Plant Cell Hybrigenics The Protein Interactions Experts
HOME HELP FEEDBACK SUBSCRIPTIONS ARCHIVE SEARCH TABLE OF CONTENTS
QUICK SEARCH:   [advanced]


     

First published online April 22, 2005; 10.1105/tpc.105.032185

This Article
Right arrow Full Text
Right arrow Full Text (PDF)
Right arrow Supplemental Data
Right arrow All Versions of this Article:
17/6/1658    most recent
tpc.105.032185v1
Right arrow Alert me when this article is cited
Right arrow Alert me if a correction is posted
Services
Right arrow Email this article to a friend
Right arrow Similar articles in this journal
Right arrow Similar articles in ISI Web of Science
Right arrow Similar articles in PubMed
Right arrow Alert me to new issues of the journal
Right arrow Download to citation manager
Right arrow reprints & permissions
Citing Articles
Right arrow Citing Articles via HighWire
Right arrow Citing Articles via CrossRef
Right arrow Citing Articles via ISI Web of Science (115)
Right arrow Citing Articles via Google Scholar
Google Scholar
Right arrow Articles by Axtell, M. J.
Right arrow Articles by Bartel, D. P.
Right arrow Search for Related Content
PubMed
Right arrow PubMed Citation
Right arrow Articles by Axtell, M. J.
Right arrow Articles by Bartel, D. P.
Agricola
Right arrow Articles by Axtell, M. J.
Right arrow Articles by Bartel, D. P.
The Plant Cell 17:1658-1673 (2005)
© 2005 American Society of Plant Biologists

Antiquity of MicroRNAs and Their Targets in Land Plants{boxw}

Michael J. Axtella and David P. Bartela,b,1

a Whitehead Institute for Biomedical Research, Cambridge, Massachusetts 02142
b Department of Biology, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139

1 To whom correspondence should be addressed. E-mail dbartel{at}wi.mit.edu; fax 617-258-6768.

MicroRNAs (miRNAs) affect the morphology of flowering plants by the posttranscriptional regulation of genes involved in critical developmental events. Understanding the spatial and temporal dynamics of miRNA activity during development is therefore central for understanding miRNA functions. We describe a microarray suitable for detection of plant miRNAs. Profiling of Arabidopsis thaliana miRNAs during normal development extends previous expression analyses, highlighting differential expression of miRNA families within specific organs and tissue types. Comparison of our miRNA expression data with existing mRNA microarray data provided a global intersection of plant miRNA and mRNA expression profiles and revealed that tissues in which a given miRNA is highly expressed are unlikely to also show high expression of the corresponding targets. Expression profiling was also used in a phylogenetic survey to test the depth of plant miRNA conservation. Of the 23 families of miRNAs tested, expression of 11 was detected in a gymnosperm and eight in a fern, directly demonstrating that many plant miRNAs have remained essentially unchanged since before the emergence of flowering plants. We also describe an empirical strategy for detecting miRNA target genes from unsequenced transcriptomes and show that targets in nonflowering plants as deeply branching as ferns and mosses are homologous to the targets in Arabidopsis. Therefore, several individual miRNA regulatory circuits have ancient origins and have remained intact throughout the evolution and diversification of plants.




This article has been cited by other articles:


Home page
 Plant Physiol.Home page
B. D. Pant, M. Musialak-Lange, P. Nuc, P. May, A. Buhtz, J. Kehr, D. Walther, and W.-R. Scheible
Identification of Nutrient-Responsive Arabidopsis and Rapeseed MicroRNAs by Comprehensive Real-Time Polymerase Chain Reaction Profiling and Small RNA Sequencing
Plant Physiology, July 1, 2009; 150(3): 1541 - 1555.
[Abstract] [Full Text] [PDF]

Home page
 RNAHome page
P. Tedder, E. Zubko, D. R. Westhead, and P. Meyer
Small RNA analysis in Petunia hybrida identifies unusual tissue-specific expression patterns of conserved miRNAs and of a 24mer RNA
RNA, June 1, 2009; 15(6): 1012 - 1020.
[Abstract] [Full Text] [PDF]

Home page
 J. Gen. Virol.Home page
H. Senshu, J. Ozeki, K. Komatsu, M. Hashimoto, K. Hatada, M. Aoyama, S. Kagiwada, Y. Yamaji, and S. Namba
Variability in the level of RNA silencing suppression caused by triple gene block protein 1 (TGBp1) from various potexviruses during infection
J. Gen. Virol., April 1, 2009; 90(4): 1014 - 1024.
[Abstract] [Full Text] [PDF]

