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Achievements of the National Plant Genome Initiative and new horizons in plant biology [[electronic resource] /] / Committee on the National Plant Genome Initiative: Achievements and Future Directions, Board on Life Sciences, Board on Agriculture and Natural Resources, Division on Earth and Life Studies, National Research Council of the National Academies
| Achievements of the National Plant Genome Initiative and new horizons in plant biology [[electronic resource] /] / Committee on the National Plant Genome Initiative: Achievements and Future Directions, Board on Life Sciences, Board on Agriculture and Natural Resources, Division on Earth and Life Studies, National Research Council of the National Academies |
| Pubbl/distr/stampa | Washington, D.C., : National Academies Press, 2008 |
| Descrizione fisica | 1 online resource (182 p.) |
| Disciplina | 572.862 |
| Soggetto topico |
Plant genomes
Human-plant relationships |
| Soggetto genere / forma | Electronic books. |
| ISBN |
1-281-30018-7
9786611300180 0-309-11419-5 |
| Formato | Materiale a stampa  |
| Livello bibliografico | Monografia |
| Lingua di pubblicazione | eng |
| Nota di contenuto |
""Front Matter""; ""Preface""; ""Acknowledgments""; ""Contents""; ""Summary""; ""1 Introduction""; ""2 Assessment""; ""3 Recommendations and Goals: New Horizons in Plant Genomics""; ""Glossary""; ""References""; ""Appendixes""; ""A: Committee Biographies""; ""B: Publications in Genomics of the Top 40 Most-Cultivated Crops""; ""C: Questionnaire to Lead Principal Investigators of NPGI Grants""; ""D: Workshop on the National Plant Genome Initiative (Agenda)""; ""E: Summary of Grants Given by the National Plant Genome Initiative""
""F: List of Websites That Lead Principal Investigators of NPGI Grants Reported as the Top Five Websites Used for NPGI Research""""G: Impact Factor of Journals in Which Awardees of NPGI Grants Published Their Articles""; ""H: NPGI-Funded K-12 Outreach Activities with Broad Potential Impact""; ""I: Examples of Joint Call for Proposals and Co-funded Programs by IWG Members""; ""J: Examples of Interactions with Industry and Plant Breeders Reported by Principal Investigators of NPGI""; ""K: Tree Genomics or Molecular Genetics Support Provided by the U.S. Department of Agriculture Forest Service"" ""L: Number and Type of Mutants Distributed by the National Plant Germplasm System"" |
| Record Nr. | UNINA-9910454621803321 |
| Washington, D.C., : National Academies Press, 2008 | ||
| Materiale a stampa | ||
| Lo trovi qui: Univ. Federico II | ||
| ||
Achievements of the National Plant Genome Initiative and new horizons in plant biology [[electronic resource] /] / Committee on the National Plant Genome Initiative: Achievements and Future Directions, Board on Life Sciences, Board on Agriculture and Natural Resources, Division on Earth and Life Studies, National Research Council of the National Academies
| Achievements of the National Plant Genome Initiative and new horizons in plant biology [[electronic resource] /] / Committee on the National Plant Genome Initiative: Achievements and Future Directions, Board on Life Sciences, Board on Agriculture and Natural Resources, Division on Earth and Life Studies, National Research Council of the National Academies |
| Pubbl/distr/stampa | Washington, D.C., : National Academies Press, 2008 |
| Descrizione fisica | 1 online resource (182 p.) |
| Disciplina | 572.862 |
| Soggetto topico |
Plant genomes
Human-plant relationships |
| ISBN |
0-309-13421-8
1-281-30018-7 9786611300180 0-309-11419-5 |
| Formato | Materiale a stampa |
| Livello bibliografico | Monografia |
| Lingua di pubblicazione | eng |
| Nota di contenuto |
""Front Matter""; ""Preface""; ""Acknowledgments""; ""Contents""; ""Summary""; ""1 Introduction""; ""2 Assessment""; ""3 Recommendations and Goals: New Horizons in Plant Genomics""; ""Glossary""; ""References""; ""Appendixes""; ""A: Committee Biographies""; ""B: Publications in Genomics of the Top 40 Most-Cultivated Crops""; ""C: Questionnaire to Lead Principal Investigators of NPGI Grants""; ""D: Workshop on the National Plant Genome Initiative (Agenda)""; ""E: Summary of Grants Given by the National Plant Genome Initiative""
""F: List of Websites That Lead Principal Investigators of NPGI Grants Reported as the Top Five Websites Used for NPGI Research""""G: Impact Factor of Journals in Which Awardees of NPGI Grants Published Their Articles""; ""H: NPGI-Funded K-12 Outreach Activities with Broad Potential Impact""; ""I: Examples of Joint Call for Proposals and Co-funded Programs by IWG Members""; ""J: Examples of Interactions with Industry and Plant Breeders Reported by Principal Investigators of NPGI""; ""K: Tree Genomics or Molecular Genetics Support Provided by the U.S. Department of Agriculture Forest Service"" ""L: Number and Type of Mutants Distributed by the National Plant Germplasm System"" |
| Record Nr. | UNINA-9910782901203321 |
| Washington, D.C., : National Academies Press, 2008 | ||
| Materiale a stampa | ||
| Lo trovi qui: Univ. Federico II | ||
| ||
Achievements of the National Plant Genome Initiative and new horizons in plant biology / / Committee on the National Plant Genome Initiative: Achievements and Future Directions, Board on Life Sciences, Board on Agriculture and Natural Resources, Division on Earth and Life Studies, National Research Council of the National Academies
