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Advances in Wheat Genetics From Genome to Field - Yasunari Ogihara


Year 2015

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Part I Wheat Genetics: Past, Present, and FutureChapter 1 Prof. H. Kihara's Genome Concept and Advancements in Wheat Cytogenetics in His SchoolDiscovery of Polyploidy and Cytogenetics of Interploid Hybrids in WheatKihara's Genome Concept and Supporting EvidenceGenome Analysis and a Re-evaluation on Genome HomologyPlasmon Analysis as the Counter Part of Genome AnalysisPersistence of Genetic Effects of Ae. caudata Plasmon on Wheat PhenotypesReconstitution of Ae. caudata from Its Genome and Plasmon Separated for Half a Century and Paternal mtDNA Transmission in WheatChapter 2 How a Gene from Japan Revolutionized the World of Wheat: CIMMYT's Quest for Combining Genes to Mitigate Threats to Global Food SecurityThe Origins of Norin 10From Norin 10 to the Green RevolutionThe Impact of the Green RevolutionCIMMYT TodayConclusionPart II Germplasm and Genetic DiversityChapter 3 Genetic Resources of TriticumIntroductionParadigm ShiftsIn Situ as Opposed to Ex Situ Maintenance of PGRInclusion of Neglected and Underutilized Cultivated PlantsMethods of Analysing Diversity Within and Between TaxaMethods of EvaluationStorage and Reproduction in GenebanksOutlookChapter 4 Development of Core Set of Wheat (Triticum spp.) Germplasm Conserved in the National Genebank in IndiaIntroductionMaterial and MethodsExperimental Site and MaterialTraits StudiedStatistical AnalysisResults and DiscussionGenebank MaterialCore Set DevelopmentEvaluation of CoreValidation of CoreShannon-Weaver Diversity IndexConclusionsChapter 5 Transfer to Wheat of Potentially New Stem Rust Resistance Genes from Aegilops speltoidesIntroductionMaterials and MethodsResults and DiscussionChapter 6 Genetic Variation and Its Geographical Distribution in Aegilops caudata L.: Morphology, Hybrid Sterility and Gametocidal GenesGeographical Distribution of the Two VarietiesHybrid SterilityCytogenetic Differentiation into Western and Eastern Geographical GroupsGametocidal-Like Genes Cause the Sterility in Intraspecific F1 HybridsGenetic Control of the Diagnostic Morphology of the Two VarietiesGeographical Differentiation and Establishment of the Present Geographical Distribution in Ae. caudataPart III Cytogenetics and Allopolyploid EvolutionChapter 7 Wheat Chromosome AnalysisLaying the Foundation of Wheat Chromosome Research: Genome Analyzer MethodLaying the Foundation for Cytogenetic and Genome Mapping: The Wheat Aneuploid StocksLaying the Foundation for Analysis of Chromosome Structure: Chromosome Banding and In Situ Hybridization MethodsLaying the Foundation for Wheat Chromosome Manipulation: An Integrated Approach for Alien Genetic TransfersLooking to the FutureChapter 8 New Aneuploids of Common WheatAneuploids of Common WheatAdvanced Techniques to Check AneuploidsGametocidal MechanismDeletion Stocks of Common WheatDissection of Alien ChromosomesPCR-Based Mass Selection of Gc-Induced Deletions for Specific ChromosomesEpilogueChapter 9 Chromosomal Changes over the Course of Polyploid Wheat Evolution and DomesticationPart IV Toward Whole Genome SequencingChapter 10 Comprehensive Functional Analyses of Expressed Sequence Tags in Common WheatLarge-Scale Collection of Genes Expressed in Common WheatFunctional Analysis of ESTs in Common WheatFull-Length cDNA Collection in Common WheatIdentification of Standard Transcripts in Common WheatChromosome Assignment of Expressed Genes in Common WheatConclusionChapter 11 Development of the BAC Physical Maps of Wheat Chromosome 6B for Its Genomic SequencingGenome Sequencing Project for Chromosome 6BChromosome 6B-Specific BAC LibrariesBAC Contig ConstructionDevelopment of DNA Markers for Anchoring BAC Contigs to the Specific Genomic Regions on Chromosome 6BConcluding RemarksPart V Structural and Functional GenomicsChapter 12 Sequencing of Wheat Chromosome 6B: Toward Functional GenomicsChromosome by Chromosome SequencingSurvey Sequencing and Annotation of Chromosome 6BApplication of Chromosome 6B Sequences to Wheat GenomicsChapter 13 Genetic Mechanisms of Vernalization Requirement Duration in Winter Wheat CultivarsMaterials and MethodsResults and DiscussionThe vrn-A1 Gene Controlling Vernalization Requirement Duration in Winter Wheat CultivarsA Critical Point Mutation in vrn-A1 at the Protein LevelA Novel Haplotype of vrn-A1 