Home page
 Genome ResHome page
S. Moxon, R. Jing, G. Szittya, F. Schwach, R. L. Rusholme Pilcher, V. Moulton, and T. Dalmay
Deep sequencing of tomato short RNAs identifies microRNAs targeting genes involved in fruit ripening
Genome Res., October 1, 2008; 18(10): 1602 - 1609.
[Abstract] [Full Text] [PDF]

Home page
 DNA ResHome page
S. Sato, Y. Nakamura, T. Kaneko, E. Asamizu, T. Kato, M. Nakao, S. Sasamoto, A. Watanabe, A. Ono, K. Kawashima, et al.
Genome Structure of the Legume, Lotus japonicus
DNA Res, August 1, 2008; 15(4): 227 - 239.
[Abstract] [Full Text] [PDF]

Home page
 Proc. Natl. Acad. Sci. USAHome page
J. de Meaux, J.-Y. Hu, U. Tartler, and U. Goebel
Structurally different alleles of the ath-MIR824 microRNA precursor are maintained at high frequency in Arabidopsis thaliana
PNAS, July 1, 2008; 105(26): 8994 - 8999.
[Abstract] [Full Text] [PDF]

Home page
 Brief Funct Genomic ProteomicHome page
N. J. Lehrbach and E. A. Miska
Functional genomic, computational and proteomic analysis of C. elegans microRNAs
Brief Funct Genomic Proteomic, June 19, 2008; (2008) eln024v1.
[Abstract] [Full Text] [PDF]

Home page
 J. Biol. Chem.Home page
S. E. Abdel-Ghany and M. Pilon
MicroRNA-mediated Systemic Down-regulation of Copper Protein Expression in Response to Low Copper Availability in Arabidopsis
J. Biol. Chem., June 6, 2008; 283(23): 15932 - 15945.
[Abstract] [Full Text] [PDF]

Home page
 Mol Biol EvolHome page
N. Warthmann, S. Das, C. Lanz, and D. Weigel
Comparative Analysis of the MIR319a MicroRNA Locus in Arabidopsis and Related Brassicaceae
Mol. Biol. Evol., May 1, 2008; 25(5): 892 - 902.
[Abstract] [Full Text] [PDF]

Home page
 Plant Physiol.Home page
I. M. Ehrenreich and M. D. Purugganan
Sequence Variation of MicroRNAs and Their Binding Sites in Arabidopsis
Plant Physiology, April 1, 2008; 146(4): 1974 - 1982.
[Abstract] [Full Text] [PDF]

Home page
 Proc. Natl. Acad. Sci. USAHome page
R. S. Allen, J. Li, M. I. Stahle, A. Dubroue, F. Gubler, and A. A. Millar
From the Cover: Genetic analysis reveals functional redundancy and the major target genes of the Arabidopsis miR159 family
PNAS, October 9, 2007; 104(41): 16371 - 16376.
[Abstract] [Full Text] [PDF]

Home page
 Plant CellHome page
C. Kutter, H. Schob, M. Stadler, F. Meins Jr., and A. Si-Ammour
MicroRNA-Mediated Regulation of Stomatal Development in Arabidopsis
PLANT CELL, August 1, 2007; 19(8): 2417 - 2429.
[Abstract] [Full Text] [PDF]

Home page
 Proc. Natl. Acad. Sci. USAHome page
A. A. Bazzini, H. E. Hopp, R. N. Beachy, and S. Asurmendi
Infection and coaccumulation of tobacco mosaic virus proteins alter microRNA levels, correlating with symptom and plant development
PNAS, July 17, 2007; 104(29): 12157 - 12162.
[Abstract] [Full Text] [PDF]

Home page
 Plant CellHome page
M. J. Axtell, J. A. Snyder, and D. P. Bartel
Common Functions for Diverse Small RNAs of Land Plants
PLANT CELL, June 1, 2007; 19(6): 1750 - 1769.
[Abstract] [Full Text] [PDF]

Home page
 Genes Dev.Home page
T. Zhao, G. Li, S. Mi, S. Li, G. J. Hannon, X.-J. Wang, and Y. Qi
A complex system of small RNAs in the unicellular green alga Chlamydomonas reinhardtii
Genes & Dev., May 15, 2007; 21(10): 1190 - 1203.
[Abstract] [Full Text] [PDF]

Home page
 DevelopmentHome page
V. Ambros and X. Chen
The regulation of genes and genomes by small RNAs
Development, May 1, 2007; 134(9): 1635 - 1641.
[Abstract] [Full Text] [PDF]

Home page
 Proc. Natl. Acad. Sci. USAHome page
B. C. Thomas, L. Rapaka, E. Lyons, B. Pedersen, and M. Freeling
Arabidopsis intragenomic conserved noncoding sequence
PNAS, February 27, 2007; 104(9): 3348 - 3353.
[Abstract] [Full Text] [PDF]