| Achievements of the National Plant Genome Initiative and new horizons in plant biology / / Committee on the National Plant Genome Initiative: Achievements and Future Directions, Board on Life Sciences, Board on Agriculture and Natural Resources, Division on Earth and Life Studies, National Research Council of the National Academies |
| Edizione | [1st ed.] |
| Pubbl/distr/stampa | Washington, D.C., : National Academies Press, 2008 |
| Descrizione fisica | 1 online resource (182 p.) |
| Disciplina | 572.862 |
| Soggetto topico |
Plant genomes
Human-plant relationships |
| ISBN |
9786611300180
9780309134217 0309134218 9781281300188 1281300187 9780309114196 0309114195 |
| Formato | Materiale a stampa |
| Livello bibliografico | Monografia |
| Lingua di pubblicazione | eng |
| Nota di contenuto |
""Front Matter""; ""Preface""; ""Acknowledgments""; ""Contents""; ""Summary""; ""1 Introduction""; ""2 Assessment""; ""3 Recommendations and Goals: New Horizons in Plant Genomics""; ""Glossary""; ""References""; ""Appendixes""; ""A: Committee Biographies""; ""B: Publications in Genomics of the Top 40 Most-Cultivated Crops""; ""C: Questionnaire to Lead Principal Investigators of NPGI Grants""; ""D: Workshop on the National Plant Genome Initiative (Agenda)""; ""E: Summary of Grants Given by the National Plant Genome Initiative""
""F: List of Websites That Lead Principal Investigators of NPGI Grants Reported as the Top Five Websites Used for NPGI Research""""G: Impact Factor of Journals in Which Awardees of NPGI Grants Published Their Articles""; ""H: NPGI-Funded K-12 Outreach Activities with Broad Potential Impact""; ""I: Examples of Joint Call for Proposals and Co-funded Programs by IWG Members""; ""J: Examples of Interactions with Industry and Plant Breeders Reported by Principal Investigators of NPGI""; ""K: Tree Genomics or Molecular Genetics Support Provided by the U.S. Department of Agriculture Forest Service"" ""L: Number and Type of Mutants Distributed by the National Plant Germplasm System"" |
| Record Nr. | UNINA-9910955545503321 |
| Washington, D.C., : National Academies Press, 2008 | ||
| Materiale a stampa | ||
| Lo trovi qui: Univ. Federico II | ||
| ||
The Carrot Genome / / edited by Philipp Simon, Massimo Iorizzo, Dariusz Grzebelus, Rafal Baranski
| The Carrot Genome / / edited by Philipp Simon, Massimo Iorizzo, Dariusz Grzebelus, Rafal Baranski |
| Edizione | [1st ed. 2019.] |
| Pubbl/distr/stampa | Cham : , : Springer International Publishing : , : Imprint : Springer, , 2019 |
| Descrizione fisica | 1 online resource (372 pages) |
| Disciplina |
572.862
635.13 |
| Collana | Compendium of Plant Genomes |
| Soggetto topico |
Plant genetics
Plant breeding Agriculture Bioinformatics Plant physiology Plant Genetics and Genomics Plant Breeding/Biotechnology Plant Physiology |
| ISBN | 3-030-03389-9 |
| Formato | Materiale a stampa |
| Livello bibliografico | Monografia |
| Lingua di pubblicazione | eng |
| Nota di contenuto | Economic and Academic Importance -- Daucus: Taxonomy, Phylogeny, Distribution -- Carrot floral development and reproductive biology -- Gene Flow in Carrot -- Carrot Domestication -- Genetic Resources for Carrot Improvement -- Carrot Molecular Genetics and Mapping. |
| Record Nr. | UNINA-9910337939403321 |
| Cham : , : Springer International Publishing : , : Imprint : Springer, , 2019 | ||
| Materiale a stampa | ||
| Lo trovi qui: Univ. Federico II | ||
| ||
The Duckweed Genomes / / edited by Xuan Hieu Cao, Paul Fourounjian, Wenqin Wang
| The Duckweed Genomes / / edited by Xuan Hieu Cao, Paul Fourounjian, Wenqin Wang |
| Edizione | [1st ed. 2020.] |
| Pubbl/distr/stampa | Cham : , : Springer International Publishing : , : Imprint : Springer, , 2020 |
| Descrizione fisica | 1 online resource (XVIII, 185 p. 30 illus., 21 illus. in color.) |
| Disciplina | 572.862 |
| Collana | Compendium of Plant Genomes |
| Soggetto topico |
Plant genetics
Plant breeding Agriculture Plant Genetics and Genomics Plant Breeding/Biotechnology |
| ISBN | 3-030-11045-1 |
| Formato | Materiale a stampa |
| Livello bibliografico | Monografia |
| Lingua di pubblicazione | eng |
| Nota di contenuto | Importance of duckweeds in basic research and its industrial applications -- Background history of the international Spirodela genome sequencing initiatives -- Cytogenetics and karyotype evolution of duckweeds -- Duckweed organelle genomes -- Repetitive sequences: Impacts and uses in the Spirodela genome -- Genotyping by sequencing of duckweeds -- Genome and transcriptome of Landoltia punctata -- Transcriptome responses of Spirodela polyrhiza -- Strategies & tools for sequencing duckweeds -- Transformation development in duckweeds. |
| Record Nr. | UNINA-9910373938303321 |
| Cham : , : Springer International Publishing : , : Imprint : Springer, , 2020 | ||
| Materiale a stampa | ||
| Lo trovi qui: Univ. Federico II | ||
| ||
The Eggplant Genome / / edited by Mark A. Chapman
| The Eggplant Genome / / edited by Mark A. Chapman |
| Edizione | [1st ed. 2019.] |
| Pubbl/distr/stampa | Cham : , : Springer International Publishing : , : Imprint : Springer, , 2019 |
| Descrizione fisica | 1 online resource (228 pages) |
| Disciplina | 572.862 |
| Collana | Compendium of Plant Genomes |
| Soggetto topico |
Plant genetics
Plant breeding Agriculture Plant Genetics and Genomics Plant Breeding/Biotechnology |
| ISBN | 3-319-99208-2 |
| Formato | Materiale a stampa |
| Livello bibliografico | Monografia |
| Lingua di pubblicazione | eng |
