Binding of miR398 to mRNA of Chaperone and Superoxide Dismutase Genes in Plants
Among all microRNAs (miRNAs) in 12 plant species investigated in this study, only miR398 targeted the copper chaperone for superoxide dismutase (CCS). The nucleotide sequences of miRNA binding sites were located in the mRNA protein-coding sequence (CDS) and were highly homologous. These binding sites in CCS mRNA encoded a conservative GDLGTL hexapeptide. The binding sites for miR398 in the CDS of superoxide dismutase 1 mRNA encoded GDLGN pentapeptide. The conservative miR398 binding site located in the CDS of superoxide dismutase 2 mRNA encoded the GDLGNI hexapeptide. The miR398 binding site in the CDS of superoxide dismutase 3 mRNA encoded the GDLGNI or GDLGNV hexapeptide. Gene expression of the entire superoxide dismutase family in the studied plant species was regulated only by miR398. All members of the miR398 family, i.e. miR398a,b,c were connected to one site for each CuZnSOD and chaperone mRNA.
<p>[1] X. Jia, V. Mendu, G. Tang, “An array platform for identification of
stress-responsive microRNAs in plants,” Methods Mol. Biol., vol. 639,
pp. 253-269, 2010.
[2] L. Beauclair, A. Yu, N. Bouché, “microRNA-directed cleavage and
translational repression of the copper chaperone for superoxide
dismutase mRNA in Arabidopsis,” Plant J., vol. 62, no. 3, pp. 454-462,
2010.
[3] K.A. Markossian, B.I. Kurganov, “Copper chaperones, intracellular
copper trafficking proteins. Function, structure, and mechanism of
action,” Biochemistry (Mosc), vol. 68, no. 8, pp. 827-837, 2003.
[4] H. Yamasaki, S.E. Abdel-Ghany, C.M. Cohu, Y. Kobayashi, T.
Shikanai, M. Pilon, “Regulation of copper homeostasis by micro-RNA
in Arabidopsis,” J. Biol. Chem., vol. 282, no. 22, pp.16369-16378, 2007.
[5] Y.F. Ding, C. Zhu, “The role of microRNAs in copper and cadmium
homeostasis,” Biochem. Biophys. Res. Commun., vol. 386, no. 1, pp. 6-
10, 2009.
[6] G. Jagadeeswaran, A. Saini, R. Sunkar, “Biotic and abiotic stress downregulate
miR398 expression in Arabidopsis,” Planta, vol. 229, no. 4,
pp.1009-1014, 2009.
[7] Y.F. Ding, G.Y. Wang, Y.P. Fu, C. Zhu. Yi Chuan, “The role of miR398
in plant stress responses,” Yi Chuan, vol. 32, no. 2, pp. 129-134, 2010.
[8] N. Bouché, “New insights into miR398 functions in Arabidopsis,” Plant
Signal Behav., vol. 5, no. 6, pp. 684-686, 2010.
[9] D.H. Jeong, M.A. German, L.A. Rymarquis, S.R. Thatcher, P.J. Green,
“Abiotic stress-associated miRNAs: detection and functional analysis,”
Methods Mol. Biol., vol. 592, pp. 203-230, 2010.
[10] Y. Lu, Z. Feng, L. Bian, H. Xie, J. Liang, “miR398 regulation in rice of
the responses to abiotic and biotic stresses depends on CSD1 and CSD2
expression,” Func. Plant Biol., vol. 38, no. 1, pp. 44-53, 2010.
[11] M. Kantar, S.J. Lucas, H. Budak, “miRNA expression patterns of
Triticum dicoccoides in response to shock drought stress,” Planta, vol.
233, no. 3, pp. 471-84, 2010.
[12] V. Eldem, U. Çelikkol Akçay, E. Ozhuner, Y. Bakır, S. Uranbey, T.
Unver, “Genome-wide identification of miRNAs responsive to drought
in peach (Prunus persica) by high-throughput deep sequencing,” PLoS
One, vol. 7, no. 12, e50298, 2012.
[13] R. Sunkar, A. Kapoor, 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, vol. 18, no. 8, pp. 2051-2065, 2006.
[14] L.C. Hsieh, S.I. Lin, A.C. Shih, J.W. Chen, W.Y. Lin, C.Y. Tseng, W.H.
Li, T.J. Chiou, “Uncovering small RNA-mediated responses to
phosphate deficiency in Arabidopsis by deep sequencing,” Plant
Physiol., vol. 151, no. 4, pp. 2120-2132, 2009.