at the Protein LevelDiverse VRN-A1 Proteins in Winter Wheat and Spring Wheat CultivarsApplication of Multiple Molecular Markers for VRN-A1Chapter 14 Building Ultra-Dense Genetic Maps in the Presence of Genotyping Errors and Missing DataIntroductionGeometry of Genotyping Space in the Presence of Marker Typing ErrorsThe Proposed Method and AlgorithmResults and DiscussionPart VI Functional Gene Analysis and Molecular ToolsChapter 15 Exploiting Comparative Biology and Genomics to Understand a Trait in Wheat, Ph1IntroductionThe Basic Chromosome Pairing and Recombination ProcessThe Power of a Cell Biological ExperimentPh1 Locus at a Molecular LevelWhat Pairing in Euploid Wheat Itself Tells Us?Independent Centromere PairingSummaryChapter 16 The Specific Features of Anthocyanin Biosynthesis Regulation in WheatIntroductionStructural Genes of Anthocyanin Biosynthesis in WheatGenes Determining Anthocyanin Pigmentation in Different Parts of Wheat PlantMapping of the Genes Determining Anthocyanin Pigmentation TraitsTranscriptional Analysis of Anthocyanin Biosynthesis Structural Genes in Different Wheat OrgansConclusionChapter 17 Association of Wheat miRNAs with Hybrid Incompatibility in Interspecific Crosses of Triticum and AegilopsHybrid Incompatibility in Higher PlantsAbnormal Phenotypes in Wheat HybridsWheat microRNAs and Their Association with Hybrid IncompatibilityChapter 18 High Efficiency Wheat Transformation Mediated by Agrobacterium tumefaciensIntroductionMaterials and MethodsResultsPreliminary StudyProduction of Transgenic WheatCharacterization of the Transgenic WheatDiscussionChapter 19 Extra Early-Flowering (exe) Mutants in Einkorn Wheat Generated by Heavy-Ion Beam IrradiationIntroductionIdentification of exe MutantsMorphological Characteristics of the exe MutantsHypothetical Model for Extra Early-Flowering PhenotypePart VII Biotic Stress ResponseChapter 20 Stem Rust Resistance: Two ApproachesIntroductionComparative Mapping of Ug99 Resistance on Chromosome 6DSSrCadSr42Other Sr Genes on Chromosome 6DS that Confer Resistance to Ug99 Stem RustConclusionChromosome 7D: Carrier of a Suppressor and a NonsuppressorA Suppressor of Stem Rust ResistanceAdult-Plant Resistance Genes Can Act as a NonsuppressorConclusionsConcluding RemarksChapter 21 Germplasm Enhancement for Resistance to Pyrenophora tritici-repentis in WheatChapter 22 Next Generation Sequencing Enabled Genetics in Hexaploid WheatIntroductionWheat GeneticsWheat GenomicsSNP Selection and Marker DesignHigh-Throughput GenotypingFinal RemarksPart VIII Abiotic Stress ResponseChapter 23 Genomics Approaches to Dissect the Genetic Basis of Drought Resistance in Durum WheatIntroductionDissecting the Genetic Basis of Drought Resistance in Durum WheatQTLs for Drought-Adaptive TraitsImproving Drought Resistance via Marker-Assisted SelectionFuture PerspectivesConclusionsChapter 24 Hybrid Breeding in WheatStatus Quo of Wheat Hybrid BreedingHybridization Systems in WheatAdvantages of Hybrids in Comparison to LinesPrediction of Hybrid Wheat PerformanceUpcoming Challenges for Wheat Hybrid BreedingChapter 25 Broadening the Genetic Diversity of Common and Durum Wheat for Abiotic Stress Tolerance BreedingChapter 26 Early Maturity in Wheat for Adaptation to High Temperature StressTemperature Stress and Wheat ProductionHeat Adaption StrategiesPerformance of Early Maturing Wheat LinesConclusionsChapter 27 Gene Expression Profiles Involved in Development of Freezing Tolerance in Common WheatWheat Cold Acclimation and Freezing ToleranceTranscriptome Analysis During Cold AcclimationFructan Biosynthesis Pathway and Freezing TolerancePart IX Improvement of Grain QualityChapter 28 Coping with Wheat Quality in a Changing Environment: Proteomics Evidence for Stress Caused by Environmental ChangesHigh Temperature Is a Major Factor Affecting Wheat ProductionExperiments Used for Heat Stress StudiesMain Proteomics Responses of Developing Wheat Grain to High TemperatureMajor Impacts of High Temperature on Energy Metabolism and Starch SynthesisSynthesis of Wheat Storage Proteins Is Not Drastically Affected by High TemperatureGlutenin Polymers Are Strongly Impacted by High TemperatureVariations in Dough Properties Resulting from High TemperatureSome Proposals to Cope with Wheat Quality in a Changing EnvironmentChapter 29 Starch Modification: A Model for Wheat MAS BreedingIntroductionWaxy Wheat (GBSSI Mutant)High Amylose Wheat (SSIIa Mutant)Sweet Wheat (GBSSI and