| Nota di contenuto | Economic/Academic importance -- Botanical descriptions/cytology -- Classical genetics and traditional breeding -- Genetic basis of nutrition -- Molecular mapping - comparison to other crops -- Molecular mapping of genes & QTLs/Association Mapping -- Structural & functional genomic resources developed -- The draft genome -- Background history of the genome initiatives. Strategies for sequencing -- Repetitive sequences, gene annotation, gene families, genome duplication -- Synteny with allied & model genomes -- Other domesticated eggplants -- Domestication genomics -- Impact on germplasm characterization & gene discovery -- Impact on plant breeding -- Future prospects. |
| Record Nr. | UNINA-9910337946503321 |
| Cham : , : Springer International Publishing : , : Imprint : Springer, , 2019 | ||
| Materiale a stampa | ||
| Lo trovi qui: Univ. Federico II | ||
| ||
Genetics and Genomics of Cucurbitaceae / / edited by Rebecca Grumet, Nurit Katzir, Jordi Garcia-Mas
| Genetics and Genomics of Cucurbitaceae / / edited by Rebecca Grumet, Nurit Katzir, Jordi Garcia-Mas |
| Edizione | [1st ed. 2017.] |
| Pubbl/distr/stampa | Cham : , : Springer International Publishing : , : Imprint : Springer, , 2017 |
| Descrizione fisica | 1 online resource (XIII, 430 p. 61 illus. in color.) |
| Disciplina | 572.862 |
| Collana | Plant Genetics and Genomics: Crops and Models |
| Soggetto topico |
Plant genetics
Plant biotechnology Plant physiology Plants - Evolution Plants - Development Plant diseases Plant Genetics Plant Biotechnology Plant Physiology Plant Evolution Plant Development Plant Pathology |
| ISBN | 3-319-49332-9 |
| Formato | Materiale a stampa |
| Livello bibliografico | Monografia |
| Lingua di pubblicazione | eng |
| Nota di contenuto | Introduction -- Cultivation and uses of cucurbits -- Evolution and phylogeny of the cucurbits -- Genetic Resources of Melon -- Genetic resources of cucumber -- Genetic resources of watermelon -- Genetic resources of Cucurbita spp -- Genetic resources for minor cucurbit crops -- Genetic mapping of complex traits in cucurbits (populations, genetic maps and traits) -- The melon genome -- The cucumber genome -- The watermelon genome -- Cucurbita genome(s) -- The genome of minor cucurbit crops -- Comparative genomics of the Cucurbitaceae -- Organellar genomes of the cucurbits -- Databases and bioinformatics for cucurbit species -- Cucurbit mutants and tilling populations -- Genetic transformation of cucurbit species -- VIGS and functional analyses -- Phloem -- Grafting -- Floral sex expression -- Fruit growth and development -- Fruit quality -- Genomic/transcriptomic analysis -- Sugar and organic acids -- Aroma -- Color -- Fruit ripening -- Disease resistance -- Phytochemistry -- Abiotic stress -- Bridging classical and genomic approaches to cucurbit breeding -- Opportunities for genomic applications to cucurbit breeding. |
| Record Nr. | UNINA-9910253957403321 |
| Cham : , : Springer International Publishing : , : Imprint : Springer, , 2017 | ||
| Materiale a stampa | ||
| Lo trovi qui: Univ. Federico II | ||
| ||
Genotyping by sequencing for crop improvement / / edited by Humira Sonah [and three others]
| Genotyping by sequencing for crop improvement / / edited by Humira Sonah [and three others] |
| Pubbl/distr/stampa | Hoboken, New Jersey : , : John Wiley & Sons, , [2021] |
| Descrizione fisica | 1 online resource (402 pages) |
| Disciplina | 572.862 |
| Soggetto topico |
Gene mapping
Genetics - Technique Genomics |
| Soggetto genere / forma | Electronic books. |
| ISBN |
1-119-74568-3
1-119-74566-7 1-119-74567-5 |
| Formato | Materiale a stampa |
| Livello bibliografico | Monografia |
| Lingua di pubblicazione | eng |
| Nota di contenuto |
Cover -- Title Page -- Copyright Page -- Contents -- List of Contributors -- Preface -- Chapter 1 Molecular Marker Techniques and Recent Advancements -- 1.1 Introduction -- 1.2 What is a Molecular Marker? -- 1.3 Classes of Molecular Markers -- 1.3.1 Hybridization-based Markers -- 1.3.1.1 Restriction Fragment Length Polymorphism (RFLP) -- 1.3.1.2 Diversity Array Technology (DArT™) -- 1.3.2 Polymerase Chain Reaction (PCR)-based Markers -- 1.3.2.1 Simple-Sequence Repeats (SSRs) -- 1.3.2.2 Sequence-Tagged Sites (STSs) -- 1.3.2.3 Randomly Amplified Polymorphic DNAs (RAPDs) -- 1.3.2.4 Sequence Characterized Amplified Regions (SCARs) -- 1.3.2.5 Amplified Fragment Length Polymorphism (AFLP) -- 1.3.2.6 Expressed Sequence Tags (ESTs) -- 1.4 Sequencing-based Markers -- 1.4.1 Single-Nucleotide Polymorphisms (SNPs) -- 1.4.2 Identification of SNP in a Pregenomic Era -- 1.5 Recent Advances in Molecular Marker Technologies -- 1.5.1 Genotyping-by-Sequencing (GBS) -- 1.5.2 Whole-Genome Resequencing (WGR) -- 1.5.3 SNP Arrays -- 1.5.4 Kompetitive Allele-Specific PCR (KASP™) -- 1.6 SNP Databases -- 1.7 Application of Molecular Markers -- 1.7.1 Application of Molecular Markers in Crop Improvement -- 1.7.2 Role of Molecular Markers in Germplasm Characterization -- 1.7.3 Deployment of Molecular Markers in Plant Variety Protection and Registration -- 1.8 Summary -- References -- Chapter 2 High-throughput Genotyping Platforms -- 2.1 Introduction -- 2.2 SNP Genotyping Platforms -- 2.2.1 SNP Genotyping Versus SNP Discovery -- 2.2.2 Types of SNP Genotyping Platforms -- 2.2.2.1 Allelic Discrimination -- 2.2.2.2 Allelic Detection -- 2.2.3 Custom Assay Technologies -- 2.2.4 Summary -- References -- Chapter 3 Opportunity and Challenges for Whole-Genome Resequencing-based Genotyping in Plants -- 3.1 Introduction.
