Interspecies Regulation of MicroRNAs and Their Targets

Overview

Journal Biochim Biophys Acta

Specialties Biochemistry
Biophysics

Date 2008 Apr 15

PMID 18407843

Citations 44

Authors

Misook Ha

Mingxiong Pang

Vikram Agarwal

Z Jeffrey Chen

Affiliations

Soon will be listed here.

Abstract

MicroRNAs (miRNAs) are 20-24 nucleotide RNA molecules that play essential roles in posttranscriptional regulation of target genes. In animals, miRNAs bind to target mRNA through imperfect complementary sequences that are usually located at the 3' untranslated regions (UTRs), leading to translational repression or transcript degradation. In plants, miRNAs predominately mediate degradation of target mRNAs via perfect or near-perfect complementary sequences. MicroRNA targets include a large number of transcription factors, suggesting a role of miRNAs in the control of regulatory networks and cellular growth and development. Many miRNAs and their targets are conserved among plants or animals, whereas some are specific to a few plant or animal lineages. Conserved miRNAs do not necessarily exhibit the same expression levels or patterns in different species or at different stages within a species. Therefore, sequence and expression divergence in miRNAs between species may affect miRNA accumulation and target regulation in interspecific hybrids and allopolyploids that contain two or more divergent genomes, leading to developmental changes and phenotypic variation in the new species.

Citing Articles

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References

Wang J, Tian L, Lee H, Wei N, Jiang H, Watson B . Genomewide nonadditive gene regulation in Arabidopsis allotetraploids. Genetics. 2005; 172(1):507-17. PMC: 1456178. DOI: 10.1534/genetics.105.047894. View

Niwa R, Slack F . The evolution of animal microRNA function. Curr Opin Genet Dev. 2007; 17(2):145-50. DOI: 10.1016/j.gde.2007.02.004. View

Lu C, Kulkarni K, Souret F, MuthuValliappan R, Tej S, Poethig R . MicroRNAs and other small RNAs enriched in the Arabidopsis RNA-dependent RNA polymerase-2 mutant. Genome Res. 2006; 16(10):1276-88. PMC: 1581437. DOI: 10.1101/gr.5530106. View

Baumberger N, Baulcombe D . Arabidopsis ARGONAUTE1 is an RNA Slicer that selectively recruits microRNAs and short interfering RNAs. Proc Natl Acad Sci U S A. 2005; 102(33):11928-33. PMC: 1182554. DOI: 10.1073/pnas.0505461102. View

Aravin A, Sachidanandam R, Girard A, Fejes-Toth K, Hannon G . Developmentally regulated piRNA clusters implicate MILI in transposon control. Science. 2007; 316(5825):744-7. DOI: 10.1126/science.1142612. View

Li A, Mao L . Evolution of plant microRNA gene families. Cell Res. 2006; 17(3):212-8. DOI: 10.1038/sj.cr.7310113. View

Wienholds E, Kloosterman W, Miska E, Alvarez-Saavedra E, Berezikov E, de Bruijn E . MicroRNA expression in zebrafish embryonic development. Science. 2005; 309(5732):310-1. DOI: 10.1126/science.1114519. View

Huettel B, Kanno T, Daxinger L, Aufsatz W, Matzke A, Matzke M . Endogenous targets of RNA-directed DNA methylation and Pol IV in Arabidopsis. EMBO J. 2006; 25(12):2828-36. PMC: 1500864. DOI: 10.1038/sj.emboj.7601150. View

Krek A, Grun D, Poy M, Wolf R, Rosenberg L, Epstein E . Combinatorial microRNA target predictions. Nat Genet. 2005; 37(5):495-500. DOI: 10.1038/ng1536. View

10.

Comai L, Tyagi A, Winter K, Holmes-Davis R, Reynolds S, Stevens Y . Phenotypic instability and rapid gene silencing in newly formed arabidopsis allotetraploids. Plant Cell. 2000; 12(9):1551-68. PMC: 149069. DOI: 10.1105/tpc.12.9.1551. View

11.

Fahlgren N, Howell M, Kasschau K, Chapman E, Sullivan C, Cumbie J . High-throughput sequencing of Arabidopsis microRNAs: evidence for frequent birth and death of MIRNA genes. PLoS One. 2007; 2(2):e219. PMC: 1790633. DOI: 10.1371/journal.pone.0000219. View

12.

Lim L, Lau N, Garrett-Engele P, Grimson A, Schelter J, Castle J . Microarray analysis shows that some microRNAs downregulate large numbers of target mRNAs. Nature. 2005; 433(7027):769-73. DOI: 10.1038/nature03315. View

13.

Chen X . A microRNA as a translational repressor of APETALA2 in Arabidopsis flower development. Science. 2003; 303(5666):2022-5. PMC: 5127708. DOI: 10.1126/science.1088060. View

14.

Chapman E, Carrington J . Specialization and evolution of endogenous small RNA pathways. Nat Rev Genet. 2007; 8(11):884-96. DOI: 10.1038/nrg2179. View

15.

Carmell M, Girard A, van de Kant H, Bourchis D, Bestor T, de Rooij D . MIWI2 is essential for spermatogenesis and repression of transposons in the mouse male germline. Dev Cell. 2007; 12(4):503-14. DOI: 10.1016/j.devcel.2007.03.001. View

16.

Warthmann N, Das S, Lanz C, Weigel D . Comparative analysis of the MIR319a microRNA locus in Arabidopsis and related Brassicaceae. Mol Biol Evol. 2008; 25(5):892-902. DOI: 10.1093/molbev/msn029. View

17.

Borsani O, Zhu J, Verslues P, Sunkar R, Zhu J . Endogenous siRNAs derived from a pair of natural cis-antisense transcripts regulate salt tolerance in Arabidopsis. Cell. 2005; 123(7):1279-91. PMC: 3137516. DOI: 10.1016/j.cell.2005.11.035. View

18.

Wu M, Tian Q, Reed J . Arabidopsis microRNA167 controls patterns of ARF6 and ARF8 expression, and regulates both female and male reproduction. Development. 2006; 133(21):4211-8. DOI: 10.1242/dev.02602. View

19.

Dezulian T, Remmert M, Palatnik J, Weigel D, Huson D . Identification of plant microRNA homologs. Bioinformatics. 2005; 22(3):359-60. DOI: 10.1093/bioinformatics/bti802. View

20.

Lu S, Sun Y, Shi R, Clark C, Li L, Chiang V . Novel and mechanical stress-responsive MicroRNAs in Populus trichocarpa that are absent from Arabidopsis. Plant Cell. 2005; 17(8):2186-203. PMC: 1182482. DOI: 10.1105/tpc.105.033456. View