Plant Functional Genomics

Methods and Protocols

Methods in Molecular Biology Band 236

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gebundene Ausgabe
Functional genomics is a young discipline whose origin can be traced back to the late 1980s and early 1990s, when molecular tools became available to determine the cellular functions of genes. Today, functional genomics is p- ceived as the analysis, often large-scale, that bridges the structure and organi- tion of genomes and the assessment of gene function. The completion in 2000 of the genome sequence of Arabidopsis thaliana has created a number of new and exciting challenges in plant functional genomics. The immediate task for the plant biology community is to establish the functions of the approximately 25,000 genes present in this model plant. One major issue that will remain even after this formidable task is c- pleted is establishing to what degree our understanding of the genome of one model organism, such as the dicot Arabidopsis, provides insight into the or- nization and function of genes in other plants. The genome sequence of rice, completed in 2002 as a result of the synergistic interaction of the private and public sectors, promises to significantly enrich our knowledge of the general organization of plant genomes. However, the tools available to investigate gene function in rice are lagging behind those offered by other model plant systems. Approaches available to investigate gene function become even more limited for plants other than the model systems of Arabidopsis, rice, and maize.
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  • Part I. Finding Genes in Complex Plant Systems

    An Improved Method for Plant BAC Library Construction
    Meizhong Luo and Rod A. Wing

    Constructing Gene-Enriched Plant Genomic Libraries Using Methylation Filtration Technology
    Pablo D. Rabinowicz

    RescueMu Protocols for Maize Functional Genomics
    Manish N. Raizada

    Precious Cells Contain Precious Information: Strategies and Pitfalls in Expression Analysis from a Few Cells
    Isabelle M. Henry and Dina F. Mandoli

    Combined ESTs from Plant-Microbe Interactions: Using GC Counting to Determine the Species of Origin
    Edgar Huitema, Trudy A. Torto, Allison Styer, and Sophien Kamoun

    Part II. In Silico Prediction of Plant Gene Function

    Computer Software to Find Genes in Plant Genomic DNA
    Ramana V. Davuluri and Michael Q. Zhang

    Genomic Colinearity as a Tool for Plant Gene Isolation
    Wusirika Ramakrishna and Jeffrey L. Bennetzen

    Using Natural Allelic Diversity to Evaluate Gene Function
    Sherry R. Whitt and Edward S. Buckler, IV

    Quantitative Trait Locus Analysis as a Gene Discovery Tool
    Michael D. McMullen

    Part III. Forward and Reverse Genetic Strategies

    Transposon Tagging Using Activator (Ac) in Maize
    Thomas P. Brutnell and Liza J. Conrad

    T-DNA Mutagenesis in Arabidopsis
    Jose M. Alonso and Anna N. Stepanova

    Physical and Chemical Mutagenesis
    Andrea Kodym and Rownak Afza

    High-Throughput TILLING for Functional Genomics
    Bradley J. Till, Trenton Colbert, Rachel Tompa, Linda C. Enns, Christine A. Codomo, Jessica E. Johnson, Steven H. Reynolds, Jorja G. Henikoff, Elizabeth A. Greene, Michael N. Steine, Luca Comai, and Steven Henikoff

    Gene and Enhancer Traps for Gene Discovery
    Marcela Rojas-Pierce and Patricia S. Springer

    High-Throughput TAIL-PCR as a Tool to Identify DNA Flanking Insertions
    Tatjana Singer and Ellen Burke

    Custom Knock-Outs with Hairpin RNA-Mediated Gene Silencing
    Susan Varsha Wesley, Qing Liu, Anna Wielopolska, Geoff Ellacott, Neil Smith, Surinder Singh, and Chris Helliwell

    Virus-Induced Gene Silencing
    S. P. Dinesh-Kumar, Radhamani Anandalakshmi, Rajendra Marathe, Michael Schiff, and Yule Liu

    Exploring the Potential of Plant RNase P as a Functional Genomics Tool
    Dileep K. Pulukkunat, M. L. Stephen Raj, Debasis Pattanayak, Lien B. Lai, and Venkat Gopalan

    Maintaining Collections of Mutants for Plant Functional Genomics
    Randy Scholl, Martin M. Sachs, and Doreen Ware

    Part IV. Gain of Function Approaches

    Vector Construction for Gene Overexpression as a Tool to Elucidate Gene Function
    Alan Lloyd

    T-DNA Activation Tagging
    Johan Memelink

    Part V. Phenotypic Profiling as a Tool to Determine Gene Function

    Expression Profiling Using cDNA Microarrays
    Suling Zhao and Wesley B. Bruce

    Open Architecture Expression Profiling of Plant Transcriptomes and Gene Discovery Using GeneCalling® Technology
    Oswald R. Crasta and Otto Folkerts

    Proteomics as a Functional Genomics Tool
    Ulrike Mathesius, Nijat Imin, Siria H. A. Natera, and Barry G. Rolfe

    Metabolite Profiling as a Functional Genomics Tool
    Anusha P. Dias, Johnny Brown, Pierluigi Bonello, and Erich Grotewold

    Growth Stage-Based Phenotypic Profiling of Plants
    Susanne Kjemtrup, Douglas C. Boyes, Cory Christensen, Amy J. McCaskill, Michelle Hylton, and Keith Davis

In den Warenkorb



Einband gebundene Ausgabe
Herausgeber Erich Grotewold
Seitenzahl 452
Erscheinungsdatum 06.08.2003
Sprache Englisch
ISBN 978-1-58829-145-5
Verlag Humana Press
Maße (L/B/H) 26,3/12,8/3 cm
Gewicht 866 g
Abbildungen 52 schwarzweisse Abbildungen, 10 Abbildungenton-Abb., 42 schwarzweisse Zeichnungen 229 mm
Auflage 2003
Buch (gebundene Ausgabe, Englisch)
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