메뉴 건너뛰기




Volumn 12, Issue 3, 2014, Pages 354-366

High-throughput deep sequencing shows that microRNAs play important roles in switchgrass responses to drought and salinity stress

Author keywords

Biofuel; Drought; High throughput sequencing; MicroRNA; Salt; Switchgrass

Indexed keywords

PANICUM VIRGATUM;

EID: 84896399698     PISSN: 14677644     EISSN: 14677652     Source Type: Journal    
DOI: 10.1111/pbi.12142     Document Type: Article
Times cited : (141)

References (53)
  • 1
    • 17444430392 scopus 로고    scopus 로고
    • microRNA-directed phasing during trans-acting siRNA biogenesis in plants
    • Allen, E., Xie, Z., Gustafson, A.M. and Carrington, J.C. (2005) microRNA-directed phasing during trans-acting siRNA biogenesis in plants. Cell, 121, 207-221.
    • (2005) Cell , vol.121 , pp. 207-221
    • Allen, E.1    Xie, Z.2    Gustafson, A.M.3    Carrington, J.C.4
  • 3
    • 36749037521 scopus 로고    scopus 로고
    • The Piwi-piRNA pathway provides an adaptive defense in the transposon arms race
    • Aravin, A.A., Hannon, G.J. and Brennecke, J. (2007) The Piwi-piRNA pathway provides an adaptive defense in the transposon arms race. Science, 318, 761-764.
    • (2007) Science , vol.318 , pp. 761-764
    • Aravin, A.A.1    Hannon, G.J.2    Brennecke, J.3
  • 4
    • 0347444723 scopus 로고    scopus 로고
    • MicroRNAs: genomics, biogenesis, mechanism, and function
    • Bartel, D.P. (2004) MicroRNAs: genomics, biogenesis, mechanism, and function. Cell, 116, 281-297.
    • (2004) Cell , vol.116 , pp. 281-297
    • Bartel, D.P.1
  • 5
    • 36549029334 scopus 로고    scopus 로고
    • Molecular breeding of switchgrass for use as a biofuel crop
    • Bouton, J.H. (2007) Molecular breeding of switchgrass for use as a biofuel crop. Curr. Opin. Genet. Dev. 17, 553-558.
    • (2007) Curr. Opin. Genet. Dev. , vol.17 , pp. 553-558
    • Bouton, J.H.1
  • 6
    • 84861014492 scopus 로고    scopus 로고
    • Effects of aluminum oxide nanoparticles on the growth, development, and microRNA expression of tobacco (Nicotiana tabacum)
    • doi:10.1371/journal.pone.0034783.
    • Burklew, C.E., Ashlock, J., Winfrey, W.B. and Zhang, B.H. (2012) Effects of aluminum oxide nanoparticles on the growth, development, and microRNA expression of tobacco (Nicotiana tabacum). PLoS ONE, 7, e34783. doi:10.1371/journal.pone.0034783.
    • (2012) PLoS ONE , vol.7
    • Burklew, C.E.1    Ashlock, J.2    Winfrey, W.B.3    Zhang, B.H.4
  • 7
    • 0038299558 scopus 로고    scopus 로고
    • Role of microRNAs in plant and animal development
    • Carrington, J.C. and Ambros, V. (2003) Role of microRNAs in plant and animal development. Science, 301, 336-338.
    • (2003) Science , vol.301 , pp. 336-338
    • Carrington, J.C.1    Ambros, V.2
  • 8
    • 70350227275 scopus 로고    scopus 로고
    • Small RNAs and their roles in plant development
    • Chen, X. (2009) Small RNAs and their roles in plant development. Annu. Rev. Cell Dev. Biol. 25, 21-44.
    • (2009) Annu. Rev. Cell Dev. Biol. , vol.25 , pp. 21-44
    • Chen, X.1
  • 12
    • 37249011300 scopus 로고    scopus 로고
    • SALT TOLERANCE HOMOLOG2, a B-box protein in Arabidopsis that activates transcription and positively regulates light-mediated development
    • Datta, S., Hettiarachchi, C., Johansson, H. and Holm, M. (2007) SALT TOLERANCE HOMOLOG2, a B-box protein in Arabidopsis that activates transcription and positively regulates light-mediated development. Plant Cell, 19, 3242-3255.
