{"product_id":"genomic-selection-in-animals-hardback-9780470960073","title":"Genomic Selection in Animals (Hardback) 9780470960073","description":"\u003cfont face=\"Georgia\"\u003e\r\n\u003cp\u003e\u003cfont size=\"6\"\u003eGenomic Selection in Animals\u003c\/font\u003e\u003cbr\u003e\r\n\r\n\r\n\r\n\r\n\r\n\u003c\/p\u003e\n\u003cp\u003e\u003cfont size=\"4\"\u003eJoel Weller (Author)\u003c\/font\u003e\u003c\/p\u003e\r\n\r\n\u003cp\u003e\u003cfont size=\"3\"\u003e9780470960073, Wiley\u003c\/font\u003e\u003c\/p\u003e\r\n\r\n\u003cp\u003e\u003cfont size=\"3\"\u003eHardback, published 4 March 2016\u003c\/font\u003e\u003c\/p\u003e\r\n\r\n\u003cp\u003e\u003cfont size=\"3\"\u003e192 pages\u003cbr\u003e25.2 x 17.8 x 1.5 cm, 0.499 kg\u003c\/font\u003e\u003c\/p\u003e\r\n\r\n\r\n\r\n\u003cp align=\"justify\"\u003e\u003cem\u003e\u003cfont size=\"3\"\u003e\u003cp\u003e\"\u003ci\u003eGenomic Selection in Animals\u003c\/i\u003e is a well-written book by a leading animal quantitative geneticist...This book will be particularly useful for graduate students in animal breeding and genetics, and more broadly for professionals with an interest in understanding how genomic information is being incorporated into breeding programs...Overall, this book is a readable summary of the concepts and current methods underlying genomic selection and a useful reference that I recommend for those with an interest in this rapidly evolving field.\" (\u003cb\u003eJournal of the American Veterinary Medical Association\u003cb\u003e\u003c\/b\u003e 15\/03\/2017)\u003c\/b\u003e\u003c\/p\u003e\u003c\/font\u003e\u003c\/em\u003e\u003c\/p\u003e\r\n\r\n\u003cp align=\"justify\"\u003e\u003cstrong\u003e\u003cfont size=\"3\"\u003e\u003cp\u003eThe field of whole genome selection has quickly developed into the breeding methodology of the future. As efforts to map a wide variety of animal genomes have matured and full animal genomes are now available for many animal scientists and breeders are looking to apply these techniques to livestock production.\u003c\/p\u003e \u003cp\u003eProviding a comprehensive, forward-looking review of animal genomics, \u003ci\u003eGenomic Selection in Animals\u003c\/i\u003e provides coverage of genomic selection in a variety of economically important species including cattle, swine, and poultry. The historical foundations of genomic selection are followed by chapters that review and assess current techniques. The final chapter looks toward the future and what lies ahead for field as application of genomic selection becomes more widespread.\u003c\/p\u003e A concise, useful summary of the field by one of the world’s leading researchers, \u003ci\u003eGenomic Selection in Animals\u003c\/i\u003e fills an important gap in the literature of animal breeding and genomics.