{"product_id":"plant-transposons-and-genome-dynamics-in-evolution-isbn-9780470959947","title":"Plant Transposons and Genome Dynamics in Evolution","description":"The transposable genetic elements, or transposons, as they are now known, have had a tumultuous history. Discovered in the mid-20th century by Barbara McClintock, they were initially received with puzzlement. When their genomic abundance began to be apparent, they were categorized as \"junk DNA\" and acquired the label of parasites. Expanding understanding of gene and genome organization has revealed the profound extent of their impact on both. \u003cp\u003e\u003ci\u003ePlant Transposons and Genome Dynamics in Evolution\u003c\/i\u003e captures and distills the voluminous research literature on plant transposable elements and seeks to assemble the big picture of how transposons shape gene structure and regulation, as well as how they sculpt genomes in evolution. Individual chapters provide concise overviews of the many flavors of plant transposons and of their roles in gene creation, gene regulation, development, genome evolution, and organismal speciation, as well as of their epigenetic regulation.\u003c\/p\u003e \u003cp\u003eThis volume is essential reading for anyone working in plant genetics, epigenetics, or evolutionary biology.\u003c\/p\u003e \u003cp\u003eContributors ix\u003c\/p\u003e \u003cp\u003eForeword xi\u003cbr\u003e\u003ci\u003eDavid Botstein\u003c\/i\u003e\u003c\/p\u003e \u003cp\u003eIntroduction xiii\u003cbr\u003e\u003ci\u003eNina V. Fedoroff\u003c\/i\u003e\u003c\/p\u003e \u003cp\u003e\u003cb\u003eChapter 1 The Discovery of Transposition 3\u003cbr\u003e\u003c\/b\u003e\u003ci\u003eNina V. Fedoroff\u003c\/i\u003e\u003c\/p\u003e \u003cp\u003eIntroduction 3\u003c\/p\u003e \u003cp\u003eStudies on Variegation 3\u003c\/p\u003e \u003cp\u003eMutable Genes 5\u003c\/p\u003e \u003cp\u003eMcClintock’s Studies on Chromosome Breakage 6\u003c\/p\u003e \u003cp\u003eRecognition that \u003ci\u003eDs \u003c\/i\u003eTransposes 8\u003c\/p\u003e \u003cp\u003eExplaining Mutable Genes 9\u003c\/p\u003e \u003cp\u003eMolecular Endnote 12\u003c\/p\u003e \u003cp\u003eReferences 12\u003c\/p\u003e \u003cp\u003e\u003cb\u003eChapter 2 A Field Guide to Transposable Elements 15\u003cbr\u003e\u003c\/b\u003e\u003ci\u003eAlan H. Schulman and Thomas Wicker\u003c\/i\u003e\u003c\/p\u003e \u003cp\u003eThe C-value Paradox 15\u003c\/p\u003e \u003cp\u003eThe Quantity of Transposable Elements Determines Genome Size 16\u003c\/p\u003e \u003cp\u003eGeneral Classification Scheme for Transposable Elements 17\u003c\/p\u003e \u003cp\u003eClass II Elements 19\u003c\/p\u003e \u003cp\u003eClass I: The Non-LTR and LTR Retrotransposons 20\u003c\/p\u003e \u003cp\u003eEvolutionary Origins of Transposable Elements 25\u003c\/p\u003e \u003cp\u003eNon-autonomous Transposable Elements 28\u003c\/p\u003e \u003cp\u003eTransposable Element Demography and Genome Ecology 30\u003c\/p\u003e \u003cp\u003eConclusions: Rehabilitation of Transposable Elements 32\u003c\/p\u003e \u003cp\u003eAcknowledgments 34\u003c\/p\u003e \u003cp\u003eReferences 34\u003c\/p\u003e \u003cp\u003e\u003cb\u003eChapter 3 The Mechanism of \u003ci\u003eAc\/Ds \u003c\/i\u003eTransposition 41\u003cbr\u003e\u003c\/b\u003e\u003ci\u003eThomas Peterson and Jianbo Zhang\u003c\/i\u003e\u003c\/p\u003e \u003cp\u003eTransposition of \u003ci\u003eAc\/Ds \u003c\/i\u003eElements 41\u003c\/p\u003e \u003cp\u003eThe Enigmatic \u003ci\u003eAc \u003c\/i\u003eDosage Effect 42\u003c\/p\u003e \u003cp\u003e\u003ci\u003ecis \u003c\/i\u003eand \u003ci\u003etrans \u003c\/i\u003eEffects on \u003ci\u003eAc\u003c\/i\u003e\/\u003ci\u003eDs \u003c\/i\u003eTransposition 43\u003c\/p\u003e \u003cp\u003eMolecular Characterization of Transposable Elements 44\u003c\/p\u003e \u003cp\u003eThe Excision and Insertion Reactions 45\u003c\/p\u003e \u003cp\u003eFormation of \u003ci\u003eDs \u003c\/i\u003efrom \u003ci\u003eAc \u003c\/i\u003e48\u003c\/p\u003e \u003cp\u003eStandard versus Alternative Transposition 48\u003c\/p\u003e \u003cp\u003eSister Chromatid Transposition 48\u003c\/p\u003e \u003cp\u003eReversed-ends Transposition 51\u003c\/p\u003e \u003cp\u003eHow Does \u003ci\u003eDs \u003c\/i\u003eBreak Chromosomes? 53\u003c\/p\u003e \u003cp\u003eAlternative Transposition, DNA Methylation, and the Sequence of Transposition Reactions 54\u003c\/p\u003e \u003cp\u003ePotential Applications of Alternative Transposition 55\u003c\/p\u003e \u003cp\u003ePerspective 56\u003c\/p\u003e \u003cp\u003eReferences 56\u003c\/p\u003e \u003cp\u003e\u003cb\u003eChapter 4 McClintock and Epigenetics 61\u003cbr\u003e\u003c\/b\u003e\u003ci\u003eNina V. Fedoroff\u003c\/i\u003e\u003c\/p\u003e \u003cp\u003eIntroduction 61\u003c\/p\u003e \u003cp\u003e\u003ci\u003eSpm-suppressible \u003c\/i\u003eAlleles 61\u003c\/p\u003e \u003cp\u003e\u003ci\u003eSpm-dependent \u003c\/i\u003eAlleles 64\u003c\/p\u003e \u003cp\u003eCryptic \u003ci\u003eSpm \u003c\/i\u003e66\u003c\/p\u003e \u003cp\u003ePresetting 66\u003c\/p\u003e \u003cp\u003eMolecular Machinery of Epigenetic Regulation 67\u003c\/p\u003e \u003cp\u003eSummary 68\u003c\/p\u003e \u003cp\u003eReferences 69\u003c\/p\u003e \u003cp\u003e\u003cb\u003eChapter 5 Molecular Mechanisms of Transposon Epigenetic Regulation 71\u003cbr\u003e\u003c\/b\u003e\u003ci\u003eRobert A. Martienssen and Vicki L. Chandler\u003c\/i\u003e\u003c\/p\u003e \u003cp\u003eIntroduction 71\u003c\/p\u003e \u003cp\u003eChromatin Remodeling, DNA and Histone Modification 73\u003c\/p\u003e \u003cp\u003eRNA Interference (RNAi) and RNA-Directed DNA Methylation (RdDM) 75\u003c\/p\u003e \u003cp\u003eHeterochromatin Reprogramming and Germ Cell Fate 79\u003c\/p\u003e \u003cp\u003eTransgenerational Inheritance of Transposon Silencing 82\u003c\/p\u003e \u003cp\u003eParamutation 83\u003c\/p\u003e \u003cp\u003eConclusions 85\u003c\/p\u003e \u003cp\u003eReferences 85\u003c\/p\u003e \u003cp\u003e\u003cb\u003eChapter 6 Transposons in Plant Gene Regulation 93\u003cbr\u003e\u003c\/b\u003e\u003ci\u003eDamon R. Lisch\u003c\/i\u003e\u003c\/p\u003e \u003cp\u003eIntroduction 93\u003c\/p\u003e \u003cp\u003eNew Regulatory Functions 94\u003c\/p\u003e \u003cp\u003eTE-Induced Down-Regulation 97\u003c\/p\u003e \u003cp\u003eDeletions and Rearrangements 98\u003c\/p\u003e \u003cp\u003eSuppressible Alleles 100\u003c\/p\u003e \u003cp\u003eTEs and Plant Domestication 103\u003c\/p\u003e \u003cp\u003eThe Dynamic Genome 108\u003c\/p\u003e \u003cp\u003eReferences 110\u003c\/p\u003e \u003cp\u003e\u003cb\u003eChapter 7 Imprinted Gene Expression and the Contribution of Transposable Elements 117\u003cbr\u003e\u003c\/b\u003e\u003ci\u003eMary A. Gehring\u003c\/i\u003e\u003c\/p\u003e \u003cp\u003eWhy are Genes Imprinted? 