[15] I. Trindade, C. Capitão, T. Dalmay, M.P. Fevereiro, D.M. Santos,
“miR398 and miR408 are up-regulated in response to water deficit in
Medicago truncatula,” Planta, vol. 231, no. 3, pp. 705-716, 2010.
[16] H. Lee, S.J. Yoo, J.H. Lee, W. Kim, S.K. Yoo, H. Fitzgerald, J.C.
Carrington, J.H. Ahn, “Genetic framework for flowering-time regulation
by ambient temperature-responsive miRNAs in Arabidopsis,” Nucleic
Acids Res., vol. 38, no. 9, pp. 3081-3093, 2010.
[17] C. Zhu, Y. Ding, H. Liu, “MiR398 and plant stress responses,” Physiol.
Plant., vol. 143, no. 1, pp. 1-9, 2011.
[18] X. Jia, W.X. Wang, L. Ren, Q.J. Chen, V. Mendu, B. Willcut, R.
Dinkins, X. Tang, G. Tang, “Differential and dynamic regulation of
miR398 in response to ABA and salt stress in Populus tremula and
Arabidopsis thaliana,”. Plant Mol. Biol., vol. 71, no. 1-2, pp. 51-59,
2009.
[19] I. Juszczak, M. Baier, “The strength of the miR398-Csd2-CCS1 regulon
is subject to natural variation in Arabidopsis thaliana,” FEBS Lett., vol.
586, no. 19, pp. 3385-90, 2012.
[20] C.C. Chu, W.C. Lee, W.Y. Guo, S.M. Pan, L.J. Chen, H.M. Li, T.L.
Jinn, “A copper chaperone for superoxide dismutase that confers three
types of copper/zinc superoxide dismutase activity in Arabidopsis,”
Plant Physiol., vol. 139, no. 1, pp. 425-436, 2005.
[21] G.B. Robb, T.M. Rana, “RNA helicase. A interacts with RISC in human
cells and functions in RISC loading,” Mol. Cell, vol. 26, no. 4, pp. 523-
537, 2007.</p>
<p>[1] X. Jia, V. Mendu, G. Tang, “An array platform for identification of
stress-responsive microRNAs in plants,” Methods Mol. Biol., vol. 639,
pp. 253-269, 2010.
[2] L. Beauclair, A. Yu, N. Bouché, “microRNA-directed cleavage and
translational repression of the copper chaperone for superoxide
dismutase mRNA in Arabidopsis,” Plant J., vol. 62, no. 3, pp. 454-462,
2010.
[3] K.A. Markossian, B.I. Kurganov, “Copper chaperones, intracellular
copper trafficking proteins. Function, structure, and mechanism of
action,” Biochemistry (Mosc), vol. 68, no. 8, pp. 827-837, 2003.
[4] H. Yamasaki, S.E. Abdel-Ghany, C.M. Cohu, Y. Kobayashi, T.
Shikanai, M. Pilon, “Regulation of copper homeostasis by micro-RNA
in Arabidopsis,” J. Biol. Chem., vol. 282, no. 22, pp.16369-16378, 2007.
[5] Y.F. Ding, C. Zhu, “The role of microRNAs in copper and cadmium
homeostasis,” Biochem. Biophys. Res. Commun., vol. 386, no. 1, pp. 6-
10, 2009.
[6] G. Jagadeeswaran, A. Saini, R. Sunkar, “Biotic and abiotic stress downregulate
miR398 expression in Arabidopsis,” Planta, vol. 229, no. 4,
pp.1009-1014, 2009.
[7] Y.F. Ding, G.Y. Wang, Y.P. Fu, C. Zhu. Yi Chuan, “The role of miR398
in plant stress responses,” Yi Chuan, vol. 32, no. 2, pp. 129-134, 2010.
[8] N. Bouché, “New insights into miR398 functions in Arabidopsis,” Plant
Signal Behav., vol. 5, no. 6, pp. 684-686, 2010.
[9] D.H. Jeong, M.A. German, L.A. Rymarquis, S.R. Thatcher, P.J. Green,
“Abiotic stress-associated miRNAs: detection and functional analysis,”
Methods Mol. Biol., vol. 592, pp. 203-230, 2010.
[10] Y. Lu, Z. Feng, L. Bian, H. Xie, J. Liang, “miR398 regulation in rice of
the responses to abiotic and biotic stresses depends on CSD1 and CSD2
expression,” Func. Plant Biol., vol. 38, no. 1, pp. 44-53, 2010.