    • (2007) Plant Cell , vol.19 , pp. 3242-3255
    • Datta, S.1    Hettiarachchi, C.2    Johansson, H.3    Holm, M.4
  • 13
    • 0035160923 scopus 로고    scopus 로고
    • RNA interference in Trypanosoma brucei: cloning of small interfering RNAs provides evidence for retroposon-derived 24-26-nucleotide RNAs
    • Djikeng, A., Shi, H., Tschudi, C. and Ullu, E. (2001) RNA interference in Trypanosoma brucei: cloning of small interfering RNAs provides evidence for retroposon-derived 24-26-nucleotide RNAs. RNA, 7, 1522-1530.
    • (2001) RNA , vol.7 , pp. 1522-1530
    • Djikeng, A.1    Shi, H.2    Tschudi, C.3    Ullu, E.4
  • 15
    • 0037316517 scopus 로고    scopus 로고
    • Posttranscriptional gene silencing is not compromised in the Arabidopsis CARPEL FACTORY (DICER-LIKE1) mutant, a homolog of Dicer-1 from Drosophila
    • Finnegan, E.J., Margis, R. and Waterhouse, P.M. (2003) Posttranscriptional gene silencing is not compromised in the Arabidopsis CARPEL FACTORY (DICER-LIKE1) mutant, a homolog of Dicer-1 from Drosophila. Curr. Biol. 13, 236-240.
    • (2003) Curr. Biol. , vol.13 , pp. 236-240
    • Finnegan, E.J.1    Margis, R.2    Waterhouse, P.M.3
  • 16
    • 84855985318 scopus 로고    scopus 로고
    • Salt and drought stresses induce the aberrant expression of microRNA genes in tobacco
    • Frazier, T.P., Sun, G.L., Burklew, C.E. and Zhang, B.H. (2011) Salt and drought stresses induce the aberrant expression of microRNA genes in tobacco. Mol. Biotechnol. 49, 159-165.
    • (2011) Mol. Biotechnol. , vol.49 , pp. 159-165
    • Frazier, T.P.1    Sun, G.L.2    Burklew, C.E.3    Zhang, B.H.4
  • 17
    • 84862800354 scopus 로고    scopus 로고
    • Overexpression of miR156 in switchgrass (Panicum virgatum L.) results in various morphological alterations and leads to improved biomass production
    • Fu, C., Sunkar, R., Zhou, C., Shen, H., Zhang, J.Y., Matts, J., Wolf, J., Mann, D.G., Stewart C.N. Jr, Tang, Y. and Wang, Z.Y. (2012) Overexpression of miR156 in switchgrass (Panicum virgatum L.) results in various morphological alterations and leads to improved biomass production. Plant Biotechnol. J. 10, 443-452.
    • (2012) Plant Biotechnol. J. , vol.10 , pp. 443-452
    • Fu, C.1    Sunkar, R.2    Zhou, C.3    Shen, H.4    Zhang, J.Y.5    Matts, J.6    Wolf, J.7    Mann, D.G.8    Stewart Jr., C.N.9    Tang, Y.10    Wang, Z.Y.11
  • 18
    • 84860224690 scopus 로고    scopus 로고
    • The heterologous expression in Arabidopsis of a chrysanthemum Cys2/His2 zinc finger protein gene confers salinity and drought tolerance
    • Gao, H., Song, A., Zhu, X., Chen, F., Jiang, J., Chen, Y., Sun, Y., Shan, H., Gu, C., Li, P. and Chen, S. (2011) The heterologous expression in Arabidopsis of a chrysanthemum Cys2/His2 zinc finger protein gene confers salinity and drought tolerance. Planta, 235, 979-993.
