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Plant MicroRNAs

Methods and Protocols

  • Presents fundamentals of plant miRNA biology, including pathways and approaches used for their discovery and investigation, as written by leading researchers in the field
  • Covers a broad range of molecular approaches to the study of small RNA, from basic to advanced experimental and computational techniques
  • Details the methods by which the expression of miRNAs and their impact on mRNA levels is characterized, including deep sequencing methods for miRNAs and target RNAs
  • Enables a molecular biologist to design and perform experiments on the biology of plant miRNAs and small RNAs, including detection, quantification and localization, as well as approaches to data analysis
  • Includes applications and advanced adaptations of techniques relevant to all plant biologists
  • Includes supplementary material: sn.pub/extras

Part of the book series: Methods in Molecular Biology (MIMB, volume 592)

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Table of contents (17 protocols)

  1. Front Matter

    Pages i-x
  2. Prediction of Plant miRNA Genes

    • Matthew W. Jones-Rhoades
    Pages 19-30
  3. Methods for Isolation of Total RNA to Recover miRNAs and Other Small RNAs from Diverse Species

    • Monica Accerbi, Skye A. Schmidt, Emanuele De Paoli, Sunhee Park, Dong-Hoon Jeong, Pamela J. Green
    Pages 31-50
  4. miRNA Target Prediction in Plants

    • Noah Fahlgren, James C. Carrington
    Pages 51-57
  5. A Method to Discover Phased siRNA Loci

    • Michael J. Axtell
    Pages 59-70
  6. Directed Gene Silencing with Artificial MicroRNAs

    • Rebecca Schwab, Stephan Ossowski, Norman Warthmann, Detlef Weigel
    Pages 71-88
  7. Bioinformatics Analysis of Small RNAs in Plants Using Next Generation Sequencing Technologies

    • Kan Nobuta, Kevin McCormick, Mayumi Nakano, Blake C. Meyers
    Pages 89-106
  8. High-Throughput Approaches for miRNA Expression Analysis

    • Cheng Lu, Frédéric Souret
    Pages 107-125
  9. In Situ Detection of miRNAs Using LNA Probes

    • Zoltán Havelda
    Pages 127-136
  10. Analysis of miRNA Modifications

    • Bin Yu, Xuemei Chen
    Pages 137-148
  11. MicroRNA Promoter Analysis

    • Molly Megraw, Artemis G. Hatzigeorgiou
    Pages 149-161
  12. Computational Methods for Comparative Analysis of Plant Small RNAs

    • Gayathri Mahalingam, Blake C. Meyers
    Pages 163-181
  13. Biotic Stress-Associated microRNAs: Identification, Detection, Regulation, and Functional Analysis

    • Florence Jay, Jean-Pierre Renou, Olivier Voinnet, Lionel Navarro
    Pages 183-202
  14. Abiotic Stress-Associated miRNAs: Detection and Functional Analysis

    • Dong-Hoon Jeong, Marcelo A. German, Linda A. Rymarquis, Shawn R. Thatcher, Pamela J. Green
    Pages 203-230
  15. Processing of miRNA Precursors

    • Yukio Kurihara, Yuichiro Watanabe
    Pages 231-241
  16. Transient Assays for the Analysis of miRNA Processing and Function

    • Felipe F. de Felippes, Detlef Weigel
    Pages 255-264
  17. Back Matter

    Pages 265-267

About this book

MicroRNAs constitute a particularly important class of small RNAs given their abundance, broad phylogenetic conservation and strong regulatory effects, with plant miRNAs uniquely divulging their ancient evolutionary origins and their strong post-transcriptional regulatory effects. In Plant MicroRNAs: Methods and Protocols, experts in the field present chapters that focus on the identification, validation, and characterization of the miRNA class of RNAs, and address important aspects about heterochromatic small interfering RNAs. In addition, the methods contained in this volume emphasize miRNA analyses, but also include ways to distinguish one class of small RNAs from another. As a volume in the highly successful Methods in Molecular Biologyâ„¢ series, chapters include brief introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and notes on troubleshooting and avoiding known pitfalls.

Authoritative and easy to use, Plant MicroRNAs: Methods and Protocols provides the research community with a set of protocols that will help advance vital miRNA research for all plant species, both in typical model species and non-model species alike.

Editors and Affiliations

  • Delaware Biotechnology Institute, University of Delaware, Newark, U.S.A.

    Blake C. Meyers, Pamela J. Green

Bibliographic Information

  • Book Title: Plant MicroRNAs

  • Book Subtitle: Methods and Protocols

  • Editors: Blake C. Meyers, Pamela J. Green

  • Series Title: Methods in Molecular Biology

  • DOI: https://doi.org/10.1007/978-1-60327-005-2

  • Publisher: Humana Totowa, NJ

  • eBook Packages: Springer Protocols

  • Copyright Information: Humana Press 2010

  • Hardcover ISBN: 978-1-60327-004-5Published: 28 October 2009

  • Softcover ISBN: 978-1-61779-653-1Published: 09 August 2012

  • eBook ISBN: 978-1-60327-005-2Published: 03 October 2009

  • Series ISSN: 1064-3745

  • Series E-ISSN: 1940-6029

  • Edition Number: 1

  • Number of Pages: X, 261

  • Number of Illustrations: 46 b/w illustrations

  • Topics: Biochemistry, general, Plant Sciences, Plant Genetics and Genomics, Gene Function

Buy it now

Buying options

eBook USD 84.99
Price excludes VAT (USA)
  • Available as EPUB and PDF
  • Read on any device
  • Instant download
  • Own it forever
Softcover Book USD 139.00
Price excludes VAT (USA)
  • Compact, lightweight edition
  • Dispatched in 3 to 5 business days
  • Free shipping worldwide - see info
Hardcover Book USD 109.99
Price excludes VAT (USA)
  • Durable hardcover edition
  • Dispatched in 3 to 5 business days
  • Free shipping worldwide - see info

Tax calculation will be finalised at checkout

Other ways to access