3.2 Basic Steps Involved in Whole-Genome Sequencing and Resequencing -- 3.3 Whole-Genome Resequencing Mega Projects in Different Crops -- 3.3.1 1K Arabidopsis Genomes Resequencing Project -- 3.3.2 3K Rice Genomes Resequencing Project -- 3.3.3 Soybean Whole-Genome Resequencing -- 3.3.4 Chickpea -- 3.3.5 Pigeon pea -- 3.3.6 Vitis -- 3.4 Whole-Genome Pooled Sequencing -- 3.5 Pinpointing Gene Through Whole-Genome Resequencing-based QTL Mapping -- 3.6 Online Resources for Whole-Genome Resequencing Data -- 3.6.1 SNP Seek -- 3.6.2 Rice Functional and Genomic Breeding -- 3.6.3 Genome Variation Map -- 3.7 Applications and Successful Examples of Whole-Genome Resequencing -- 3.8 Challenges for Whole-Genome Resequencing Studies -- 3.9 Summary -- References -- Chapter 4 QTL Mapping Using Advanced Mapping Populations and High-throughput Genotyping -- 4.1 Introduction -- 4.2 The Basic Objectives of QTL Mapping -- 4.3 QTL Mapping Procedure -- 4.4 The General Steps for QTL Mapping -- 4.5 Factors Influencing QTL Analysis -- 4.6 QTL Mapping Approaches -- 4.7 Statistical Methods for QTL Mapping -- 4.8 Software for QTL Mapping -- 4.9 Bi-parental Mapping Populations -- 4.10 QTL Mapping Using Bi-parental Populations -- 4.11 Multiparental Mapping Populations -- 4.11.1 Nested Association Mapping (NAM) -- 4.11.2 Multi-advanced Generation Inter-cross Populations (MAGIC) -- 4.12 QTL Mapping Using Multiparental Populations -- 4.13 Use of High-throughput Genotyping for QTL Mapping -- 4.13.1 PCR-based SNP Genotyping -- 4.14 Next-Generation Sequencing-based Genotyping -- 4.14.1 Restriction-Site-Associated DNA Sequencing (RAD-seq) -- 4.14.2 Genotyping-by-Sequencing -- 4.14.3 Whole-Genome Resequencing -- 4.15 Challenges with QTL Mapping Using Multiparental Populations and High-throughput Genotyping -- References. Chapter 5 Genome-Wide Association Study: Approaches, Applicability, and Challenges -- 5.1 Introduction -- 5.2 Methodology to Conduct GWAS in Crops -- 5.3 Statistical Modeling in GWAS -- 5.4 Efficiency of GWAS with Different Marker Types -- 5.5 Computational Tools for GWAS -- 5.6 GWAS Challenges for Complex Traits -- 5.7 Factors Challenging the GWAS for Complex Traits -- 5.8 GWAS Applications in Major Crops -- 5.8.1 Maize -- 5.8.2 Rice -- 5.8.3 Wheat -- 5.8.4 Barley -- 5.8.5 Pearl Millet -- 5.8.6 Sugarcane -- 5.9 Candidate Gene Identification at GWAS Loci -- 5.10 Meta-GWAS -- 5.11 GWAS vs. QTL Mapping -- References -- Chapter 6 Genotyping of Seeds While Preserving Their Viability -- 6.1 Introduction -- 6.1.1 Genotyping -- 6.1.2 Genotyping-by-Sequencing -- 6.2 Genotyping-by-Sequencing with Minimum DNA -- 6.3 DNA Extraction from Half Grain -- 6.3.1 DNA Extraction from Rice Seeds -- 6.3.2 DNA Extraction from Wheat and Barley Seeds -- 6.3.3 DNA Extraction from Maize Seeds -- 6.3.4 DNA Extraction from Soybean Seeds -- 6.3.5 DNA Extraction from Cotton Seeds -- 6.3.6 DNA Extraction from Papaya Seeds -- 6.3.7 DNA Extraction from Watermelon Seeds -- 6.4 GBS with Half Seed -- 6.5 Applications of GBS as Diagnostic Tool -- 6.5.1 Germplasm Conservation and Quality Control -- 6.5.2 Tracking Crop Varieties -- 6.5.3 Sex Determination -- 6.5.4 Transgenic Detection -- 6.5.5 Detection of Seed-borne Diseases -- 6.6 Summary -- References -- Chapter 7 Genomic Selection: Advances, Applicability, and Challenges -- 7.1 Introduction -- 7.2 Natural Selection -- 7.3 Breeding Selection -- 7.4 Marker-assisted Selection -- 7.5 Genomic Selection -- 7.6 Genotyping for Genomic Selection -- 7.7 Integration of Genomic Selection in MAS Program -- 7.8 The Efficiency of Genomic Selection for Complex Traits -- 7.9 Integration of Genomic Selection in the Varietal Trial Program. 