SSIIa Mutant)Expanding Genotype Availability: Combining MutationsFuture DirectionsChapter 30 Quality Characteristics of Soft Kernel Durum; A New Cereal CropChapter 31 Proposal of International Gluten Research GroupCurrent Status of Glu-3 Allele NomenclatureSharing MaterialsSharing MethodsFunctional Analysis of Gluten ProteinsUnification with Durum Glu-3 AllelesGliadin AnalysisForming an International Gluten Research GroupFurther PerspectiveChapter 32 Enlargement of the Genetic Diversity for Grain Quality in Bread Wheat Through Alien IntrogressionChapter 33 Complex G × E Interactions and QTL Clusters Govern End-Use Quality Traits in Hexaploid WheatSelection for End-Use Quality Traits in Hexaploid Wheat: The ChallengesContributions of G, E and GEI Effects for DRT and BMQ TraitsTrait Correlations and the Influence of the EnvironmentClustering and Location-Specificity of BMQ and DRT QTLsConclusionsChapter 34 A Consistent QTL for Flour Yield on Chromosome 3B in the Soft Winter Wheat Variety, KitahonamiIntroductionMaterials and MethodsResults and DiscussionPart X Marker-Assisted BreedingChapter 35 Recent Improvements in Japanese Wheat VarietiesBackground: Domestic Wheat in JapanWheat Breeding in JapanMarker-Assisted Selection of Wheat Breeding in JapanChapter 36 Determining the Order of Resistance Genes Qsng-3BS, Fhb1 and Sr2 and Combining Them in Coupling on Wheat Chromosome 3BSIntroductionMaterials and MethodsResults and DiscussionChapter 37 Meta-analysis of Resistance to Fusarium Head Blight in Tetraploid Wheat: Implications for Durum Wheat BreedingIntroductionFHB Resistance in Durum WheatQTL Studies in Tetraploid WheatConclusions and PerspectivesChapter 38 Interest of a Multiparental and Outcrossing Wheat Population for Fine MappingIntroductionMaterials and MethodsResults and DiscussionChapter 39 The Effect of Earliness per se (Eps) Genes on Flowering Time in Bread WheatPart XI Toward Sustainable Wheat ProductionChapter 40 Recapitulating the OECD-CRP Session (Sponsored by the OECD's Co-operative Research Program on Biological Resource Management for Sustainable Agricultural Systems)Aim of This Session and Its Relation with OECD-CRPMajor Highlights of the PresentationsPart 1: Wheat Research for Sustainable Food Chain for Climate Change and Global Food SecurityPart 2: Enhancing Relevance and Efficiency of Wheat Science for the SocietyOutcomes/Conclusions in Terms of Policy RelevanceChapter 41 Exploring Genetic Resources to Increase Adaptation of Wheat to Climate ChangeIntroductionIdentify Crop Characteristics Conferring Stress AdaptationExploration of Genetic Resources for Adaptive Traits: LandracesInter-specific Hybridization to Broaden the Crop Gene PoolTransgenic ApproachesHigh Throughput and Precision PhenotypingStrategic Crossing to Achieve Cumulative Gene ActionConclusionsChapter 42 Genomic Approaches Towards Durable Fungal Disease Resistance in WheatGenomics in Wheat: New Tools and ResourcesNatural Diversity as a Rich Resource for Basic and Applied Wheat GeneticsTransgenic Strategies for a More Durable Use of Major Resistance GenesMolecular Studies on the Durable Wheat Resistance GeneLr34/Yr18/Pm38/Sr57New Tools for Resistance Breeding Based on Pathogen GenomicsConclusionsChapter 43 Review and New Progress in Wheat Wide Hybridization for Improving the Resistance to Biotic and Abiotic StressesResearch BackgroundThe Establishment of Breeding ProcedureThe First Released Variety, Xiaoyan 6The Second Released Variety, Xiaoyan 54The Third Released Varieties, Xiaoyan 81 and 60The Application of Partial AmphiploidsSynthesis and ConclusionChapter 44 Global Crop Improvement Networks to Bridge Technology GapsIntroductionMajor Objectives of IWINBreeding Methods and ApproachesGermplasm Distribution and Capacity DevelopmentVariety Release, Adoption and ImpactsBreeding ProgressFuture Directions and ProspectsChapter 45 Genomic Selection in Plants: Empirical Results and Implications for Wheat BreedingChapter 46 Dietary Fibre: Wheat Genes for Enhanced Human HealthWheat as a Source of Dietary FibreCell Wall Composition of WheatGenetic Variation and Heritability of AX ContentVariation in AX StructureGenes Responsible for AX Synthesis in Wheat EndospermIdentification of Candidate GenesRole of GT61 Genes in AX SynthesisRole of GT43 and GT47 Genes in AX SynthesisCombining Forward and Reverse Genetics to Develop Wheat with Enhanced Health Benefits
 
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