    • (2011) Planta , vol.235 , pp. 979-993
    • Gao, H.1    Song, A.2    Zhu, X.3    Chen, F.4    Jiang, J.5    Chen, Y.6    Sun, Y.7    Shan, H.8    Gu, C.9    Li, P.10    Chen, S.11
  • 20
    • 0347755643 scopus 로고    scopus 로고
    • The microRNA Registry
    • Griffiths-Jones, S. (2004) The microRNA Registry. Nucleic Acids Res. 32 (Database issue), 109-111.
    • (2004) Nucleic Acids Res. , vol.32 , Issue.Database issue , pp. 109-111
    • Griffiths-Jones, S.1
  • 24
    • 41149149873 scopus 로고    scopus 로고
    • Sorting out small RNAs
    • Kim, V.N. (2008) Sorting out small RNAs. Cell, 133, 25-26.
    • (2008) Cell , vol.133 , pp. 25-26
    • Kim, V.N.1
  • 25
    • 78651293534 scopus 로고    scopus 로고
    • miRBase: integrating microRNA annotation and deep-sequencing data
    • (Database issue)
    • Kozomara, A. and Griffiths-Jones, S. (2011) miRBase: integrating microRNA annotation and deep-sequencing data. Nucleic Acids Res. 39 (Database issue), 152-157.
    • (2011) Nucleic Acids Res. , vol.39 , pp. 152-157
    • Kozomara, A.1    Griffiths-Jones, S.2
  • 26
    • 79954606171 scopus 로고    scopus 로고
    • Identification and analysis of seven HO-responsive miRNAs and 32 new miRNAs in the seedlings of rice (Oryza sativa L. ssp. indica)
    • Li, T., Li, H., Zhang, Y.X. and Liu, J.Y. (2011) Identification and analysis of seven HO-responsive miRNAs and 32 new miRNAs in the seedlings of rice (Oryza sativa L. ssp. indica). Nucleic Acids Res. 39, 2821-2833.
    • (2011) Nucleic Acids Res. , vol.39 , pp. 2821-2833
    • Li, T.1    Li, H.2    Zhang, Y.X.3    Liu, J.Y.4
  • 27
    • 77953516310 scopus 로고    scopus 로고
    • MicroRNA395 mediates regulation of sulfate accumulation and allocation in Arabidopsis thaliana
    • Liang, G., Yang, F. and Yu, D. (2010) MicroRNA395 mediates regulation of sulfate accumulation and allocation in Arabidopsis thaliana. Plant J. 62, 1046-1057.
    • (2010) Plant J. , vol.62 , pp. 1046-1057
    • Liang, G.1    Yang, F.2    Yu, D.3
  • 28
    • 33845312687 scopus 로고    scopus 로고
    • MicroRNA responses to cellular stress
    • Marsit, C.J., Eddy, K. and Kelsey, K.T. (2006) MicroRNA responses to cellular stress. Cancer Res. 66, 10843-10848.
    • (2006) Cancer Res. , vol.66 , pp. 10843-10848
    • Marsit, C.J.1    Eddy, K.2    Kelsey, K.T.3
  • 30
    • 77953129094 scopus 로고    scopus 로고
    • Identification of microRNAs and their targets in switchgrass, a model biofuel plant species
    • Matts, J., Jagadeeswaran, G., Roe, B.A. and Sunkar, R. (2010) Identification of microRNAs and their targets in switchgrass, a model biofuel plant species. J. Plant Physiol. 167, 896-904.
    • (2010) J. Plant Physiol. , vol.167 , pp. 896-904
    • Matts, J.1    Jagadeeswaran, G.2    Roe, B.A.3    Sunkar, R.4
  • 31
    • 4444383501 scopus 로고    scopus 로고
    • Conjugation-specific small RNAs in Tetrahymena have predicted properties of scan (scn) RNAs involved in genome rearrangement
    • Mochizuki, K. and Gorovsky, M.A. (2004) Conjugation-specific small RNAs in Tetrahymena have predicted properties of scan (scn) RNAs involved in genome rearrangement. Genes Dev. 18, 2068-2073.
