MicroRNA evolution by arm switching
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In some closely-related species, the preferred miRNA arm for homologous miRNA genes is not the same, consistent with the idea that, in at least some cases, miRNA arm switching could be evolutionarily favored.
“Interestingly, in some closely‐related species, the preferred miRNA arm for homologous miRNA genes is not the same (de Wit et al., 2009; Griffiths‐Jones et al., 2011; Marco et al., 2010), consistent with the idea that, in at least some cases, miRNA arm switching could be evolutionarily favored.”
From microRNA strand selection: Unwinding the rules (2021) · cites this paper as Griffiths-Jones et al., 2011
miRNA arm switching has been proposed to influence miRNA evolution, as altered selection of a miRNA strand by Argonaute would be expected to result in a different mRNA target repertoire.
“Interestingly, miRNA arm switching has been proposed to influence miRNA evolution, as altered selection of a miRNA strand by Argonaute would be expected to result in a different mRNA target repertoire (de Wit, Linsen, Cuppen, & Berezikov, 2009; Griffiths‐Jones, Hui, Marco, & Ronshaugen, 2011; Marco, Hui, Ronshaugen, & Griffiths‐Jones, 2010).”
From microRNA strand selection: Unwinding the rules (2021) · cites this paper as Griffiths-Jones, Hui, Marco, & Ronshaugen, 2011
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Cites
A Mammalian microRNA Expression Atlas Based on Small RNA Library Sequencing
Landgraf, P., Rusu, M., Sheridan, R., Sewer, A., Iovino, N., Aravin, A., Pfeffer, S., Rice, A., Kamphorst, A. O., Landthaler, M., et al. (2007) · Cell · doi:10.1016/j.cell.2007.04.040 · Cited by 3,626 · see citing works
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Research works printed but not linked: 28
- Bartel DP (2009) MicroRNAs: target recognition and regulatory functions. Cell 136: 215– 233 19167326 PMC3794896
- Bernhart SH, Hofacker IL, Will S, Gruber AR, Stadler PF (2008) RNAalifold: improved consensus structure prediction for RNA alignments. BMC Bioinformatics 9: 474 19014431 PMC2621365
- Chiang HR (2010) Mammalian microRNAs: experimental evaluation of novel and previously annotated genes. Genes Dev 24: 992– 1009 20413612 PMC2867214
- Czech B, Zhou R, Erlich Y, Brennecke J, Binari R, Villalta C, Gordon A, Perrimon N, Hannon GJ (2009) Hierarchical rules for Argonaute loading in Drosophila. Mol Cell 36: 445– 456 19917252 PMC2795325
- de Wit E, Linsen S, Cuppen E, Berezikov E (2009) Repertoire and evolution of miRNA genes in four divergent nematode species. Genome Res 19: 2064– 2074 19755563 PMC2775598
- Enright AJ, John B, Gaul U, Tuschl T, Sander C, Marks DS (2003) MicroRNA targets in Drosophila. Genome Biol 5: R1 14709173 PMC395733
- Ghildiyal M, Xu J, Seitz H, Weng Z, Zamore PD (2009) Sorting of Drosophila small silencing RNAs partitions microRNA* strands into the RNA interference pathway. RNA 16: 43– 56 19917635 PMC2802036
- Glazov EA, Cottee PA, Barris WC, Moore RJ, Dalrymple BP, Tizard ML (2008) A microRNA catalog of the developing chicken embryo identified by a deep sequencing approach. Genome Res 18: 957– 964 18469162 PMC2413163
- Griffiths-Jones S (2005) RALEE–RNA ALignment editor in Emacs. Bioinformatics 21: 257– 259 15377506
- Griffiths-Jones S, Saini HK, van Dongen S, Enright AJ (2008) miRBase: tools for microRNA genomics. Nucleic Acids Res 36: D154– D158 17991681 PMC2238936
