Literature DB >> 18448381

Diamonds in the rough: mRNA-like non-coding RNAs.

Linda A Rymarquis1, James P Kastenmayer, Alexander G Hüttenhofer, Pamela J Green.   

Abstract

Non-coding RNAs are increasingly being identified as crucial regulators of gene expression and other cellular functions in plants. Experimental and computational methods have revealed the existence of mRNA-like non-coding RNAs (mlncRNAs), a class of non-coding RNAs that, in plants, are associated with tissue-specific expression, development and the phosphate-starvation response. Although their mechanisms of action are largely unknown, one can speculate that mlncRNAs act through secondary structures or specific sequences that bind to proteins or metabolites, or that have catalytic activity. This review summarizes the computational methods developed to identify candidate mlncRNAs, and the current experimental evidence regarding the function of several known mlncRNAs.

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Year:  2008        PMID: 18448381     DOI: 10.1016/j.tplants.2008.02.009

Source DB:  PubMed          Journal:  Trends Plant Sci        ISSN: 1360-1385            Impact factor:   18.313


  44 in total

1.  Studies on subcellular compartmentalization of plant pathogenic noncoding RNAs give new insights into the intracellular RNA-traffic mechanisms.

Authors:  Gustavo Gómez; Vicente Pallas
Journal:  Plant Physiol       Date:  2012-04-03       Impact factor: 8.340

2.  Can the import of mRNA into chloroplasts be mediated by a secondary structure of a small non-coding RNA?

Authors:  Gustavo Gómez; Vicente Pallás
Journal:  Plant Signal Behav       Date:  2010-11-01

3.  The Solanum commersonii Genome Sequence Provides Insights into Adaptation to Stress Conditions and Genome Evolution of Wild Potato Relatives.

Authors:  Riccardo Aversano; Felice Contaldi; Maria Raffaella Ercolano; Valentina Grosso; Massimo Iorizzo; Filippo Tatino; Luciano Xumerle; Alessandra Dal Molin; Carla Avanzato; Alberto Ferrarini; Massimo Delledonne; Walter Sanseverino; Riccardo Aiese Cigliano; Salvador Capella-Gutierrez; Toni Gabaldón; Luigi Frusciante; James M Bradeen; Domenico Carputo
Journal:  Plant Cell       Date:  2015-04-14       Impact factor: 11.277

4.  RNA decoys: an emerging component of plant regulatory networks?

Authors:  Isaac R Banks; Yuanji Zhang; B Elizabeth Wiggins; Greg R Heck; Sergey Ivashuta
Journal:  Plant Signal Behav       Date:  2012-08-17

5.  Enrichment of mRNA-like noncoding RNAs in the divergence of Drosophila males.

Authors:  Zi-Feng Jiang; Dean A Croshaw; Yan Wang; Jody Hey; Carlos A Machado
Journal:  Mol Biol Evol       Date:  2010-11-01       Impact factor: 16.240

6.  Comparative transcriptomics for mangrove species: an expanding resource.

Authors:  Maheshi Dassanayake; Jeff S Haas; Hans J Bohnert; John M Cheeseman
Journal:  Funct Integr Genomics       Date:  2010-01-27       Impact factor: 3.410

7.  Plant noncoding RNA gene discovery by "single-genome comparative genomics".

Authors:  Chong-Jian Chen; Hui Zhou; Yue-Qin Chen; Liang-Hu Qu; Daniel Gautheret
Journal:  RNA       Date:  2011-01-10       Impact factor: 4.942

8.  Analysis of antisense expression by whole genome tiling microarrays and siRNAs suggests mis-annotation of Arabidopsis orphan protein-coding genes.

Authors:  Casey R Richardson; Qing-Jun Luo; Viktoria Gontcharova; Ying-Wen Jiang; Manoj Samanta; Eunseog Youn; Christopher D Rock
Journal:  PLoS One       Date:  2010-05-26       Impact factor: 3.240

9.  Noncoding RNA mediated traffic of foreign mRNA into chloroplasts reveals a novel signaling mechanism in plants.

Authors:  Gustavo Gómez; Vicente Pallás
Journal:  PLoS One       Date:  2010-08-19       Impact factor: 3.240

10.  Screening non-coding RNAs in transcriptomes from neglected species using PORTRAIT: case study of the pathogenic fungus Paracoccidioides brasiliensis.

Authors:  Roberto T Arrial; Roberto C Togawa; Marcelo de M Brigido
Journal:  BMC Bioinformatics       Date:  2009-08-04       Impact factor: 3.169

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