    • (2004) Genes Dev. , vol.18 , pp. 2068-2073
    • Mochizuki, K.1    Gorovsky, M.A.2
  • 33
    • 33646157967 scopus 로고    scopus 로고
    • Comprehensive analysis of microRNA expression patterns in hepatocellular carcinoma and non-tumorous tissues
    • Murakami, Y., Yasuda, T., Saigo, K., Urashima, T., Toyoda, H., Okanoue, T. and Shimotohno, K. (2006) Comprehensive analysis of microRNA expression patterns in hepatocellular carcinoma and non-tumorous tissues. Oncogene, 25, 2537-2545.
    • (2006) Oncogene , vol.25 , pp. 2537-2545
    • Murakami, Y.1    Yasuda, T.2    Saigo, K.3    Urashima, T.4    Toyoda, H.5    Okanoue, T.6    Shimotohno, K.7
  • 35
    • 34250729886 scopus 로고    scopus 로고
    • Origin and evolution of human microRNAs from transposable elements
    • Piriyapongsa, J., Marino-Ramirez, L. and Jordan, I.K. (2007) Origin and evolution of human microRNAs from transposable elements. Genetics, 176, 1323-1337.
    • (2007) Genetics , vol.176 , pp. 1323-1337
    • Piriyapongsa, J.1    Marino-Ramirez, L.2    Jordan, I.K.3
  • 36
    • 33845688601 scopus 로고    scopus 로고
    • A diverse and evolutionarily fluid set of microRNAs in Arabidopsis thaliana
    • Rajagopalan, R., Vaucheret, H., Trejo, J. and Bartel, D.P. (2006) A diverse and evolutionarily fluid set of microRNAs in Arabidopsis thaliana. Genes Dev. 20, 3407-3425.
    • (2006) Genes Dev. , vol.20 , pp. 3407-3425
    • Rajagopalan, R.1    Vaucheret, H.2    Trejo, J.3    Bartel, D.P.4
  • 37
    • 0037072660 scopus 로고    scopus 로고
    • Small RNAs correspond to centromere heterochromatic repeats
    • Reinhart, B.J. and Bartel, D.P. (2002) Small RNAs correspond to centromere heterochromatic repeats. Science, 297, 1831.
    • (2002) Science , vol.297 , pp. 1831
    • Reinhart, B.J.1    Bartel, D.P.2
  • 39
  • 41
    • 84859073075 scopus 로고    scopus 로고
    • MicroRNA expression analysis in the cellulosic biofuel crop switchgrass (Panicum virgatum) under abiotic stress
    • Sun, G., Stewart, C.N. Jr, Xiao, P. and Zhang, B. (2012) MicroRNA expression analysis in the cellulosic biofuel crop switchgrass (Panicum virgatum) under abiotic stress. PLoS ONE, 7, e32017.
    • (2012) PLoS ONE , vol.7
    • Sun, G.1    Stewart Jr., C.N.2    Xiao, P.3    Zhang, B.4
  • 42
    • 33747505089 scopus 로고    scopus 로고
    • Posttranscriptional induction of two Cu/Zn superoxide dismutase genes in Arabidopsis is mediated by downregulation of miR398 and important for oxidative stress tolerance
    • Sunkar, R., Kapoor, A. and Zhu, J.K. (2006) 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, 18, 2051-2065.
    • (2006) Plant Cell , vol.18 , pp. 2051-2065
    • Sunkar, R.1    Kapoor, A.2    Zhu, J.K.3
  • 43
    • 2342450524 scopus 로고    scopus 로고
    • Molecular evolution of a microRNA cluster
    • Tanzer, A. and Stadler, P.F. (2004) Molecular evolution of a microRNA cluster. J. Mol. Biol. 339, 327-335.
    • (2004) J. Mol. Biol. , vol.339 , pp. 327-335
    • Tanzer, A.1    Stadler, P.F.2
  • 44
    • 79959262495 scopus 로고    scopus 로고
    • Deep sequencing on genome-wide scale reveals the unique composition and expression patterns of microRNAs in developing pollen of Oryza sativa
    • Wei, L.Q., Yan, L.F. and Wang, T. (2011) Deep sequencing on genome-wide scale reveals the unique composition and expression patterns of microRNAs in developing pollen of Oryza sativa. Genome Biol. 12, R53.