[11] M. Kantar, S.J. Lucas, H. Budak, “miRNA expression patterns of
Triticum dicoccoides in response to shock drought stress,” Planta, vol.
233, no. 3, pp. 471-84, 2010.
[12] V. Eldem, U. Çelikkol Akçay, E. Ozhuner, Y. Bakır, S. Uranbey, T.
Unver, “Genome-wide identification of miRNAs responsive to drought
in peach (Prunus persica) by high-throughput deep sequencing,” PLoS
One, vol. 7, no. 12, e50298, 2012.
[13] R. Sunkar, A. Kapoor, 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, vol. 18, no. 8, pp. 2051-2065, 2006.
[14] L.C. Hsieh, S.I. Lin, A.C. Shih, J.W. Chen, W.Y. Lin, C.Y. Tseng, W.H.
Li, T.J. Chiou, “Uncovering small RNA-mediated responses to
phosphate deficiency in Arabidopsis by deep sequencing,” Plant
Physiol., vol. 151, no. 4, pp. 2120-2132, 2009.
[15] I. Trindade, C. Capitão, T. Dalmay, M.P. Fevereiro, D.M. Santos,
“miR398 and miR408 are up-regulated in response to water deficit in
Medicago truncatula,” Planta, vol. 231, no. 3, pp. 705-716, 2010.
[16] H. Lee, S.J. Yoo, J.H. Lee, W. Kim, S.K. Yoo, H. Fitzgerald, J.C.
Carrington, J.H. Ahn, “Genetic framework for flowering-time regulation
by ambient temperature-responsive miRNAs in Arabidopsis,” Nucleic
Acids Res., vol. 38, no. 9, pp. 3081-3093, 2010.
[17] C. Zhu, Y. Ding, H. Liu, “MiR398 and plant stress responses,” Physiol.
Plant., vol. 143, no. 1, pp. 1-9, 2011.
[18] X. Jia, W.X. Wang, L. Ren, Q.J. Chen, V. Mendu, B. Willcut, R.
Dinkins, X. Tang, G. Tang, “Differential and dynamic regulation of
miR398 in response to ABA and salt stress in Populus tremula and
Arabidopsis thaliana,”. Plant Mol. Biol., vol. 71, no. 1-2, pp. 51-59,
2009.
[19] I. Juszczak, M. Baier, “The strength of the miR398-Csd2-CCS1 regulon
is subject to natural variation in Arabidopsis thaliana,” FEBS Lett., vol.
586, no. 19, pp. 3385-90, 2012.
[20] C.C. Chu, W.C. Lee, W.Y. Guo, S.M. Pan, L.J. Chen, H.M. Li, T.L.
Jinn, “A copper chaperone for superoxide dismutase that confers three
types of copper/zinc superoxide dismutase activity in Arabidopsis,”
Plant Physiol., vol. 139, no. 1, pp. 425-436, 2005.
[21] G.B. Robb, T.M. Rana, “RNA helicase. A interacts with RISC in human
cells and functions in RISC loading,” Mol. Cell, vol. 26, no. 4, pp. 523-
537, 2007.</p>
@article{"International Journal of Biological, Life and Agricultural Sciences:64564", author = "Assyl Bari and Olga Berillo and Saltanat Orazova and Anatoliy Ivashchenko", title = "Binding of miR398 to mRNA of Chaperone and Superoxide Dismutase Genes in Plants", abstract = "Among all microRNAs (miRNAs) in 12 plant species investigated in this study, only miR398 targeted the copper chaperone for superoxide dismutase (CCS). The nucleotide sequences of miRNA binding sites were located in the mRNA protein-coding sequence (CDS) and were highly homologous. These binding sites in CCS mRNA encoded a conservative GDLGTL hexapeptide. The binding sites for miR398 in the CDS of superoxide dismutase 1 mRNA encoded GDLGN pentapeptide. The conservative miR398 binding site located in the CDS of superoxide dismutase 2 mRNA encoded the GDLGNI hexapeptide. The miR398 binding site in the CDS of superoxide dismutase 3 mRNA encoded the GDLGNI or GDLGNV hexapeptide. Gene expression of the entire superoxide dismutase family in the studied plant species was regulated only by miR398. All members of the miR398 family, i.e. miR398a,b,c were connected to one site for each CuZnSOD and chaperone mRNA.
", keywords = "MicroRNA, mRNA, plant, superoxide dismutase.", volume = "7", number = "7", pages = "748-4", }