Home page
 Plant CellHome page
M. Arteaga-Vazquez, J. Caballero-Perez, and J.-P. Vielle-Calzada
A Family of MicroRNAs Present in Plants and Animals
PLANT CELL, December 1, 2006; 18(12): 3355 - 3369.
[Abstract] [Full Text] [PDF]

Home page
 BioinformaticsHome page
Y. Wang, T. Hindemitt, and K. F. X. Mayer
Significant sequence similarities in promoters and precursors of Arabidopsis thaliana non-conserved microRNAs
Bioinformatics, November 1, 2006; 22(21): 2585 - 2589.
[Abstract] [Full Text] [PDF]

Home page
 DevelopmentHome page
M.-F. Wu, Q. Tian, and J. W. Reed
Arabidopsis microRNA167 controls patterns of ARF6 and ARF8 expression, and regulates both female and male reproduction
Development, November 1, 2006; 133(21): 4211 - 4218.
[Abstract] [Full Text] [PDF]

Home page
 Plant CellHome page
K. Nikovics, T. Blein, A. Peaucelle, T. Ishida, H. Morin, M. Aida, and P. Laufs
The Balance between the MIR164A and CUC2 Genes Controls Leaf Margin Serration in Arabidopsis
PLANT CELL, November 1, 2006; 18(11): 2929 - 2945.
[Abstract] [Full Text] [PDF]

Home page
 Genome ResHome page
C. Lu, K. Kulkarni, F. F. Souret, R. MuthuValliappan, S. S. Tej, R. S. Poethig, I. R. Henderson, S. E. Jacobsen, W. Wang, P. J. Green, et al.
MicroRNAs and other small RNAs enriched in the Arabidopsis RNA-dependent RNA polymerase-2 mutant
Genome Res., October 1, 2006; 16(10): 1276 - 1288.
[Abstract] [Full Text] [PDF]

Home page
 Plant CellHome page
R. Sunkar, A. Kapoor, and J.-K. Zhu
Posttranscriptional Induction of Two Cu/Zn Superoxide Dismutase Genes in Arabidopsis Is Mediated by Downregulation of miR398 and Important for Oxidative Stress Tolerance
PLANT CELL, August 1, 2006; 18(8): 2051 - 2065.
[Abstract] [Full Text] [PDF]

Home page
 Plant CellHome page
J. P. Alvarez, I. Pekker, A. Goldshmidt, E. Blum, Z. Amsellem, and Y. Eshed
Endogenous and Synthetic MicroRNAs Stimulate Simultaneous, Efficient, and Localized Regulation of Multiple Targets in Diverse Species
PLANT CELL, May 1, 2006; 18(5): 1134 - 1151.
[Abstract] [Full Text] [PDF]

Home page
 BioinformaticsHome page
T. Dezulian, M. Remmert, J. F. Palatnik, D. Weigel, and D. H. Huson
Identification of plant microRNA homologs
Bioinformatics, February 1, 2006; 22(3): 359 - 360.
[Abstract] [Full Text] [PDF]

Home page
 Plant CellHome page
T.-J. Chiou, K. Aung, S.-I Lin, C.-C. Wu, S.-F. Chiang, and C.-l. Su
Regulation of Phosphate Homeostasis by MicroRNA in Arabidopsis
PLANT CELL, February 1, 2006; 18(2): 412 - 421.
[Abstract] [Full Text] [PDF]

Home page
 Cold Spring Harb Symp Quant BiolHome page
K. CHEN and N. RAJEWSKY
Deep Conservation of MicroRNA-target Relationships and 3'UTR Motifs in Vertebrates, Flies, and Nematodes
Cold Spring Harb Symp Quant Biol, January 1, 2006; 71(0): 149 - 156.
[Abstract] [PDF]

Home page
 Cold Spring Harb Symp Quant BiolHome page
R.S. POETHIG, A. PERAGINE, M. YOSHIKAWA, C. HUNTER, M. WILLMANN, and G. WU
The Function of RNAi in Plant Development
Cold Spring Harb Symp Quant Biol, January 1, 2006; 71(0): 165 - 170.
[Abstract] [PDF]

Home page
 Nucleic Acids ResHome page
R. Sunkar, T. Girke, and J.-K. Zhu
Identification and characterization of endogenous small interfering RNAs from rice
Nucleic Acids Res., August 2, 2005; 33(14): 4443 - 4454.
[Abstract] [Full Text] [PDF]


HOME HELP FEEDBACK SUBSCRIPTIONS ARCHIVE SEARCH TABLE OF CONTENTS
ASPB Publications THE PLANT CELL PLANT PHYSIOLOGY
Copyright © 2005 by the American Society of Plant Biologists