1st Edition

Functional Plant Genomics

By J F Morot-Gaudry, P Lea, J.F. Briat Copyright 2007

    The openings offered by functional genomics reconciles organism biology and molecular biology, in order to define an integrative biology that should allow new insights about how a phenotype is built up from a genotype in interaction with its environment. This book covers a wide area of concepts and methods in genomics. This range from international genome sequencing projects to invaluable bioinformatics tools, analytical methods of gene expression, including final metabolic products, and their specific tissue to cellular compartmentalization. This new knowledge enables readers to understand the integration of basic physiological functions, and developmental programs. Also, the establishment of tight relationships between genomics, and genetics and plant breeding reveals synergies for exploiting molecular markers, for analysing genetic variation, or for studying quantitative traits. The integration that is now feasible by these new approaches also effects ecophysiology, and opens up new perspectives for the us

    Foreword by Michel Caboche
    Foreword by A Charcosset
    Structural Genomics and in silico Analysis
    1. Physical Structure of the Plant Nuclear Genome
    M. Delseny, M. Echeverria, E. Lasserre
    2. The Sequencing of Plant Nuclear Genomes
    N. Choisne, S. Samain, N. Demange, G. Orjeda, L. Michelet,
    E. Pelletier, M. Salanoubat, J. Weissenbach, F. Quetier
    3. Introduction to Bioinformatics
    H. Chiapello, F. Rodolphe
    4. Databases in Biology
    H. Chiapello
    5. Gene Prediction
    P. Nicolas, H. Chiapello
    6. Detecting Protein Function from Genome Sequences
    J.F. Gibrat, A. Marin
    7. Large-scale Protein Sequence Comparisons
    J.L. Risler, S. Pasek, P. Brézellec, A. Louis
    Functional Genomics: From Sequence to
    Function in Plants
    8. Gene Transfer to Plants
    Y. Chupeau, M.R. Davey
    9. Mutant Libraries: A High-throughput
    Arabidopsis Reverse Genetics System
    F. Granier, D. Bouchez
    10. DNA Microarrays in Plants
    P. Doumas, Y. Al-Ghazi, C. Rothan, S. Robin
    11. Statistical Design and the Analysis of
    Gene Expression Determined by Independent
    Component Analysis
    A. Riva, A.S. Carpentier, B. Torrésani, A. Hénaut
    12. Proteomics
    M. Zivy, J. Joyard, M. Rossignol
    13. Tracking Gene Expression in Plant Cells:
    Microscopy and Associated Bio-imaging Techniques
    S. Brown, S. Bolte, B. Satiat-Jeunemaître
    14. Tracking Gene Expression in Plant Cells:
    New Probes for Functional Genomics
    S. Bolte, Y. Boutté, S. Kluge, S. Brown, B. Satiat-Jeunemaître
    15. Metabolomics
    A. Krapp, J.F. Morot-Gaudry, S. Boutet, G. Bergot,
    C. Lelarge, J.L. Prioul, G. Noctor
    16. Metabolic Fingerprinting and Profiling by Proton NMR
    A. Moing, C. Deborde, D. Rolin
    17. Methods for the Qualitative and Quantitative
    Analysis of Metabolic Fluxes
    M. Dieuaide-Noubhani, A.P. Alonso, C. Roby, P. Raymond
    18. The Structure of Metabolic Networks or (Almost) All that is Known
    about the Simplest Metabolic Network
    Jean-Pierre Mazat
    Plant Models in Genomics
    19. The Model Species, Arabidopsis thaliana
    X. Johnson, D. Bouchez
    20. Rice: A Model Plant for Cereal Genomics
    M. Delseny
    21. The Model Medicago truncatula: from Plant-Microbe
    Symbioses to Crop Legume Breeding Boosted by
    Cross-Legume Genomics
    E.P. Journet, P. Gamas
    22. Tomato: A Model Plant for Solanaceae Genomics
    R. Stevens, M. Bouzayen, M. Causse, C. Etienne, C. Rothan
    23. Genomics as a Road for Grapevine Improvement
    A.F. Adam-Blondon, C. Romieu, A. Bouquet
    24. Sugarcane: A Tropical Crop with a Highly Complex Genome
    J.Y. Hoarau, G. Souza, A. D’ Hont, M. Menossi,
    L. Rossini Pinto, A. Pereira de Souza, L. Grivet,
    C.F. Martins Menck, E. Cesar Ulian, M. Vincentz
    Genomics, Genetic Variability and Plant Breeding
    25. Molecular Markers and High-throughput Genotype Analysis
    M. Falque, S. Santoni
    26. Transposable Elements and the Analysis of Plant Biodiversity
    S.M. Tam, C. Mhiri, M.–A. Grandbastien
    27. Analysis of Complex Characters into Elementary
    Components through the Use of Molecular Quantitative
    Genetics in Arabidopsis thaliana
    O. Loudet, F. Daniel-Vedele
    28. Characterization of Major Genes and QTLs by a
    Candidate Gene Approach
    R. Stevens, S. Muños, M. Causse, A. Bendahmane, V. Lefebvre
    29. Molecular Evolution and Validation of Candidate Gene
    D. Manicacci, J.B. Veyrieras, A. Charcosset
    30. Genomics and Plant Breeding: Maize and Wheat
    B. Hirel, J. Le Gouis, M. Bernard, P. Perez, M. Falque,
    F. Quetier, J. Joets, P. Montalent, P. Rogowsky,
    A. Murigneux, A. Charcosset
    Genomics and Technology
    31. From Genomics to Self-assembly
    V. Planchot, S.G. Ring, A.J. MacDougall, M. Axelos,
    Y. Popineau, P. Colonna
    32. Metabolic Fingerprinting and Profiling by
    MID-FT-IR (Middle-Fourier Transformed-InfraRed)
    G. Mouille and J.N. Johansen
    C. Meyer, J.F. Morot-Gaudry
    List of Contributors


    Morot-Gaudry, J F ; Lea, P; Briat, J.F.