\u003c\/font\u003e\u003c\/strong\u003e\u003c\/p\u003e\r\n\r\n\u003cp\u003e\u003cfont size=\"3\"\u003e\u003cp\u003ePreface: Welcome to the “Promised Land” xiii\u003c\/p\u003e \u003cp\u003e\u003cb\u003eChapter 1 Historical Overview 1\u003c\/b\u003e\u003c\/p\u003e \u003cp\u003eIntroduction 1\u003c\/p\u003e \u003cp\u003eThe Mendelian Theory of Genetics 1\u003c\/p\u003e \u003cp\u003eThe Mendelian Basis of Quantitative Variation 2\u003c\/p\u003e \u003cp\u003eDetection of QTL with Morphological and Biochemical Markers 2\u003c\/p\u003e \u003cp\u003eDNA-Level Markers, 1974–1994 3\u003c\/p\u003e \u003cp\u003eDNA-Level Markers Since 1995: SNPs and CNV 4\u003c\/p\u003e \u003cp\u003eQTL Detection Prior to Genomic Selection 4\u003c\/p\u003e \u003cp\u003eMAS Prior to Genomic Selection 5\u003c\/p\u003e \u003cp\u003eSummary 6\u003c\/p\u003e \u003cp\u003e\u003cb\u003eChapter 2 Types of Current Genetic Markers and Genotyping Methodologies 7\u003c\/b\u003e\u003c\/p\u003e \u003cp\u003eIntroduction 7\u003c\/p\u003e \u003cp\u003eFrom Biochemical Markers to DNA]Level Markers 7\u003c\/p\u003e \u003cp\u003eDNA Microsatellites 8\u003c\/p\u003e \u003cp\u003eSingle Nucleotide Polymorphisms 8\u003c\/p\u003e \u003cp\u003eCopy Number Variation 9\u003c\/p\u003e \u003cp\u003eComplete Genome Sequencing 9\u003c\/p\u003e \u003cp\u003eSummary 10\u003c\/p\u003e \u003cp\u003e\u003cb\u003eChapter 3 Advanced Animal Breeding Programs Prior to Genomic Selection 11\u003c\/b\u003e\u003c\/p\u003e \u003cp\u003eIntroduction 11\u003c\/p\u003e \u003cp\u003eWithin a Breed Selection: Basic Principles and Equations 11\u003c\/p\u003e \u003cp\u003eTraditional Selection Schemes for Dairy Cattle 12\u003c\/p\u003e \u003cp\u003eCrossbreeding Schemes: Advantages and Disadvantages 14\u003c\/p\u003e \u003cp\u003eSummary 15\u003c\/p\u003e \u003cp\u003e\u003cb\u003eChapter 4 Economic Evaluation of Genetic Breeding Programs 17\u003c\/b\u003e\u003c\/p\u003e \u003cp\u003eIntroduction 17\u003c\/p\u003e \u003cp\u003eNational Economy versus Competition among Breeders 17\u003c\/p\u003e \u003cp\u003eCriteria for Economic Evaluation: Profit Horizon, Interest Rate, and Return on Investment 18\u003c\/p\u003e \u003cp\u003eSummary 20\u003c\/p\u003e \u003cp\u003e\u003cb\u003eChapter 5 Least Squares, Maximum Likelihood, and Bayesian Parameter Estimation 21\u003c\/b\u003e\u003c\/p\u003e \u003cp\u003eIntroduction 21\u003c\/p\u003e \u003cp\u003eLeast Squares Parameter Estimation 21\u003c\/p\u003e \u003cp\u003eML Estimation for a Single Parameter 22\u003c\/p\u003e \u003cp\u003eML Multiparameter Estimation 24\u003c\/p\u003e \u003cp\u003eMethods to Maximize Likelihood Functions 26\u003c\/p\u003e \u003cp\u003eConfidence Intervals and Hypothesis Testing for MLE 26\u003c\/p\u003e \u003cp\u003eBayesian Estimation 27\u003c\/p\u003e \u003cp\u003eParameter Estimation via the Gibbs Sampler 28\u003c\/p\u003e \u003cp\u003eSummary 29\u003c\/p\u003e \u003cp\u003e\u003cb\u003eChapter 6 Trait-Based Genetic Evaluation: The Mixed Model 31\u003c\/b\u003e\u003c\/p\u003e \u003cp\u003eIntroduction 31\u003c\/p\u003e \u003cp\u003ePrinciples of Selection Index 31\u003c\/p\u003e \u003cp\u003eThe Mixed Linear Model 34\u003c\/p\u003e \u003cp\u003eThe Mixed Model Equations 34\u003c\/p\u003e \u003cp\u003eSolving the Mixed Model Equations 35\u003c\/p\u003e \u003cp\u003eImportant Properties of Mixed Model Solutions 36\u003c\/p\u003e \u003cp\u003eMultivariate Mixed Model Analysis 37\u003c\/p\u003e \u003cp\u003eThe Individual Animal Model 38\u003c\/p\u003e \u003cp\u003eYield Deviations and Daughter Yield Deviations 39\u003c\/p\u003e \u003cp\u003eAnalysis of DYD as the Dependent Variable 40\u003c\/p\u003e \u003cp\u003eSummary 41\u003c\/p\u003e \u003cp\u003e\u003cb\u003eChapter 7 Maximum Likelihood and Bayesian Estimation of QTL Parameters with Random Effects Included in the Model 43\u003c\/b\u003e\u003c\/p\u003e \u003cp\u003eIntroduction 43\u003c\/p\u003e \u003cp\u003eMaximum Likelihood Estimation of QTL Effects with Random Effects Included in the Model, the Daughter Design 43\u003c\/p\u003e \u003cp\u003eThe Granddaughter Design 45\u003c\/p\u003e \u003cp\u003eDetermination of Prior Distributions of the QTL Parameters for the Granddaughter Design 46\u003c\/p\u003e \u003cp\u003eFormula for Bayesian Estimation and Tests of Significance of a Segregating QTL in a Granddaughter Design 49\u003c\/p\u003e \u003cp\u003eSummary 50\u003c\/p\u003e \u003cp\u003e\u003cb\u003eChapter 8 Maximum Likelihood, Restricted Maximum Likelihood, and Bayesian Estimation for Mixed Models 51\u003c\/b\u003e\u003c\/p\u003e \u003cp\u003eIntroduction 51\u003c\/p\u003e \u003cp\u003eDerivation of Solutions to the Mixed Model Equations by Maximum Likelihood 51\u003c\/p\u003e \u003cp\u003eEstimation of the Mixed Model Variance Components 52\u003c\/p\u003e \u003cp\u003eMaximum Likelihood Estimation of Variance Components 52\u003c\/p\u003e \u003cp\u003eRestricted Maximum Likelihood Estimation of Variance Components 54\u003c\/p\u003e \u003cp\u003eEstimation of Variance Components via the Gibbs Sampler 55\u003c\/p\u003e \u003cp\u003eSummary 58\u003c\/p\u003e \u003cp\u003e\u003cb\u003eChapter 9 Distribution of Genetic Effects, Theory, and Results 59\u003c\/b\u003e\u003c\/p\u003e \u003cp\u003eIntroduction 59\u003c\/p\u003e \u003cp\u003eModeling the Polygenic Variance 59\u003c\/p\u003e \u003cp\u003eThe Effective Number of QTL 61\u003c\/p\u003e \u003cp\u003eThe Case of the Missing Heritability 61\u003c\/p\u003e \u003cp\u003eMethods for Determination of Causative Mutations for QTL in Animals and Humans 62\u003c\/p\u003e \u003cp\u003eDetermination of QTN in Dairy Cattle 63\u003c\/p\u003e \u003cp\u003eEstimating the Number of Segregating QTL Based on Linkage Mapping Studies 64\u003c\/p\u003e \u003cp\u003eResults of Genome Scans of Dairy Cattle by Granddaughter Designs 65\u003c\/p\u003e \u003cp\u003eResults of Genome]Wide Association Studies in Dairy Cattle by SNP Chips 66\u003c\/p\u003e \u003cp\u003eSummary 66\u003c\/p\u003e \u003cp\u003e\u003cb\u003eChapter 10 The Multiple Comparison Problem 69\u003c\/b\u003e\u003c\/p\u003e \u003cp\u003eIntroduction 69\u003c\/p\u003e \u003cp\u003eMultiple Markers and Whole Genome Scans 69\u003c\/p\u003e \u003cp\u003eQTL Detection by Permutation Tests 71\u003c\/p\u003e \u003cp\u003eQTL Detection Based on the False Discovery Rate 71\u003c\/p\u003e \u003cp\u003eA Priori Determination of the Proportion of False Positives 74\u003c\/p\u003e \u003cp\u003eBiases with Estimation of Multiple QTL 75\u003c\/p\u003e \u003cp\u003eBayesian Estimation of QTL from Whole Genome Scans: Theory 76\u003c\/p\u003e \u003cp\u003eBayes A and Bayes B Models 77\u003c\/p\u003e \u003cp\u003eBayesian Estimation of QTL from Whole Genome Scans: Simulation Results 79\u003c\/p\u003e \u003cp\u003eSummary 80\u003c\/p\u003e \u003cp\u003e\u003cb\u003eChapter 11 Linkage Mapping of QTL 81\u003c\/b\u003e\u003c\/p\u003e \u003cp\u003eIntroduction 81\u003c\/p\u003e \u003cp\u003eInterval Mapping by Nonlinear Regression: The Backcross Design 81\u003c\/p\u003e \u003cp\u003eInterval Mapping for Daughter and Granddaughter Designs 83\u003c\/p\u003e \u003cp\u003eComputation of Confidence Intervals 84\u003c\/p\u003e \u003cp\u003eSimulation Studies of CIs 85\u003c\/p\u003e \u003cp\u003eEmpirical Methods to Estimate CIs, Parametric and Nonparametric Bootstrap, and Jackknife Methods 86\u003c\/p\u003e \u003cp\u003eSummary 87\u003c\/p\u003e \u003cp\u003e\u003cb\u003eChapter 12 Linkage Disequilibrium Mapping of QTL 89\u003c\/b\u003e\u003c\/p\u003e \u003cp\u003eIntroduction 89\u003c\/p\u003e \u003cp\u003eEstimation of Linkage Disequilibrium in Animal Populations 89\u003c\/p\u003e \u003cp\u003eLinkage Disequilibrium QTL Mapping: Basic Principles 90\u003c\/p\u003e \u003cp\u003eJoint Linkage and Linkage Disequilibrium Mapping 92\u003c\/p\u003e \u003cp\u003eMultitrait and Multiple QTL LD Mapping 93\u003c\/p\u003e \u003cp\u003eSummary 93\u003c\/p\u003e \u003cp\u003e\u003cb\u003eChapter 13 Marker-Assisted Selection: Basic Strategies 95\u003c\/b\u003e\u003c\/p\u003e \u003cp\u003eIntroduction 95\u003c\/p\u003e \u003cp\u003eSituations in Which Selection Index is Inefficient 95\u003c\/p\u003e \u003cp\u003ePotential Contribution of MAS for Selection within a Breed: General Considerations 96\u003c\/p\u003e \u003cp\u003ePhenotypic Selection versus MAS for Individual Selection 97\u003c\/p\u003e \u003cp\u003eMAS for Sex-Limited Traits 98\u003c\/p\u003e \u003cp\u003eMAS Including Marker and Phenotypic Information on Relatives 99\u003c\/p\u003e \u003cp\u003eMaximum Selection Efficiency of MAS with All QTL Known, Relative to\u003c\/p\u003e \u003cp\u003eTrait-Based Selection, and the Reduction in RSE Due to Sampling Variance 99\u003c\/p\u003e \u003cp\u003eMarker Information in Segregating Populations 100\u003c\/p\u003e \u003cp\u003eInclusion of Marker Information in “Animal Model” Genetic Evaluations 100\u003c\/p\u003e \u003cp\u003ePredicted Genetic Gains with Genomic Estimated Breeding Values: Results of Simulation Studies 101\u003c\/p\u003e \u003cp\u003eSummary 102\u003c\/p\u003e \u003cp\u003e\u003cb\u003eChapter 14 Genetic Evaluation Based on Dense Marker Maps: Basic Strategies 103\u003c\/b\u003e\u003c\/p\u003e \u003cp\u003eIntroduction 103\u003c\/p\u003e \u003cp\u003eThe Basic Steps in Genomic Evaluation 103\u003c\/p\u003e \u003cp\u003eEvaluation of Genomic Estimated Breeding Values 104\u003c\/p\u003e \u003cp\u003eSources of Bias in Genomic Evaluation 104\u003c\/p\u003e \u003cp\u003eMarker Effects Fixed or Random? 105\u003c\/p\u003e \u003cp\u003eIndividual Markers versus Haplotypes 106\u003c\/p\u003e \u003cp\u003eTotal Markers versus Usable Markers 106\u003c\/p\u003e \u003cp\u003eDeviation of Genotype Frequencies from Their Expectations 107\u003c\/p\u003e \u003cp\u003eInclusion of All Markers versus Selection of Markers with Significant Effects 107\u003c\/p\u003e \u003cp\u003eThe Genomic Relationship Matrix 108\u003c\/p\u003e \u003cp\u003eSummary 109\u003c\/p\u003e \u003cp\u003e\u003cb\u003eChapter 15 Genetic Evaluation Based on Analysis of Genetic Evaluations or Daughter-Yield Evaluations 111\u003c\/b\u003e\u003c\/p\u003e \u003cp\u003eIntroduction 111\u003c\/p\u003e \u003cp\u003eComparison of Single]Step and Multistep Models 111\u003c\/p\u003e \u003cp\u003eDerivation and Properties of Daughter Yields and DYD 112\u003c\/p\u003e \u003cp\u003eComputation of “Deregressed” Genetic Evaluations 113\u003c\/p\u003e \u003cp\u003eAnalysis of DYD as the Dependent Variable with All Markers Included as Random Effects 114\u003c\/p\u003e \u003cp\u003eComputation of Reliabilities for Genomic Estimated Breeding Values 116\u003c\/p\u003e \u003cp\u003eBayesian Weighting of Marker Effects 116\u003c\/p\u003e \u003cp\u003eAdditional Bayesian Methods for Genomic Evaluation 117\u003c\/p\u003e \u003cp\u003eSummary 117\u003c\/p\u003e \u003cp\u003e\u003cb\u003eChapter 16 Genomic Evaluation Based on Analysis of Production Records 119\u003c\/b\u003e\u003c\/p\u003e \u003cp\u003eIntroduction 119\u003c\/p\u003e \u003cp\u003eSingle-Step Methodologies: The Basic Strategy 119\u003c\/p\u003e \u003cp\u003eComputation of the Modified Relationship Matrix when only a Fraction of the Animals are Genotyped: The Problem 120\u003c\/p\u003e \u003cp\u003eCriteria for Valid Genetic Relationship Matrices 120\u003c\/p\u003e \u003cp\u003eComputation of the Modified Relationship Matrix when only a Fraction of the Animals are Genotyped, the Solution 121\u003c\/p\u003e \u003cp\u003eSolving the Mixed Model Equations without Inverting H 121\u003c\/p\u003e \u003cp\u003eInverting the Genomic Relationship Matrix 122\u003c\/p\u003e \u003cp\u003eEstimation of Reliabilities for Genomic Breeding Values Derived by Single]Step Methodologies 122\u003c\/p\u003e \u003cp\u003eSingle-Step Computation of Genomic Evaluations with Unequally Weighted Marker Effects 123\u003c\/p\u003e \u003cp\u003eSummary 124\u003c\/p\u003e \u003cp\u003e\u003cb\u003eChapter 17 Validation of Methods for Genomic Estimated Breeding Values 125\u003c\/b\u003e\u003c\/p\u003e \u003cp\u003eIntroduction 125\u003c\/p\u003e \u003cp\u003eCriteria for Evaluation of Estimated Genetic Values 125\u003c\/p\u003e \u003cp\u003eMethods Used to Validate Genomic Genetic Evaluations 126\u003c\/p\u003e \u003cp\u003eEvaluation of Two-Step Methodology Based on Simulated Dairy Cattle Data 127\u003c\/p\u003e \u003cp\u003eEvaluation of Multistep Methodology Based on Actual Dairy Cattle Data 127\u003c\/p\u003e \u003cp\u003eEvaluation of Single-Step Methodologies Based on Actual Dairy Cattle Data 128\u003c\/p\u003e \u003cp\u003eEvaluation of Single- and Multistep Methodologies Based on Actual Poultry Data 129\u003c\/p\u003e \u003cp\u003eEvaluation of Single- and Multistep Methodologies Based on Actual Swine Data 130\u003c\/p\u003e \u003cp\u003eEvaluation of GEBV for Plants Based on Actual Data 130\u003c\/p\u003e \u003cp\u003eSummary 131\u003c\/p\u003e \u003cp\u003e\u003cb\u003eChapter 18 By-Products of Genomic Analysis: Pedigree Validation and Determination 133\u003c\/b\u003e\u003c\/p\u003e \u003cp\u003eIntroduction 133\u003c\/p\u003e \u003cp\u003eThe Effects of Incorrect Parentage Identification on Breeding Programs 133\u003c\/p\u003e \u003cp\u003ePrinciples of Parentage Verification and Identification with Genetic Markers 134\u003c\/p\u003e \u003cp\u003ePaternity Validation Prior to High]Density SNP Chips 