7.10 Cost Comparison of GS vs MAS -- References -- Chapter 8 Analytical Pipelines for the GBS Analysis -- 8.1 Introduction -- 8.2 Applications of NGS -- 8.3 NGS Sequencing Platforms -- 8.3.1 Sequencing by Synthesis -- 8.3.1.1 Roche 454 Pyrosequencing -- 8.3.1.2 Illumina -- 8.3.1.3 Ion Torrent -- 8.3.2 Sequencing by Ligation -- 8.3.2.1 SOLiD -- 8.3.2.2 Polonator -- 8.3.3 Single-Molecule Sequencing -- 8.3.3.1 Helicos -- 8.3.3.2 Pacific Bioscience -- 8.3.3.3 ChIP-Sequencing -- 8.4 Tools for NGS Data Analysis -- 8.5 Generalized Procedure for NGS Data Analysis -- 8.5.1 Assessment of Quality -- 8.5.2 Aligning Sequences -- 8.5.3 Identification of Variants -- 8.6 Variant Annotation -- 8.6.1 Visualization of NGS Data -- 8.7 Role of NGS Informatics in Identifying Variants -- 8.8 Genotyping by Sequencing -- 8.9 Analytical Pipelines for GBS -- 8.10 Comparison of GBS Pipelines -- References -- Chapter 9 Recent Advances and Applicability of GBS, GWAS, and GS in Maize -- 9.1 Introduction -- 9.2 Maize Genetics -- 9.3 Importance of Genomics and Genotyping-based Applications in Maize Breeding Programs -- 9.4 GBS-based QTL Mapping in Maize -- 9.5 GBS Protocols and Analytical Pipelines for Maize -- 9.6 Maize Genome Sequencing and Resequencing -- 9.6.1 Maize Resequencing -- 9.7 Genotyping-by-Sequencing-based GWAS and GS Efforts in Maize -- 9.8 Summary -- References -- Chapter 10 Recent Advances and Applicability of GBS, GWAS, and GS in Soybean -- 10.1 Introduction -- 10.1.1 Importance of Soybean for Global Food Security -- 10.1.2 Challenges in Soybean Production -- 10.1.3 Soybean Genetic Improvement -- 10.2 GBS Efforts in Soybean -- 10.3 High-Density Linkage Maps in Soybean -- 10.4 GBS Protocols and Analytical Pipelines for Soybean -- 10.5 GBS-based QTL Mapping Efforts in Soybean -- 10.6 Soybean Genome Sequencing and Resequencing -- 10.7 GBS-based GWAS Efforts in Soybean. 10.7.1 The General Procedure for Association Mapping -- 10.7.2 Approaches Used for Association Studies -- 10.8 GBS-based Genomic Selection Efforts in Soybean -- References -- Chapter 11 Advances and Applicability of Genotyping Technologies in Cotton Improvement -- 11.1 Introduction -- 11.2 Challenges due to Polyploidy in Cotton -- 11.3 Applications of Genomics and Genotyping for Cotton Breeding Programs -- 11.4 Genotyping Efforts in Cotton -- 11.5 High-Density Linkage Maps in Cotton -- 11.6 Whole-Genome Sequencing of Cotton Germplasm -- 11.7 Application of GBS Technology in Cotton Research -- 11.8 GBS-based Bi-Parental QTL Mapping and Association Mapping in Cotton -- 11.9 Summary and Outlook -- References -- Chapter 12 Recent Advances and Applicability of GBS, GWAS, and GS in Millet Crops* -- 12.1 Introduction -- 12.2 GBS Efforts in Millet Crops -- 12.3 High-density Linkage Maps in Millet Crops -- 12.4 GBS-based QTL Mapping Efforts in Millet Crops -- 12.5 Genome Sequencing and Resequencing of Millet Crops -- 12.5.1 Pearl Millet -- 12.5.2 Broomcorn Millet -- 12.5.3 Finger Millet -- 12.5.4 Foxtail Millet -- 12.5.5 Sorghum -- 12.6 GBS-based GWAS Efforts in Millet Crops -- 12.7 GBS-based Genomic Selection (GS) Efforts in Millet Crops -- 12.8 Summary -- References -- Chapter 13 Recent Advances and Applicability of GBS, GWAS, and GS in Pigeon Pea -- 13.1 Introduction -- 13.2 Pigeon Pea Sequencing and Resequencing -- 13.3 Development of Pigeon Pea High-density Genotyping Platforms -- 13.4 Development of High-density Linkage Maps in Pigeon Pea -- 13.5 QTL Analysis Using High-density Genotyping Platforms and GBS -- 13.6 GWAS Efforts in Pigeon Pea -- 13.7 Genomic Selection (GS) Efforts in Pigeon Pea -- 13.8 Summary -- References -- Chapter 14 Opportunity and Challenges for High-throughput Genotyping in Sugarcane -- 14.1 Introduction. 14.2 Sugarcane Genome and Genetics. |
| Record Nr. | UNINA-9910566698603321 |
| Hoboken, New Jersey : , : John Wiley & Sons, , [2021] | ||
| Materiale a stampa | ||
| Lo trovi qui: Univ. Federico II | ||
| ||
Genotyping by sequencing for crop improvement / / edited by Humira Sonah [and three others]
| Genotyping by sequencing for crop improvement / / edited by Humira Sonah [and three others] |
| Pubbl/distr/stampa | Hoboken, New Jersey : , : John Wiley & Sons, , [2021] |
| Descrizione fisica | 1 online resource (402 pages) |
| Disciplina | 572.862 |
| Soggetto topico |
Gene mapping
Genetics - Technique Genomics |
| ISBN |
1-119-74568-3
1-119-74566-7 1-119-74567-5 |
| Formato | Materiale a stampa |
| Livello bibliografico | Monografia |
| Lingua di pubblicazione | eng |
| Nota di contenuto |
