost, Hôpital Cochin and University Paris VII, Paris, FranceSearch for other works by this author on:
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131 - 146: Origination of Chimeric Genes through DNA-Level RecombinationByJ.R. Arguello;J.R. ArguelloaThe University of Chicago, Department of Ecology and Evolution, Zoology 301E, Chicago, Ill., USA;Search for other works by this author on:C. Fan;C. FanaThe University of Chicago, Department of Ecology and Evolution, Zoology 301E, Chicago, Ill., USA;Search for other works by this author on:W. Wang;W. Wangb CAS-Max Planck Junior Research Group, Key Laboratory of Cellular and Molecular Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, Yunnan, ChinaSearch for other works by this author on:M. LongM. LongaThe University of Chicago, Department of Ecology and Evolution, Zoology 301E, Chicago, Ill., USA;Search for other works by this author on:
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147 - 162: Exaptation of Protein Coding Sequences from Transposable ElementsByN.J. Bowen;N.J. BowenSchool of Biology, Georgia Institute of Technology, Atlanta, Ga., USASearch for other works by this author on:I.K. JordanI.K. JordanSchool of Biology, Georgia Institute of Technology, Atlanta, Ga., USASearch for other works by this author on:
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163 - 174: Modulation of Host Genes by Mammalian Transposable ElementsByW. Maka5owski;W. Maka5owskiaInstitute of Molecular Evolutionary Genetics and Department of Biology, The Pennsylvania State University, University Park, Ill. USA;Search for other works by this author on:Y. TodaY. Todab Third Wave Japan, Tokyo, JapanSearch for other works by this author on:
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175 - 190: Modern Genomes with Retro-Look: Retrotransposed Elements, Retroposition and the Origin of New GenesByJ.-N. Volff;J.-N. VolffaInstitut de Génomique Fonctionnelle, INRA, CNRS, Université Lyon 1, Ecole Normale Supérieure, Lyon, France;Search for other works by this author on:J. BrosiusJ. Brosiusb Institute of Experimental Pathology, Molecular Neurobiology (ZMBE), University of Münster, Münster, GermanySearch for other works by this author on: