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1 Martínez de Alba, A.E., Elvira-Matelot, E., Vaucheret, H., Gene silencing in plants: a diversity of pathways. Biochim Biophys Acta 1829 (2013), 1300–1308.
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2 Ameres, S.L., Zamore, P.D., Diversifying microRNA sequence and function. Nat Rev Mol Cell Biol 14 (2013), 475–488.
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3 Sunkar, R., Li, Y.-F., Jagadeeswaran, G., Functions of microRNAs in plant stress responses. Trends Plant Sci 17 (2012), 196–203.
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Sample sequencing of vascular plants demonstrates widespread conservation and divergence of microRNAs
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In this study, the authors sequenced small RNAs from algae and from representative species across vascular plants, identified miRNAs, and characterized the five main features of these miRNAs. This study provided an overview of miRNAs across the plant kingdom for the first time and set the foundation for future studies on miRNA evolution.
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4•• Chávez Montes, R.A., de Fátima Rosas-Cárdenas, F., De Paoli, E., Accerbi, M., Rymarquis, L.A., Mahalingam, G., Marsch-Martínez, N., Meyers, B.C., Green, P.J., de Folter, S., Sample sequencing of vascular plants demonstrates widespread conservation and divergence of microRNAs. Nat Commun, 5, 2014, 3722 In this study, the authors sequenced small RNAs from algae and from representative species across vascular plants, identified miRNAs, and characterized the five main features of these miRNAs. This study provided an overview of miRNAs across the plant kingdom for the first time and set the foundation for future studies on miRNA evolution.
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Chávez Montes, R.A.1
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5
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5 Meunier, J., Lemoine, F., Soumillon, M., Liechti, A., Weier, M., Guschanski, K., Hu, H., Khaitovich, P., Kaessmann, H., Birth and expression evolution of mammalian microRNA genes. Genome Res 23 (2013), 34–45.
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This study provided new evidence supporting that miRNA pathways in plants and animals might have had a common origin but underwent parallel evolution. The authors employed a forward genetic screen and identified DCL3 as an important miRNA biogenesis factor for the unicellular model plant, Chlamydomonas reinhardtii. The Chlamydomonas DCL3 protein shows similarity to Drosha in animals. Other features of Chlamydonomas miRNAs, such as miRNA gene distribution within introns of protein coding genes and the location of miRNA target sites in the 3′ UTR of target genes, are similar to those in animals rather than higher plants.
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9•• Valli, A.A., Santos, B.A.C.M., Hnatova, S., Bassett, A.R., Molnar, A., Chung, B.Y., Baulcombe, D.C., Most microRNAs in the single-cell alga Chlamydomonas reinhardtii are produced by Dicer-like 3-mediated cleavage of introns and untranslated regions of coding RNAs. Genome Res 26 (2016), 519–529 This study provided new evidence supporting that miRNA pathways in plants and animals might have had a common origin but underwent parallel evolution. The authors employed a forward genetic screen and identified DCL3 as an important miRNA biogenesis factor for the unicellular model plant, Chlamydomonas reinhardtii. The Chlamydomonas DCL3 protein shows similarity to Drosha in animals. Other features of Chlamydonomas miRNAs, such as miRNA gene distribution within introns of protein coding genes and the location of miRNA target sites in the 3′ UTR of target genes, are similar to those in animals rather than higher plants.
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Valli, A.A.1
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Complementarity to an miRNA seed region is sufficient to induce moderate repression of a target transcript in the unicellular green alga Chlamydomonas reinhardtii
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This work revealed that complementarity to the seed region of a miRNA is sufficient for target recognition by this miRNA in the green alga Chlamydomonas reinhardtii. The findings in this study, along with those in Ref. [9], suggest that miRNA biogenesis and action in Chlamydomonas resemble those in metazoans.