- Grimson A, Srivastava M, Fahey B, Woodcroft BJ, Chiang HR, King N, Degnan BM, Rokhsar DS, Bartel DP (2008) Early origins and evolution of microRNAs and Piwi-interacting RNAs in animals. Nature 455: 1193– 1197 18830242 PMC3837422
- Hutvagner G (2005) Small RNA asymmetry in RNAi: function in RISC assembly and gene regulation. FEBS Lett 579: 5850– 5857 16199039
- Khvorova A, Reynolds A, Jayasena SD (2003) Functional siRNAs and miRNAs exhibit strand bias. Cell 115: 209– 216 14567918
- Langmead B, Trapnell C, Pop M, Salzberg SL (2009) Ultrafast and memory-efficient alignment of short DNA sequences to the human genome. Genome Biol 10: R25 19261174 PMC2690996
- Larkin MA (2007) Clustal W and Clustal X version 2.0. Bioinformatics 23: 2947– 2948 17846036
- Lee Y (2003) The nuclear RNase III Drosha initiates microRNA processing. Nature 425: 415– 419 14508493
- Marco A, Hui JH, Ronshaugen M, Griffiths-Jones S (2010) Functional shifts in insect microRNA evolution. Genome Biol Evol 2: 686– 696 20817720 PMC2956262
- Nawrocki EP, Kolbe DL, Eddy SR (2009) Infernal 1.0: inference of RNA alignments. Bioinformatics 25: 1335– 1337 19307242 PMC2732312
- Okamura K, Phillips MD, Tyler DM, Duan H, Chou YT, Lai EC (2008) The regulatory activity of microRNA* species has substantial influence on microRNA and 3′ UTR evolution. Nat Struct Mol Biol 15: 354– 363 18376413 PMC2698667
- Okamura K, Liu N, Lai EC (2009) Distinct mechanisms for microRNA strand selection by Drosophila Argonautes. Mol Cell 36: 431– 444 19917251 PMC2785079
- Ro S, Park C, Young D, Sanders KM, Yan W (2007) Tissue-dependent paired expression of miRNAs. Nucleic Acids Res 35: 5944– 5953 17726050 PMC2034466
- Ruby JG, Stark A, Johnston WK, Kellis M, Bartel DP, Lai EC (2007) Evolution, biogenesis, expression, and target predictions of a substantially expanded set of Drosophila microRNAs. Genome Res 17: 1850– 1864 17989254 PMC2099593
- Schwarz DS, Hutvágner G, Du T, Xu Z, Aronin N, Zamore PD (2003) Asymmetry in the assembly of the RNAi enzyme complex. Cell 115: 199– 208 14567917
- Sempere LF, Sokol NS, Dubrovsky EB, Berger EM, Ambros V (2003) Temporal regulation of microRNA expression in Drosophila melanogaster mediated by hormonal signals and broad-complex gene activity. Dev Biol 259: 9– 18 12812784
- Shi W, Hendrix D, Levine M, Haley B (2009) A distinct class of small RNAs arises from pre-miRNA-proximal regions in a simple chordate. Nat Struct Mol Biol 16: 183– 189 19151725 PMC2746024
- Stark A (2007) Discovery of functional elements in 12 Drosophila genomes using evolutionary signatures. Nature 450: 219– 232 17994088 PMC2474711
- Wei Y, Chen S, Yang P, Ma Z, Kang L (2009) Characterization and comparative profiling of the small RNA transcriptomes in two phases of locust. Genome Biol 10: R6 19146710 PMC2687794
- Wheeler BM, Heimberg AM, Moy VN, Sperling EA, Holstein TW, Heber S, Peterson KJ (2009) The deep evolution of metazoan microRNAs. Evol Dev 11: 50– 68 19196333
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Oliveira, A. C. D., Bovolenta, L. A., Figueiredo, L., Ribeiro, A. D. O., Pereira, B. J. A., de Almeida, T. R. A., Campos, V. F., Patton, J. G., & Pinhal, D. (2024) · Evolutionary Bioinformatics · doi:10.1177/11769343241263230 · Cited by 2 · see citing works
- Authors
- Griffiths‐Jones, S., Hui, J. H. L., Marco, A., & Ronshaugen, M.
- Venue
- The EMBO Reports
- Published
- 2011-01-07
- Volume
- 12
- Issue
- 2
- Pages
- 172-177
- ISSN
- 1469-221X
- 1469-3178
- PMC
- PMC3049427
- Cited by
- 203
- References
- 1
- Language
- en
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