Plant functional genomics / edited by Erich Grotewold.

Format:

Book

Contributor:

Grotewold, Erich.

Series:

Methods in molecular biology (Clifton, N.J.) ; v. 236.

Methods in molecular biology ; v. 236

Language:

English

Subjects (All):

Plant molecular genetics.

Plant gene expression.

Genomics.

Genome, Plant.

Gene Expression Regulation, Plant.

Genes, Plant--genetics.

Plants--genetics.

Molecular Biology.

Medical Subjects:

Genome, Plant.

Gene Expression Regulation, Plant.

Genes, Plant--genetics.

Genomics.

Plants--genetics.

Molecular Biology.

Genre:

Laboratory manuals.

Physical Description:

xv, 449 pages : illustrations ; 24 cm.

Place of Publication:

Totowa, N.J. : Humana Press, [2003]

Summary:

Erich Grotewold has assembled a team of leading plant scientists to describe in detail the most commonly used methods for investigating plant gene function in a wide variety of plants, during plant pathogen interactions, and even in algae. These readily reproducible protocols include computational, molecular, and genetic methodologies designed for both general and specific problems. Here the reader will learn about powerful computational and statistical tools to help predict gene function either on the basis of comparative genomics, or from the analysis of complex genome sequences. Numerous loss-of-function and gain-of-function techniques for discovering gene function are presented in step-by-step detail.

Contents:

Part I. Finding Genes in Complex Plant Systems

1 An Improved Method for Plant BAC Library Construction / Meizhong Luo, Rod A. Wing 3

2 Constructing Gene-Enriched Plant Genomic Libraries Using Methylation Filtration Technology / Pablo D. Rabinowicz 21

3 RescueMu Protocols for Maize Functional Genomics / Manish N. Raizada 37

4 Precious Cells Contain Precious Information: Strategies and Pitfalls in Expression Analysis from a Few Cells / Isabelle M. Henry, Dina F. Mandoli 59

5 Combined ESTs from Plant-Microbe Interactions: Using GC Counting to Determine the Species of Origin / Edgar Huitema, Trudy A. Torto, Allison Styer, Sophien Kamoun 79

Part II. In Silico Prediction of Plant Gene Function

6 Computer Software to Find Genes in Plant Genomic DNA / Ramana V. Davuluri, Michael Q. Zhang 87

7 Genomic Colinearity as a Tool for Plant Gene Isolation / Wusirika Ramakrishna, Jeffrey L. Bennetzen 109

8 Using Natural Allelic Diversity to Evaluate Gene Function / Sherry R. Whitt, Edward S. Buckler, IV 123

9 Quantitative Trait Locus Analysis as a Gene Discovery Tool / Michael D. McMullen 141

Part III. Forward and Reverse Genetic Strategies

10 Transposon Tagging Using Activator (Ac) in Maize / Thomas P. Brutnell, Liza J. Conrad 157

11 T-DNA Mutagenesis in Arabidopsis / Jose M. Alonso, Anna N. Stepanova 177

12 Physical and Chemical Mutagenesis / Andrea Kodym, Rownak Afza 189

13 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, Steven Henikoff 205

14 Gene and Enhancer Traps for Gene Discovery / Marcela Rojas-Pierce, Patricia S. Springer 221

15 High-Throughput TAIL-PCR as a Tool to Identify DNA Flanking Insertions / Tatjana Singer, Ellen Burke 241

16 Custom Knock-Outs with Hairpin RNA-Mediated Gene Silencing / Susan Varsha Wesley, Qing Liu, Anna Wielopolska, Geoff Ellacott, Neil Smith, Surinder Singh, Chris Helliwell 273

17 Virus-Induced Gene Silencing / S. P. Dinesh-Kumar, Radhamani Anandalakshmi, Rajendra Marathe, Michael Schiff, Yule Liu 287

18 Exploring the Potential of Plant RNase P as a Functional Genomics Tool / Dileep K. Pulukkunat, M. L. Stephen Raj, Debasis Pattanayak, Lien B. Lai, Venkat Gopalan 295

19 Maintaining Collections of Mutants for Plant Functional Genomics / Randy Scholl, Martin M. Sachs, Doreen Ware 311

Part IV. Gain of Function Approaches

20 Vector Construction for Gene Overexpression as a Tool to Elucidate Gene Function / Alan Lloyd 329

21 T-DNA Activation Tagging / Johan Memelink 345

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

22 Expression Profiling Using cDNA Microarrays / Suling Zhao, Wesley B. Bruce 365

23 Open Architecture Expression Profiling of Plant Transcriptiomes and Gene Discovery Using GeneCalling Technology / Oswald R. Crasta, Otto Folkerts 381

24 Proteomics as a Functional Genomics Tool / Ulrike Mathesius, Nijat Imin, Siria H. A. Natera, Barry G. Rolfe 395

25 Metabolite Profiling as a Functional Genomics Tool / Anusha P. Dias, Johnny Brown, Pierluigi Bonello, Erich Grotewold 415

26 Growth Stage-Based Phenotypic Profiling of Plants / Susanne Kjemtrup, Douglas C. Boyes, Cory Christensen, Amy J. McCaskill, Michelle Hylton, Keith Davis 427.

Notes:

Includes bibliographical references and index.

ISBN:

1588291456

OCLC:

51445955