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Volumn 16, Issue 1, 2015, Pages

miRVine: A microRNA expression atlas of grapevine based on small RNA sequencing

Author keywords

Berries; Deep Sequencing; Ethylene biosynthesis; Grapevine; Inflorescences; microRNAs; Plant development; RT qPCR

Indexed keywords

ETHYLENE; MESSENGER RNA; MICRORNA; TRANSCRIPTOME;

EID: 85019238632     PISSN: None     EISSN: 14712164     Source Type: Journal    
DOI: 10.1186/s12864-015-1610-5     Document Type: Article
Times cited : (56)

References (103)
  • 1
    • 34848886909 scopus 로고    scopus 로고
    • The grapevine genome sequence suggests ancestral hexaploidization in major angiosperm phyla
    • Jaillon O, Aury J-M, Noel B, Policriti A, Clepet C, Casagrande A, et al. The grapevine genome sequence suggests ancestral hexaploidization in major angiosperm phyla. Nature. 2007;449:463-7.
    • (2007) Nature , vol.449 , pp. 463-467
    • Jaillon, O.1    Aury, J.-M.2    Noel, B.3    Policriti, A.4    Clepet, C.5    Casagrande, A.6
  • 2
    • 77950545365 scopus 로고    scopus 로고
    • Characterization of transcriptional complexity during berry development in Vitis vinifera using RNA-Seq
    • Zenoni S, Ferrarini A, Giacomelli E, Xumerle L, Fasoli M, Malerba G, et al. Characterization of transcriptional complexity during berry development in Vitis vinifera using RNA-Seq. Plant Physiol. 2010;152:1787-95.
    • (2010) Plant Physiol , vol.152 , pp. 1787-1795
    • Zenoni, S.1    Ferrarini, A.2    Giacomelli, E.3    Xumerle, L.4    Fasoli, M.5    Malerba, G.6
  • 3
    • 78249266582 scopus 로고    scopus 로고
    • Identification of putative stage-specific grapevine berry biomarkers and omics data integration into networks
    • Zamboni A, Di Carli M, Guzzo F, Stocchero M, Zenoni S, Ferrarini A, et al. Identification of putative stage-specific grapevine berry biomarkers and omics data integration into networks. Plant Physiol. 2010;154:1439-59.
    • (2010) Plant Physiol , vol.154 , pp. 1439-1459
    • Zamboni, A.1    Carli, M.2    Guzzo, F.3    Stocchero, M.4    Zenoni, S.5    Ferrarini, A.6
  • 4
    • 84868110135 scopus 로고    scopus 로고
    • The grapevine expression atlas reveals a deep transcriptome shift driving the entire plant into a maturation program
    • Fasoli M, Dal Santo S, Zenoni S, Tornielli GB, Farina L, Zamboni A, et al. The grapevine expression atlas reveals a deep transcriptome shift driving the entire plant into a maturation program. Plant Cell. 2012;3489-3505.
    • (2012) Plant Cell. , pp. 3489-3505
    • Fasoli, M.1    Dal Santo, S.2    Zenoni, S.3    Tornielli, G.B.4    Farina, L.5    Zamboni, A.6
  • 5
    • 84868152191 scopus 로고    scopus 로고
    • Transcriptomics and metabolomics for the analysis of grape berry development
    • Edited by Gerós H, Chaves MM, Delrot S. Sharjah United Arab Emirates: Bentham Science Publisher
    • Tornielli G, Zamboni A, Zenoni S, Delledonne M, Pezzotti M: Transcriptomics and metabolomics for the analysis of grape berry development. In: The Biochemistry of the Grape Berry. Edited by Gerós H, Chaves MM, Delrot S. Sharjah United Arab Emirates: Bentham Science Publisher 2012, 218-240
    • (2012) The Biochemistry of the Grape Berry , pp. 218-240
    • Tornielli, G.1    Zamboni, A.2    Zenoni, S.3    Delledonne, M.4    Pezzotti, M.5
  • 7
    • 18344369543 scopus 로고    scopus 로고
    • MicroRNA biogenesis: coordinated cropping and dicing
    • Kim VN. MicroRNA biogenesis: coordinated cropping and dicing. Nat Rev Mol Cell Biol. 2005;6:376-85.
    • (2005) Nat Rev Mol Cell Biol , vol.6 , pp. 376-385
    • Kim, V.N.1
  • 8
    • 33745271035 scopus 로고    scopus 로고
    • Functions of microRNAs and related small RNAs in plants
    • Mallory AC, Vaucheret H. Functions of microRNAs and related small RNAs in plants. Nat Genet. 2006;38(Suppl):S31-6.
    • (2006) Nat Genet , vol.38 , pp. S31-S36