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10• Yamasaki, T., Voshall, A., Kim, E.J., Moriyama, E., Cerutti, H., Ohama, T., Complementarity to an miRNA seed region is sufficient to induce moderate repression of a target transcript in the unicellular green alga Chlamydomonas reinhardtii. Plant J 76 (2013), 1045–1056 This work revealed that complementarity to the seed region of a miRNA is sufficient for target recognition by this miRNA in the green alga Chlamydomonas reinhardtii. The findings in this study, along with those in Ref. [9], suggest that miRNA biogenesis and action in Chlamydomonas resemble those in metazoans.
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12 Singh, R.K., Gase, K., Baldwin, I.T., Pandey, S.P., Molecular evolution and diversification of the Argonaute family of proteins in plants. BMC Plant Biol, 15, 2015, 23.
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This review article summarizes recent progress in studies of AGO proteins in both eudicots and monocots, especially in Arabidopsis and rice, and designates a new nomenclature for plant AGO genes. Moreover, this paper shows that the AGO18 subfamily that functions in reproductive development and viral defense is phylogenetically grass-specific.
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13• Zhang, H., Xia, R., Meyers, B.C., Walbot, V., Evolution, functions, and mysteries of plant ARGONAUTE proteins. Curr Opin Plant Biol 27 (2015), 84–90 This review article summarizes recent progress in studies of AGO proteins in both eudicots and monocots, especially in Arabidopsis and rice, and designates a new nomenclature for plant AGO genes. Moreover, this paper shows that the AGO18 subfamily that functions in reproductive development and viral defense is phylogenetically grass-specific.
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14 Wu, J., Yang, Z., Wang, Y., Zheng, L., Ye, R., Ji, Y., Zhao, S., Ji, S., Liu, R., Xu, L., et al. Viral-inducible Argonaute18 confers broad-spectrum virus resistance in rice by sequestering a host microRNA. eLife, 4, 2015, 356.
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15 Zhai, L., Sun, W., Zhang, K., Jia, H., Liu, L., Liu, Z., Teng, F., Zhang, Z., Identification and characterization of Argonaute gene family and meiosis-enriched Argonaute during sporogenesis in maize. J Integr Plant Biol 56 (2014), 1042–1052.
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16 Zhu, H., Hu, F., Wang, R., Zhou, X., Sze, S.-H., Liou, L.W., Barefoot, A., Dickman, M., Zhang, X., Arabidopsis Argonaute10 specifically sequesters miR166/165 to regulate shoot apical meristem development. Cell 145 (2011), 242–256.
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17 Ji, L., Liu, X., Yan, J., Wang, W., Yumul, R.E., Kim, Y.J., Dinh, T.T., Liu, J., Cui, X., Zheng, B., et al. ARGONAUTE10 and ARGONAUTE1 regulate the termination of floral stem cells through two microRNAs in Arabidopsis. PLoS Genet, 7, 2011, e1001358.
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19 Alaba, S., Piszczalka, P., Pietrykowska, H., Pacak, A.M., Sierocka, I., Nuc, P.W., Singh, K., Plewka, P., Sulkowska, A., Jarmolowski, A., et al. The liverwort Pellia endiviifolia shares microtranscriptomic traits that are common to green algae and land plants. New Phytol 206 (2015), 352–367.
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22 Liu, T., Fang, C., Ma, Y., Shen, Y., Li, C., Li, Q., Wang, M., Liu, S., Zhang, J., Zhou, Z., et al. Global investigation of the co-evolution of MIRNA genes and microRNA targets during soybean domestication. Plant J 85 (2016), 396–409.
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27 Fahlgren, N., Jogdeo, S., Kasschau, K.D., Sullivan, C.M., Chapman, E.J., Laubinger, S., Smith, L.M., Dasenko, M., Givan, S.A., Weigel, D., et al. MicroRNA gene evolution in Arabidopsis lyrata and Arabidopsis thaliana. Plant Cell 22 (2010), 1074–1089.
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