Cover -- Title Page -- Copyright Page -- Contents -- List of Contributors -- Preface -- Chapter 1 Molecular Marker Techniques and Recent Advancements -- 1.1 Introduction -- 1.2 What is a Molecular Marker? -- 1.3 Classes of Molecular Markers -- 1.3.1 Hybridization-based Markers -- 1.3.1.1 Restriction Fragment Length Polymorphism (RFLP) -- 1.3.1.2 Diversity Array Technology (DArT™) -- 1.3.2 Polymerase Chain Reaction (PCR)-based Markers -- 1.3.2.1 Simple-Sequence Repeats (SSRs) -- 1.3.2.2 Sequence-Tagged Sites (STSs) -- 1.3.2.3 Randomly Amplified Polymorphic DNAs (RAPDs) -- 1.3.2.4 Sequence Characterized Amplified Regions (SCARs) -- 1.3.2.5 Amplified Fragment Length Polymorphism (AFLP) -- 1.3.2.6 Expressed Sequence Tags (ESTs) -- 1.4 Sequencing-based Markers -- 1.4.1 Single-Nucleotide Polymorphisms (SNPs) -- 1.4.2 Identification of SNP in a Pregenomic Era -- 1.5 Recent Advances in Molecular Marker Technologies -- 1.5.1 Genotyping-by-Sequencing (GBS) -- 1.5.2 Whole-Genome Resequencing (WGR) -- 1.5.3 SNP Arrays -- 1.5.4 Kompetitive Allele-Specific PCR (KASP™) -- 1.6 SNP Databases -- 1.7 Application of Molecular Markers -- 1.7.1 Application of Molecular Markers in Crop Improvement -- 1.7.2 Role of Molecular Markers in Germplasm Characterization -- 1.7.3 Deployment of Molecular Markers in Plant Variety Protection and Registration -- 1.8 Summary -- References -- Chapter 2 High-throughput Genotyping Platforms -- 2.1 Introduction -- 2.2 SNP Genotyping Platforms -- 2.2.1 SNP Genotyping Versus SNP Discovery -- 2.2.2 Types of SNP Genotyping Platforms -- 2.2.2.1 Allelic Discrimination -- 2.2.2.2 Allelic Detection -- 2.2.3 Custom Assay Technologies -- 2.2.4 Summary -- References -- Chapter 3 Opportunity and Challenges for Whole-Genome Resequencing-based Genotyping in Plants -- 3.1 Introduction.
3.2 Basic Steps Involved in Whole-Genome Sequencing and Resequencing -- 3.3 Whole-Genome Resequencing Mega Projects in Different Crops -- 3.3.1 1K Arabidopsis Genomes Resequencing Project -- 3.3.2 3K Rice Genomes Resequencing Project -- 3.3.3 Soybean Whole-Genome Resequencing -- 3.3.4 Chickpea -- 3.3.5 Pigeon pea -- 3.3.6 Vitis -- 3.4 Whole-Genome Pooled Sequencing -- 3.5 Pinpointing Gene Through Whole-Genome Resequencing-based QTL Mapping -- 3.6 Online Resources for Whole-Genome Resequencing Data -- 3.6.1 SNP Seek -- 3.6.2 Rice Functional and Genomic Breeding -- 3.6.3 Genome Variation Map -- 3.7 Applications and Successful Examples of Whole-Genome Resequencing -- 3.8 Challenges for Whole-Genome Resequencing Studies -- 3.9 Summary -- References -- Chapter 4 QTL Mapping Using Advanced Mapping Populations and High-throughput Genotyping -- 4.1 Introduction -- 4.2 The Basic Objectives of QTL Mapping -- 4.3 QTL Mapping Procedure -- 4.4 The General Steps for QTL Mapping -- 4.5 Factors Influencing QTL Analysis -- 4.6 QTL Mapping Approaches -- 4.7 Statistical Methods for QTL Mapping -- 4.8 Software for QTL Mapping -- 4.9 Bi-parental Mapping Populations -- 4.10 QTL Mapping Using Bi-parental Populations -- 4.11 Multiparental Mapping Populations -- 4.11.1 Nested Association Mapping (NAM) -- 4.11.2 Multi-advanced Generation Inter-cross Populations (MAGIC) -- 4.12 QTL Mapping Using Multiparental Populations -- 4.13 Use of High-throughput Genotyping for QTL Mapping -- 4.13.1 PCR-based SNP Genotyping -- 4.14 Next-Generation Sequencing-based Genotyping -- 4.14.1 Restriction-Site-Associated DNA Sequencing (RAD-seq) -- 4.14.2 Genotyping-by-Sequencing -- 4.14.3 Whole-Genome Resequencing -- 4.15 Challenges with QTL Mapping Using Multiparental Populations and High-throughput Genotyping -- References. Chapter 5 Genome-Wide Association Study: Approaches, Applicability, and Challenges -- 5.1 Introduction -- 5.2 Methodology to Conduct GWAS in Crops -- 5.3 Statistical Modeling in GWAS -- 5.4 Efficiency of GWAS with Different Marker Types -- 5.5 Computational Tools for GWAS -- 5.6 GWAS Challenges for Complex Traits -- 5.7 Factors Challenging the GWAS for Complex Traits -- 5.8 GWAS Applications in Major Crops -- 5.8.1 Maize -- 5.8.2 Rice -- 5.8.3 Wheat -- 5.8.4 Barley -- 5.8.5 Pearl Millet -- 5.8.6 Sugarcane -- 5.9 Candidate Gene Identification at GWAS Loci -- 5.10 Meta-GWAS -- 5.11 GWAS vs. QTL Mapping -- References -- Chapter 6 Genotyping of Seeds While Preserving Their Viability -- 6.1 Introduction -- 6.1.1 Genotyping -- 6.1.2 Genotyping-by-Sequencing -- 6.2 Genotyping-by-Sequencing with Minimum DNA -- 6.3 DNA Extraction from Half Grain -- 6.3.1 DNA Extraction from Rice Seeds -- 6.3.2 DNA Extraction from Wheat and Barley Seeds -- 6.3.3 DNA Extraction from Maize Seeds -- 6.3.4 DNA Extraction from Soybean Seeds -- 6.3.5 DNA Extraction from