118\u003c\/p\u003e \u003cp\u003eThe Developmental Origin of Endosperm 118\u003c\/p\u003e \u003cp\u003eSelection for Imprinted Expression 121\u003c\/p\u003e \u003cp\u003ePrinciples Derived from the First Imprinted Gene 122\u003c\/p\u003e \u003cp\u003eGene Imprinting and Parent-of-Origin Effects on Seed Development 124\u003c\/p\u003e \u003cp\u003eWhat Genes are Imprinted? 124\u003c\/p\u003e \u003cp\u003eEpigenome Dynamics during Seed Development 127\u003c\/p\u003e \u003cp\u003eEpigenetic Landscape in Vegetative Tissues 127\u003c\/p\u003e \u003cp\u003eCytological Observations of Chromatin in Seeds 129\u003c\/p\u003e \u003cp\u003eEpigenomic Profiling in Seeds 130\u003c\/p\u003e \u003cp\u003eMechanisms of Gene Imprinting and the Relation to TEs 132\u003c\/p\u003e \u003cp\u003eTEs and Allele-Specific Imprinting 136\u003c\/p\u003e \u003cp\u003eInsights from Whole Genome Studies 137\u003c\/p\u003e \u003cp\u003eOutstanding Questions 138\u003c\/p\u003e \u003cp\u003eReferences 138\u003c\/p\u003e \u003cp\u003e\u003cb\u003eChapter 8 Transposons and Gene Creation 143\u003cbr\u003e\u003c\/b\u003e\u003ci\u003eHugo K. Dooner and Clifford F. Weil\u003c\/i\u003e\u003c\/p\u003e \u003cp\u003eIntroduction 143\u003c\/p\u003e \u003cp\u003eCapture of Gene Fragments by TEs and Formation of Chimeric Genes 144\u003c\/p\u003e \u003cp\u003eCo-Option of a TE Gene by the Host 148\u003c\/p\u003e \u003cp\u003eFusion of TE and Host Genes 150\u003c\/p\u003e \u003cp\u003eAlterations of Host Gene Sequences by TE Excisions 151\u003c\/p\u003e \u003cp\u003eAlterations of Host Coding Sequences by TE Insertions 152\u003c\/p\u003e \u003cp\u003eAcquisition by Host Genes of New Regulatory Sequences from TEs 153\u003c\/p\u003e \u003cp\u003eInteraction of TEs with Target Gene mRNA Splicing and Structure 155\u003c\/p\u003e \u003cp\u003eReshuffling of Host Sequences by Alternative Transpositions 156\u003c\/p\u003e \u003cp\u003eConclusion 158\u003c\/p\u003e \u003cp\u003eReferences 158\u003c\/p\u003e \u003cp\u003e\u003cb\u003eChapter 9 Transposons in Plant Speciation 165\u003cbr\u003e\u003c\/b\u003e\u003ci\u003eAvraham A. Levy\u003c\/i\u003e\u003c\/p\u003e \u003cp\u003eIntroduction 165\u003c\/p\u003e \u003cp\u003eGenetic Models of Speciation 165\u003c\/p\u003e \u003cp\u003eSpeciation – a Gradual or a Rapid Process? 166\u003c\/p\u003e \u003cp\u003eSpeciation Through Accumulation of Mutations 166\u003c\/p\u003e \u003cp\u003eDNA Cut-and-Paste TEs and Speciation 167\u003c\/p\u003e \u003cp\u003eCopy-and-Paste TEs and Speciation 168\u003c\/p\u003e \u003cp\u003eTE-Mediated Speciation – a Likely Scenario? 169\u003c\/p\u003e \u003cp\u003ePlant Speciation Through Hybridization and Allopolyploidization 169\u003c\/p\u003e \u003cp\u003eInduction of Transposition upon Hybridization and Polyploidization 170\u003c\/p\u003e \u003cp\u003eEpigenetic Alteration of TEs upon Hybridization and Polyploidization 170\u003c\/p\u003e \u003cp\u003eTranscriptional Activation of TEs upon Hybridization and Polyploidization 171\u003c\/p\u003e \u003cp\u003eAlterations in Small RNAs upon Hybridization and Polyploidization 171\u003c\/p\u003e \u003cp\u003eA Mechanistic Model for Responses to Genome Shock 172\u003c\/p\u003e \u003cp\u003eDysregulation of Gene Expression by Novel Interactions Between Regulatory Factors 173\u003c\/p\u003e \u003cp\u003eAltered Protein Complexes 174\u003c\/p\u003e \u003cp\u003eWhy TEs Become Activated when Cellular Processes are Dysregulated 174\u003c\/p\u003e \u003cp\u003eConclusions 175\u003c\/p\u003e \u003cp\u003eAcknowledgments 176\u003c\/p\u003e \u003cp\u003eReferences 176\u003c\/p\u003e \u003cp\u003e\u003cb\u003eChapter 10 Transposons, Genomic Shock, and Genome Evolution 181\u003cbr\u003e\u003c\/b\u003e\u003ci\u003eNina V. Fedoroff and Jeffrey L. Bennetzen\u003c\/i\u003e\u003c\/p\u003e \u003cp\u003eHow Transposons Came to be Called “Selfish” DNA 181\u003c\/p\u003e \u003cp\u003eThe “Selfish DNA” Label Stuck to Transposons 182\u003c\/p\u003e \u003cp\u003eTransposons Coevolved with Eukarotic Genomes 182\u003c\/p\u003e \u003cp\u003eSequence Duplication: The Real Innovation 183\u003c\/p\u003e \u003cp\u003eThe Facilitator: Epigenetic Control of Homologous Recombination 183\u003c\/p\u003e \u003cp\u003eEpigenetic Mechanisms, Duplication and Genome Evolution 185\u003c\/p\u003e \u003cp\u003ePlant Genome Organization: Gene Islands in a Sea of Repetitive DNA 186\u003c\/p\u003e \u003cp\u003eTransposon Neighborhoods and Insertion Site Selection 187\u003c\/p\u003e \u003cp\u003eGenome Evolution: Colinearity and Its Erosion 189\u003c\/p\u003e \u003cp\u003eGenome Contraction and Divergence of Intergenic Sequences 191\u003c\/p\u003e \u003cp\u003eTransposases Sculpt Genomes 192\u003c\/p\u003e \u003cp\u003eSmall Regulatory RNAs from Transposons 193\u003c\/p\u003e \u003cp\u003eGenome Shocks 194\u003c\/p\u003e \u003cp\u003eGenome Evolvability 195\u003c\/p\u003e \u003cp\u003eReferences 196\u003c\/p\u003e \u003cp\u003eIndex 203\u003c\/p\u003e  \u003cp\u003e“I do love books where the text points toward the future as well as distilling the past and present.  This volume does both.”  (\u003ci\u003eThe Quarterly Review of Biology\u003c\/i\u003e, 1 December 2014)\u003c\/p\u003e \u003cp\u003e \u003c\/p\u003e \u003cb\u003eNina V. Fedoroff\u003c\/b\u003e is Distinguished Professor of Biosciences, King Abdullah University of Science and Technology, and Evan Pugh Professor, Huck Institutes of Life Sciences, Penn State University. The transposable genetic elements, or transposons, as they are now known, have had a tumultuous history. Discovered in the mid-20th century by Barbara McClintock, they were initially received with puzzlement. When their genomic abundance began to be apparent, they were categorized as \"junk DNA\" and acquired the label of parasites. Expanding understanding of gene and genome organization has revealed the profound extent of their impact on both. \u003cp\u003e\u003ci\u003ePlant Transposons and Genome Dynamics in Evolution\u003c\/i\u003e captures and distills the voluminous research literature on plant transposable elements and seeks to assemble the big picture of how transposons shape gene structure and regulation, as well as how they sculpt genomes in evolution. Individual chapters provide concise overviews of the many flavors of plant transposons and of their roles in gene creation, gene regulation, development, genome evolution, and organismal speciation, as well as of their epigenetic regulation.\u003c\/p\u003e \u003cp\u003eThis volume is essential reading for anyone working in plant genetics, epigenetics, or evolutionary biology.\u003c\/p\u003e","brand":"Wiley-Blackwell","offers":[{"title":"Default Title","offer_id":47989798994149,"sku":"NP9780470959947","price":238.95,"currency_code":"USD","in_stock":false}],"thumbnail_url":"\/\/cdn.shopify.com\/s\/files\/1\/1842\/7735\/files\/9780470959947.jpg?v=1761785510","url":"https:\/\/k12savings.com\/es\/products\/plant-transposons-and-genome-dynamics-in-evolution-isbn-9780470959947","provider":"K12savings","version":"1.0","type":"link"}