    • (2011) Genome Biol. , vol.12
    • Wei, L.Q.1    Yan, L.F.2    Wang, T.3
  • 46
    • 0038076109 scopus 로고    scopus 로고
    • Negative feedback regulation of Dicer-Like1 in Arabidopsis by microRNA-guided mRNA degradation
    • Xie, Z., Kasschau, K.D. and Carrington, J.C. (2003) Negative feedback regulation of Dicer-Like1 in Arabidopsis by microRNA-guided mRNA degradation. Curr. Biol. 13, 784-789.
    • (2003) Curr. Biol. , vol.13 , pp. 784-789
    • Xie, Z.1    Kasschau, K.D.2    Carrington, J.C.3
  • 48
    • 77953683331 scopus 로고    scopus 로고
    • Identification and characterization of microRNAs and their targets in the bioenergy plant switchgrass (Panicum virgatum)
    • Xie, F., Frazier, T.P. and Zhang, B. (2010) Identification and characterization of microRNAs and their targets in the bioenergy plant switchgrass (Panicum virgatum). Planta, 232, 417-434.
    • (2010) Planta , vol.232 , pp. 417-434
    • Xie, F.1    Frazier, T.P.2    Zhang, B.3
  • 49
    • 84865407608 scopus 로고    scopus 로고
    • miRDeepFinder: a miRNA analysis tool for deep sequencing of plant small RNAs
    • Xie, F., Xiao, P., Chen, D., Xu, L. and Zhang, B. (2012) miRDeepFinder: a miRNA analysis tool for deep sequencing of plant small RNAs. Plant Mol. Biol. 80, 75-84.
    • (2012) Plant Mol. Biol. , vol.80 , pp. 75-84
    • Xie, F.1    Xiao, P.2    Chen, D.3    Xu, L.4    Zhang, B.5
  • 50
    • 84856540295 scopus 로고    scopus 로고
    • Tracing the origin and evolutionary history of plant nucleotide-binding site-leucine-rich repeat (NBS-LRR) genes
    • Yue, J.X., Meyers, B.C., Chen, J.Q., Tian, D. and Yang, S. (2012) Tracing the origin and evolutionary history of plant nucleotide-binding site-leucine-rich repeat (NBS-LRR) genes. New Phytol. 193, 1049-1063.
    • (2012) New Phytol. , vol.193 , pp. 1049-1063
    • Yue, J.X.1    Meyers, B.C.2    Chen, J.Q.3    Tian, D.4    Yang, S.5
  • 51
    • 70349325795 scopus 로고    scopus 로고
    • Expression of MicroRNAs in Cotton
    • Zhang, B.H. and Pan, X.P. (2009) Expression of MicroRNAs in Cotton. Mol. Biotechnol. 42, 269-274.
    • (2009) Mol. Biotechnol. , vol.42 , pp. 269-274
    • Zhang, B.H.1    Pan, X.P.2
  • 52
    • 81555234540 scopus 로고    scopus 로고
    • iAssembler: a package for de novo assembly of Roche-454/Sanger transcriptome sequences
    • Zheng, Y., Zhao, L., Gao, J. and Fei, Z. (2011) iAssembler: a package for de novo assembly of Roche-454/Sanger transcriptome sequences. BMC Bioinformatics, 12, 453.
    • (2011) BMC Bioinformatics , vol.12 , pp. 453
    • Zheng, Y.1    Zhao, L.2    Gao, J.3    Fei, Z.4
  • 53
    • 0036999615 scopus 로고    scopus 로고
    • Salt and drought stress signal transduction in plants
    • Zhu, J.K. (2002) Salt and drought stress signal transduction in plants. Annu. Rev. Plant Biol. 53, 247-273.
    • (2002) Annu. Rev. Plant Biol. , vol.53 , pp. 247-273
    • Zhu, J.K.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.