Cotton Seeds -- 6.3.6 DNA Extraction from Papaya Seeds -- 6.3.7 DNA Extraction from Watermelon Seeds -- 6.4 GBS with Half Seed -- 6.5 Applications of GBS as Diagnostic Tool -- 6.5.1 Germplasm Conservation and Quality Control -- 6.5.2 Tracking Crop Varieties -- 6.5.3 Sex Determination -- 6.5.4 Transgenic Detection -- 6.5.5 Detection of Seed-borne Diseases -- 6.6 Summary -- References -- Chapter 7 Genomic Selection: Advances, Applicability, and Challenges -- 7.1 Introduction -- 7.2 Natural Selection -- 7.3 Breeding Selection -- 7.4 Marker-assisted Selection -- 7.5 Genomic Selection -- 7.6 Genotyping for Genomic Selection -- 7.7 Integration of Genomic Selection in MAS Program -- 7.8 The Efficiency of Genomic Selection for Complex Traits -- 7.9 Integration of Genomic Selection in the Varietal Trial Program. 7.10 Cost Comparison of GS vs MAS -- References -- Chapter 8 Analytical Pipelines for the GBS Analysis -- 8.1 Introduction -- 8.2 Applications of NGS -- 8.3 NGS Sequencing Platforms -- 8.3.1 Sequencing by Synthesis -- 8.3.1.1 Roche 454 Pyrosequencing -- 8.3.1.2 Illumina -- 8.3.1.3 Ion Torrent -- 8.3.2 Sequencing by Ligation -- 8.3.2.1 SOLiD -- 8.3.2.2 Polonator -- 8.3.3 Single-Molecule Sequencing -- 8.3.3.1 Helicos -- 8.3.3.2 Pacific Bioscience -- 8.3.3.3 ChIP-Sequencing -- 8.4 Tools for NGS Data Analysis -- 8.5 Generalized Procedure for NGS Data Analysis -- 8.5.1 Assessment of Quality -- 8.5.2 Aligning Sequences -- 8.5.3 Identification of Variants -- 8.6 Variant Annotation -- 8.6.1 Visualization of NGS Data -- 8.7 Role of NGS Informatics in Identifying Variants -- 8.8 Genotyping by Sequencing -- 8.9 Analytical Pipelines for GBS -- 8.10 Comparison of GBS Pipelines -- References -- Chapter 9 Recent Advances and Applicability of GBS, GWAS, and GS in Maize -- 9.1 Introduction -- 9.2 Maize Genetics -- 9.3 Importance of Genomics and Genotyping-based Applications in Maize Breeding Programs -- 9.4 GBS-based QTL Mapping in Maize -- 9.5 GBS Protocols and Analytical Pipelines for Maize -- 9.6 Maize Genome Sequencing and Resequencing -- 9.6.1 Maize Resequencing -- 9.7 Genotyping-by-Sequencing-based GWAS and GS Efforts in Maize -- 9.8 Summary -- References -- Chapter 10 Recent Advances and Applicability of GBS, GWAS, and GS in Soybean -- 10.1 Introduction -- 10.1.1 Importance of Soybean for Global Food Security -- 10.1.2 Challenges in Soybean Production -- 10.1.3 Soybean Genetic Improvement -- 10.2 GBS Efforts in Soybean -- 10.3 High-Density Linkage Maps in Soybean -- 10.4 GBS Protocols and Analytical Pipelines for Soybean -- 10.5 GBS-based QTL Mapping Efforts in Soybean -- 10.6 Soybean Genome Sequencing and Resequencing -- 10.7 GBS-based GWAS Efforts in Soybean. 10.7.1 The General Procedure for Association Mapping -- 10.7.2 Approaches Used for Association Studies -- 10.8 GBS-based Genomic Selection Efforts in Soybean -- References -- Chapter 11 Advances and Applicability of Genotyping Technologies in Cotton Improvement -- 11.1 Introduction -- 11.2 Challenges due to Polyploidy in Cotton -- 11.3 Applications of Genomics and Genotyping for Cotton Breeding Programs -- 11.4 Genotyping Efforts in Cotton -- 11.5 High-Density Linkage Maps in Cotton -- 11.6 Whole-Genome Sequencing of Cotton Germplasm -- 11.7 Application of GBS Technology in Cotton Research -- 11.8 GBS-based Bi-Parental QTL Mapping and Association Mapping in Cotton -- 11.9 Summary and Outlook -- References -- Chapter 12 Recent Advances and Applicability of GBS, GWAS, and GS in Millet Crops* -- 12.1 Introduction -- 12.2 GBS Efforts in Millet Crops -- 12.3 High-density Linkage Maps in Millet Crops -- 12.4 GBS-based QTL Mapping Efforts in Millet Crops -- 12.5 Genome Sequencing and Resequencing of Millet Crops -- 12.5.1 Pearl Millet -- 12.5.2 Broomcorn Millet -- 12.5.3 Finger Millet -- 12.5.4 Foxtail Millet -- 12.5.5 Sorghum -- 12.6 GBS-based GWAS Efforts in Millet Crops -- 12.7 GBS-based Genomic Selection (GS) Efforts in Millet Crops -- 12.8 Summary -- References -- Chapter 13 Recent Advances and Applicability of GBS, GWAS, and GS in Pigeon Pea -- 13.1 Introduction -- 13.2 Pigeon Pea Sequencing and Resequencing -- 13.3 Development of Pigeon Pea High-density Genotyping Platforms -- 13.4 Development of High-density Linkage Maps in Pigeon Pea -- 13.5 QTL Analysis Using High-density Genotyping Platforms and GBS -- 13.6 GWAS Efforts in Pigeon Pea -- 13.7 Genomic Selection (GS) Efforts in Pigeon Pea -- 13.8 Summary -- References -- Chapter 14 Opportunity and Challenges for High-throughput Genotyping in Sugarcane -- 14.1 Introduction. 14.2 Sugarcane Genome and Genetics. |
