DNA Fingerprinting in Plants
, by Kurt Weising; Hilde Nybom; Markus Pfenninger; Kirsten Wolff; Günter Kahl
- ISBN: 9781420040043 | 1420040049
- Cover: Nonspecific Binding
- Copyright: 2/28/2005
| Preface | |
| Repetitive Dna: An Important Source Of Variation In Eukaryotic Genomes | |
| Categories of DNA Sequence Mutations | |
| Tandem-Repetitive DNA: The Biology of Mini- and Microsatellites | |
| Minisatellites | |
| Microsatellites | |
| Transposable Elements | |
| Class I Transposons | |
| Class II Transposons | |
| Unclassified Transposons | |
| Transposons and Genome Evolution | |
| Transposons as Molecular Markers | |
| Detecting Dna Variation By Molecular Markers | |
| Properties of Molecular Markers | |
| Traditional Marker Systems | |
| Protein Markers and Allozymes | |
| DNA Sequencing | |
| Restriction Fragment Length Polymorphism (RFLP) Analysis | |
| The PCR Generation: Molecular Markers Based on In Vitro DNA Amplification | |
| Principle of the PCR | |
| Cleaved Amplified Polymorphic Sequences | |
| PCR with Arbitrary Primers: RAPD and Its Variants | |
| Microsatellites | |
| Inter-Repeat PCR | |
| DNA Profiling of Genic Regions: Resistance Gene Analog Polymorphism, Sequence-Related Amplified Polymorphism, and Target Region Amplification Polymorphism | |
| Hybridization of Microsatellites to RAPD and MP-PCR Products | |
| AFLP Analysis and Its Variants | |
| Single-Strand Conformation Polymorphism Analysis and Related Techniques | |
| Miscellaneous Techniques | |
| Laboratory Equipment | |
| Methodology | |
| Safety Precautions | |
| Isolation, Purification, and Quantitation of Plant DNA | |
| Collection and Preservation of Plant Tissue in the Field | |
| Plant DNA Extraction: General Considerations | |
| CTAB Protocol I | |
| CTAB Protocol II | |
| SDS-Potassium Acetate Protocol | |
| DNA Preparation via Nuclei | |
| Quantitation of DNA | |
| Basic Molecular Techniques | |
| Restriction of DNA | |
| Polymerase Chain Reaction | |
| DNA Sequencing | |
| Agarose Gel Electrophoresis | |
| PAA Gel Electrophoresis | |
| Detection of DNA in Gels | |
| Gel Drying | |
| Southern Blotting | |
| Generation of Radiolabeled Probes, Primers, and PCR Products | |
| Blot Hybridization | |
| Signal Detection | |
| PCR with Arbitrary Primers | |
| Standard RAPD Protocol | |
| Influence of Reaction Conditions and Components | |
| Modifications | |
| Microsatellite-Primed PCR | |
| Standard Protocol of Microsatellite-Primed PCR | |
| Influence of Reaction Conditions and Components | |
| Modifications | |
| PCR and Hybridization: Combinatory Techniques | |
| Assessing the Genomic Copy Number of PCR Amplicons | |
| Testing the Homology of Comigrating Bands | |
| Random Amplified Polymorphic Microsatellites | |
| Amplified Fragment Length Polymorphism | |
| Standard AFLP Protocol Using Radioisotopes | |
| AFLP Protocol Using Fluorescence-Labeled Primers | |
| Selective Amplification of Microsatellite Polymorphic Loci and Microsatellite AFLP Protocols | |
| Technical Aspects and Modifications | |
| Robustness and Reproducibility | |
| Generation and Analysis of Microsatellite Markers | |
| Microsatellite Analysis Using Radioisotopes | |
| Microsatellite Analysis Using Fluorochromes | |
| Technical Aspects and Modifications | |
| Generating Microsatellite Markers Without Cloning | |
| Microsatellite Cloning | |
| CAPS Analysis of cpDNA and mtDNA | |
| Standard CAPS Protocol | |
| Choice of CAPS Primers | |