    • Mallory, A.C.1    Vaucheret, H.2
  • 9
    • 67651069409 scopus 로고    scopus 로고
    • The cornucopia of small RNAs in plant genomes
    • Simon SA, Zhai J, Zeng J, Meyers BC. The cornucopia of small RNAs in plant genomes. Rice. 2008;1:52-62.
    • (2008) Rice , vol.1 , pp. 52-62
    • Simon, S.A.1    Zhai, J.2    Zeng, J.3    Meyers, B.C.4
  • 10
    • 70350227275 scopus 로고    scopus 로고
    • Small RNAs and their roles in plant development
    • Chen X. Small RNAs and their roles in plant development. Annu Rev Cell Dev Biol. 2009;25:21-44.
    • (2009) Annu Rev Cell Dev Biol , vol.25 , pp. 21-44
    • Chen, X.1
  • 11
    • 67651036643 scopus 로고    scopus 로고
    • Roles of plant small RNAs in biotic stress responses
    • Ruiz-Ferrer V, Voinnet O. Roles of plant small RNAs in biotic stress responses. Annu Rev Plant Biol. 2009;60:485-510.
    • (2009) Annu Rev Plant Biol , vol.60 , pp. 485-510
    • Ruiz-Ferrer, V.1    Voinnet, O.2
  • 12
    • 0038299558 scopus 로고    scopus 로고
    • Role of microRNAs in plant and animal development
    • Carrington JC, Ambros V. Role of microRNAs in plant and animal development. Science. 2003;301:336-8.
    • (2003) Science , vol.301 , pp. 336-338
    • Carrington, J.C.1    Ambros, V.2
  • 13
    • 1642366133 scopus 로고    scopus 로고
    • A microRNA as a translational repressor of APETALA2 in Arabidopsis flower development
    • Chen X. A microRNA as a translational repressor of APETALA2 in Arabidopsis flower development. Science. 2004;303:2022-5.
    • (2004) Science , vol.303 , pp. 2022-2025
    • Chen, X.1
  • 14
    • 0242361521 scopus 로고    scopus 로고
    • Regulation of flowering time and floral organ identity by a MicroRNA and its APETALA2-like target genes
    • Aukerman MJ, Sakai H. Regulation of flowering time and floral organ identity by a MicroRNA and its APETALA2-like target genes. Plant Cell. 2003;15:2730-41.
    • (2003) Plant Cell , vol.15 , pp. 2730-2741
    • Aukerman, M.J.1    Sakai, H.2
  • 15
    • 84858980069 scopus 로고    scopus 로고
    • Identification of microRNAs from Amur grape (Vitis amurensis Rupr.) by deep sequencing and analysis of microRNA variations with bioinformatics
    • Wang C, Han J, Liu C, Kibet K, Kayesh E, Shangguan L, et al. Identification of microRNAs from Amur grape (Vitis amurensis Rupr.) by deep sequencing and analysis of microRNA variations with bioinformatics. BMC Genomics. 2012;13:122.
    • (2012) BMC Genomics , vol.13 , pp. 122
    • Wang, C.1    Han, J.2    Liu, C.3    Kibet, K.4    Kayesh, E.5    Shangguan, L.6
  • 16
    • 1842484780 scopus 로고    scopus 로고
    • Gene regulation: ancient microRNA target sequences in plants
    • Floyd SK, Bowman JL. Gene regulation: ancient microRNA target sequences in plants. Nature. 2004;428:485-6.
    • (2004) Nature , vol.428 , pp. 485-486
    • Floyd, S.K.1    Bowman, J.L.2
  • 17
    • 4243111895 scopus 로고    scopus 로고
    • Modulation of floral development by a gibberellin-regulated microRNA
    • Achard P, Herr A, Baulcombe DC, Harberd NP. Modulation of floral development by a gibberellin-regulated microRNA. Development. 2004;131:3357-65.
    • (2004) Development , vol.131 , pp. 3357-3365
    • Achard, P.1    Herr, A.2    Baulcombe, D.C.3    Harberd, N.P.4
  • 19
    • 76049126414 scopus 로고    scopus 로고
    • miR398 and miR408 are up-regulated in response to water deficit in Medicago truncatula
    • Trindade I, Capitão C, Dalmay T, Fevereiro MP, Dos Santos DM. miR398 and miR408 are up-regulated in response to water deficit in Medicago truncatula. Planta. 2010;231:705-16.
    • (2010) Planta , vol.231 , pp. 705-716
    • Trindade, I.1    Capitão, C.2    Dalmay, T.3    Fevereiro, M.P.4    Dos Santos, D.M.5
  • 20
    • 83155180472 scopus 로고
    • Role of miRNAs and siRNAs in biotic and abiotic stress responses of plants