| Record Nr. | UNINA-9910677570503321 |
| Hoboken, New Jersey : , : John Wiley & Sons, , [2021] | ||
| Materiale a stampa | ||
| Lo trovi qui: Univ. Federico II | ||
| ||
The Handbook of plant functional genomics : concept and protocols / / edited by Günter Kahl and Khalid Meksem
| The Handbook of plant functional genomics : concept and protocols / / edited by Günter Kahl and Khalid Meksem |
| Pubbl/distr/stampa | Weinheim, [Germany] : , : Wiley-VCH Verlag GmbH & Co. KGaA, , 2008 |
| Descrizione fisica | 1 online resource (578 p.) |
| Disciplina | 572.862 |
| Collana | Molecular plant biology handbook series The handbook of plant functional genomics |
| Soggetto topico |
Plant genomes
Plant genetics |
| ISBN |
1-281-94692-3
9786611946920 3-527-62254-3 3-527-62255-1 |
| Formato | Materiale a stampa |
| Livello bibliografico | Monografia |
| Lingua di pubblicazione | eng |
| Nota di contenuto |
The Handbook of Plant Functional Genomics; Contents; Preface; List of Contributors; I Transcriptome Analysis; A Whole Genome Expression Analysis; 1 Single Cell Expression Profiling: Transcript and Protein Analyses in Isolated Higher Plant Gametes and Zygotes; 1.1 Introduction; 1.2 Microdissection, Cell Isolation; 1.3 In Vitro Fertilization; 1.4 Techniques for Molecular Analyses of Single Cell Types; 1.4.1 Sampling of Single, Living Cells; 1.4.2 Analyses of Gene Expression; 1.4.2.1 Single Cell Gene-by-Gene Analysis; 1.4.2.2 Amplification of Whole cDNA Populations
1.4.2.3 Quantification of Transcript Levels1.4.2.4 Library Construction and EST Sequencing; 1.4.2.5 Targeted Approaches Using cDNA Subtraction; 1.4.2.6 Microarray Analyses; 1.5 Analyses of Protein Expression; 1.6 Prospects; References; 2 AFLP-Based RNA Fingerprinting: Novel Variants and Applications; 2.1 Introduction; 2.2 Methods and Protocols; 2.2.1 Theoretical Considerations; 2.2.2 State-of-the-Art cDNA-AFLP Protocol; 2.2.2.1 Isolation of cDNA Fragments; 2.2.2.2 Non-Selective Pre-Amplification; 2.2.2.3 Selective Amplification-Reaction Using (33)P-Labeled Primer and Gel Analysis 2.2.2.4 Downstream Analysis2.3 Applications of the Technology; 2.3.1 Fruit Development; 2.3.2 Tuber Development; 2.3.3 Transcript BSA; 2.3.4 Domain Profiling; 2.3.5 VIDISCA; 2.4 Perspectives; References; 3 SuperSAGE: The Most Advanced Transcriptome Technology for Functional Genomics; 3.1 Introduction; 3.2 Methods and Protocols; 3.2.1 Linker Preparation; 3.2.2 RNA Sample; 3.2.3 cDNA Synthesis; 3.2.4 Tag Extraction from cDNA; 3.2.5 Purification of Linker-Tag Fragment; 3.2.6 Ditag Formation and Amplification; 3.2.7 Tag Extraction from Sequence Data; 3.3 Applications of the Technology 3.3.1 Interaction Transcriptome3.3.2 Application of SuperSAGE to Non-Model Organisms; 3.3.3 SuperSAGE-Array; 3.3.4 GMAT; 3.4 Perspectives; References; 4 From CAGE to DeepCAGE: High-Throughput Transcription Start Site and Promoter Identification for Gene Network Analysis; 4.1 From Genomes to Transcriptomes; 4.2 Addressing the Complexity of Transcriptomes; 4.3 The Shift From CAGE to DeepCAGE; 4.4 Applications of CAGE and DeepCAGE Libraries; 4.5 Preparation of a DeepCAGE Library; 4.6 CAGE Data Analysis and Genome Mapping Approaches 4.7 Expression Profiling: Putting CAGE Tags into a Biological Context4.8 Perspectives; References; 5 Gene Identification Signature-Paired End diTagging (GIS-PET): A Technology for Transcriptome Characterization; 5.1 Introduction; 5.1.1 Microarray Analysis; 5.1.2 cDNA Sequencing, Including EST- and flcDNA-Sequencing; 5.1.3 DNA-Tagging Methods; 5.1.4 Advanced DNA Sequencing Technologies; 5.2 Protocol; 5.2.1 Construction of a GIS-PET flcDNA Library; 5.2.1.1 Reverse-Transcription of mRNA (polyA-RNA) Sample; 5.2.1.2 Oxidation; 5.2.1.3 Biotinylation of RNA Ends 5.2.1.4 RNaseONE Selection for Full-Length (-) cDNA/RNA Heteroduplex |
| Record Nr. | UNINA-9910144124803321 |
| Weinheim, [Germany] : , : Wiley-VCH Verlag GmbH & Co. KGaA, , 2008 | ||
| Materiale a stampa | ||
| Lo trovi qui: Univ. Federico II | ||
| ||