| Evaluation Of Molecular Marker Data | |
| Robustness and Reproducibility | |
| Reliability | |
| Band Homology | |
| Band Linkage and Neutrality | |
| Fragment Sizing and Matching | |
| General Precautions | |
| Equipment | |
| Multilocus vs. Single-Locus Approaches | |
| Multilocus Markers | |
| Single-Locus Markers and Polyploids | |
| Band Sharing and Genetic Distances | |
| Coefficients of Similarity | |
| Dissimilarity Coefficients and Genetic Distances | |
| Identity and Uniqueness | |
| Clonal Structure | |
| Ordination, Clustering, and Dendrograms | |
| Ordination Techniques | |
| Construction of Dendrograms | |
| Population Genetic Analysis | |
| Measures of Variation | |
| Genetic Differentiation between Populations | |
| Genetic Distances between Populations | |
| Inbreeding Coefficient and Mating Systems | |
| Estimation of Relatedness and Paternity Testing | |
| Migration and Hybridization | |
| Gene Flow, Isolation-by-Distance, and Spatial Structure | |
| Phylogeography and Nested Clade Analysis | |
| Statistical Testing of Hypotheses: Analytical and Computational Methods | |
| Applications Of Dna Fingerprinting In Plant Sciences | |
| A Brief History of DNA Fingerprinting | |
| Minisatellite and Oligonucleotide DNA Probes Detect Genetic Variation | |
| PCR-Based Methods Enter the Stage | |
| Microsatellite DNA Analyses Yield Codominant Markers | |
| Universal Organellar DNA Primers Produce Uniparental Markers | |
| Genotype Identification | |
| Individual-Specific DNA Fingerprints | |
| Cultivar Identification | |
| In Vitro-Propagated Plant Material and Somaclonal Variation | |
| Sports and Other Mutants | |
| Genetic Diversity | |
| Variation and Relatedness among Cultivars | |
| Analysis of Population Genetic Diversity and Its Distribution | |
| Hybridization and Introgression | |
| Plant Conservation | |
| Germplasm Characterization and Preservation | |
| Plant Taxonomy and Systematics | |
| Taxonomic Relationships Revealed by Multilocus DNA Methods | |
| Microsatellite Markers in Taxonomic Studies | |
| Taxonomic Consequences from DNA Profiling Data | |
| Phylogeography | |
| Phylogeography Based on cpDNA | |
| Phylogeography Based on Nuclear Genes | |
| Linkage Analysis And Genetic Maps | |
| Generating High-Density Genetic Maps | |
| Selection of Parent Plants | |
| Mapping Population | |
| Linkage Analysis | |
| The Genetic Map | |
| Cytogenetic Maps | |
| Genetic vs. Physical Maps | |
| Synteny: The Comparative Analysis of Genomes | |
| Marker-Assisted Selection | |
| Molecular Markers and Positional Cloning | |
| Which Marker For What Purpose: A Comparison | |
| Morphological Characters and Allozymes vs. DNA Markers | |
| Different Kinds of DNA Markers | |
| Discriminatory Power | |
| Genetic Distances | |
| Within- and Among-Population Variation | |
| Gene Tagging and Genetic Linkage Mapping | |
| Costs | |
| Conclusions | |
| Future Prospects: Snips And Chips For Dna And Rna Profiling | |
| Single-Nucleotide Polymorphisms | |
| What Is a SNiP | |
| SNP Discovery | |
| DNA Microarrays | |
| Expression Profiling and Expression Markers | |
| Plant Dna Isolation Protocols | |
| Suppliers And Sellers Of Reagents And Equipment | |
| Computer Programs Dealing With The Evaluation Of Dna Sequence Variation And Molecular Marker Data | |
| Web Pages Of Interest | |
| References | |
| Index | |
| Table of Contents provided by Publisher. All Rights Reserved. |
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