Plant MicroRNAs Methods and Protocols
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-transcrip
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Molecular Biology
Series Editor John M. Walker School of Hertfordshire Hatfield, Hertfordshire, AL10 9AB, UK
For other titles published in this series, go to www.springer.com/series/7651
Plant MicroRNAs Methods and Protocols
Edited by
Blake C. Meyers and Pamela J. Green Department of Plant & Soil Sciences, and Delaware Biotechnology Institute, University of Delaware, Newark, DE, USA
Editors Blake C. Meyers Department of Plant & Soil Sciences, and Delaware Biotechnology Institute, University of Delaware, Newark, DE, USA
Pamela J. Green Department of Plant & Soil Sciences, and Delaware Biotechnology Institute, University of Delaware, Newark, DE, USA
ISSN 1064-3745 e-ISSN 1940-6029 ISBN 978-1-60327-004-5 e-ISBN 978-1-60327-005-2 DOI 10.1007/978-1-60327-005-2 Springer New York Dordrecht Heidelberg London Library of Congress Control Number: 2009933463 © Humana Press, a part of Springer Science+Business Media, LLC 2010 All rights reserved. This work may not be translated or copied in whole or in part without the written permission of the publisher (Humana Press, c/o Springer Science+Business Media, LLC, 233 Spring Street, New York, NY 10013, USA), except for brief excerpts in connection with reviews or scholarly analysis. Use in connection with any form of information storage and retrieval, electronic adaptation, computer software, or by similar or dissimilar methodology now known or hereafter developed is forbidden. The use in this publication of trade names, trademarks, service marks, and similar terms, even if they are not identified as such, is not to be taken as an expression of opinion as to whether or not they are subject to proprietary rights. While the advice and information in this book are believed to be true and accurate at the date of going to press, neither the authors nor the editors nor the publisher can accept any legal responsibility for any errors or omissions that may be made. The publisher makes no warranty, express or implied, with respect to the material contained herein. Printed on acid-free paper Humana Press is part of Springer Science+Business Media (www.springer.com)
Preface We have assembled a set of protocols that we believe represent the state of the art for laboratory and computational analyses of plant microRNAs (miRNAs). These small, noncoding RNA molecules of about 21 nucleotides have made a grand entrance onto the scientific stage with their discovery in the 1990s and their stunning ascent to stardom in the early years of the current decade. Along the way, it has been demonstrated that miRNAs are simply one of several classes of small RNAs produced in plant cells, albeit a particularly important class given the broad phylogenetic conservation and strong regulatory effects of many miRNAs. Plant miRNAs are uniquely interesting for their ancient evolutionary origins and their strong post-transcriptional regulatory effects. Most chapters of this volume focus on the identification, validation, and characterization of the miRNA class of RNAs. However, a topic that cannot av
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