135\u003c\/p\u003e \u003cp\u003ePaternity Validation and Determination with SNP Chips 135\u003c\/p\u003e \u003cp\u003eValidation of More Distant Relationships 136\u003c\/p\u003e \u003cp\u003ePedigree Reconstruction with High]Density Genetic Markers 137\u003c\/p\u003e \u003cp\u003eSummary 137\u003c\/p\u003e \u003cp\u003e\u003cb\u003eChapter 19 Imputation of Missing Genotypes: Methodologies, Accuracies, and Effects on Genomic Evaluations 139\u003c\/b\u003e\u003c\/p\u003e \u003cp\u003eIntroduction 139\u003c\/p\u003e \u003cp\u003eDetermination of Haplotypes for Imputation 139\u003c\/p\u003e \u003cp\u003eImputation in Humans versus Imputation in Farm Animals 140\u003c\/p\u003e \u003cp\u003eAlgorithms Proposed for Imputation in Human and Animal Populations 141\u003c\/p\u003e \u003cp\u003eComparisons of Accuracy and Speed of Imputation Methods 142\u003c\/p\u003e \u003cp\u003eEffect of Imputation on Genomic Genetic Evaluations 143\u003c\/p\u003e \u003cp\u003eSummary 144\u003c\/p\u003e \u003cp\u003e\u003cb\u003eChapter 20 Detection and Validation of Quantitative Trait Nucleotides 145\u003c\/b\u003e\u003c\/p\u003e \u003cp\u003eIntroduction 145\u003c\/p\u003e \u003cp\u003eGWAS for Economic Traits in Commercial Animals 146\u003c\/p\u003e \u003cp\u003eDetection of QTN: Is It Worth the Effort? 146\u003c\/p\u003e \u003cp\u003eQTN Determination in Farm Animals: What Constitutes Proof? 147\u003c\/p\u003e \u003cp\u003eConcordance between DNA-Level Genotypes and QTL Status 148\u003c\/p\u003e \u003cp\u003eDetermination of Concordance by the “APGD” 148\u003c\/p\u003e \u003cp\u003eDetermination of Phase for Grandsires Heterozygous for the QTL 149\u003c\/p\u003e \u003cp\u003eDetermination of Recessive Lethal Genes by GWAS and Effects Associated with Heterozygotes 150\u003c\/p\u003e \u003cp\u003eVerification of QTN by Statistical and Biological Methods 150\u003c\/p\u003e \u003cp\u003eSummary 151\u003c\/p\u003e \u003cp\u003e\u003cb\u003eChapter 21 Future Directions and Conclusions 153\u003c\/b\u003e\u003c\/p\u003e \u003cp\u003eIntroduction 153\u003c\/p\u003e \u003cp\u003eMore Markers versus More Individuals with Genotypes 153\u003c\/p\u003e \u003cp\u003eComputation of Genomic Evaluations for Cow and Female Calves 154\u003c\/p\u003e \u003cp\u003eImprovement of Genomic Evaluation Methods 154\u003c\/p\u003e \u003cp\u003eLong-Term Considerations 155\u003c\/p\u003e \u003cp\u003eWeighting Evaluations of Old versus Young Bulls 156\u003c\/p\u003e \u003cp\u003eDirect Genetic Manipulation in Farm Animals 156\u003c\/p\u003e \u003cp\u003eVelogenetics: The Synergistic Use of MAS and Germ-Line Manipulation 157\u003c\/p\u003e \u003cp\u003eSummary 157\u003c\/p\u003e \u003cp\u003eReferences 159\u003c\/p\u003e \u003cp\u003eIndex 171\u003c\/p\u003e\u003c\/font\u003e\u003c\/p\u003e\r\n\r\n\u003cp\u003e\u003cfont size=\"3\"\u003eSubject Areas: Biology, life sciences [\u003ca title=\"See our other books on Biology, life sciences\" href=\"https:\/\/freshlyprintedbooks.co.uk\/search?q=%22Biology,%20life%20sciences%20%5BPS%5D%22\"\u003ePS\u003c\/a\u003e]\u003c\/font\u003e\u003c\/p\u003e\r\n\r\n\r\n\u003c\/font\u003e","brand":"Wiley-Blackwell","offers":[{"title":"Brand 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