    • Khraiwesh B, Zhu J-K, Zhu J. Role of miRNAs and siRNAs in biotic and abiotic stress responses of plants. Biochim Biophys Acta. 1819;2012:137-48.
    • (1819) Biochim Biophys Acta , vol.2012 , pp. 137-148
    • Khraiwesh, B.1    Zhu, J.-K.2    Zhu, J.3
  • 21
    • 84862779295 scopus 로고    scopus 로고
    • Functions of microRNAs in plant stress responses
    • Sunkar R, Li YF, Jagadeeswaran G. Functions of microRNAs in plant stress responses. Trends Plant Sci. 2012;17:196-203.
    • (2012) Trends Plant Sci , vol.17 , pp. 196-203
    • Sunkar, R.1    Li, Y.F.2    Jagadeeswaran, G.3
  • 22
    • 77953169004 scopus 로고    scopus 로고
    • The role of small non-coding RNAs in genome stability and chromatin organization
    • Van Wolfswinkel JC, Ketting RF. The role of small non-coding RNAs in genome stability and chromatin organization. J Cell Sci. 2010;123:1825-39.
    • (2010) J Cell Sci , vol.123 , pp. 1825-1839
    • Wolfswinkel, J.C.1    Ketting, R.F.2
  • 23
    • 84872533627 scopus 로고    scopus 로고
    • RNA interference in the nucleus: roles for small RNAs in transcription, epigenetics and beyond
    • Castel SE, Martienssen RA. RNA interference in the nucleus: roles for small RNAs in transcription, epigenetics and beyond. Nat Rev Genet. 2013;14:100-12.
    • (2013) Nat Rev Genet , vol.14 , pp. 100-112
    • Castel, S.E.1    Martienssen, R.A.2
  • 24
    • 69249101248 scopus 로고    scopus 로고
    • Cloning and characterization of small non-coding RNAs from grape
    • Carra A, Mica E, Gambino G, Pindo M, Moser C, Pè ME, et al. Cloning and characterization of small non-coding RNAs from grape. Plant J. 2009;59:750-63.
    • (2009) Plant J , vol.59 , pp. 750-763
    • Carra, A.1    Mica, E.2    Gambino, G.3    Pindo, M.4    Moser, C.5    Pè, M.E.6
  • 25
    • 77949441403 scopus 로고    scopus 로고
    • Correction: High throughput approaches reveal splicing of primary microRNA transcripts and tissue specific expression of mature microRNAs in Vitis vinifera
    • Mica E, Piccolo V, Delledonne M, Ferrarini A, Pezzotti M, Casati C, et al. Correction: High throughput approaches reveal splicing of primary microRNA transcripts and tissue specific expression of mature microRNAs in Vitis vinifera. BMC Genomics. 2010;11:109.
    • (2010) BMC Genomics , vol.11 , pp. 109
    • Mica, E.1    Piccolo, V.2    Delledonne, M.3    Ferrarini, A.4    Pezzotti, M.5    Casati, C.6
  • 26
    • 77953489252 scopus 로고    scopus 로고
    • Identification of grapevine microRNAs and their targets using high-throughput sequencing and degradome analysis
    • Pantaleo V, Szittya G, Moxon S, Miozzi L, Moulton V, Dalmay T, et al. Identification of grapevine microRNAs and their targets using high-throughput sequencing and degradome analysis. Plant J. 2010;62:960-76.
    • (2010) Plant J , vol.62 , pp. 960-976
    • Pantaleo, V.1    Szittya, G.2    Moxon, S.3    Miozzi, L.4    Moulton, V.5    Dalmay, T.6
  • 27
    • 80051564048 scopus 로고    scopus 로고
    • Deep sequencing of grapevine flower and berry short RNA library for discovery of novel microRNAs and validation of precise sequences of grapevine microRNAs deposited in miRBase
    • Wang C, Wang X, Kibet NK, Song C, Zhang C, Li X, et al. Deep sequencing of grapevine flower and berry short RNA library for discovery of novel microRNAs and validation of precise sequences of grapevine microRNAs deposited in miRBase. Physiol Plant. 2011;143:64-81.
    • (2011) Physiol Plant , vol.143 , pp. 64-81
    • Wang, C.1    Wang, X.2    Kibet, N.K.3    Song, C.4    Zhang, C.5    Li, X.6
  • 28
    • 84878108949 scopus 로고    scopus 로고
    • Characterization of target mRNAs for grapevine microRNAs with an integrated strategy of modified RLM-RACE, newly developed PPM-RACE and qPCRs
    • Wang C, Han J, Korir NK, Wang X, Liu H, Li X, et al. Characterization of target mRNAs for grapevine microRNAs with an integrated strategy of modified RLM-RACE, newly developed PPM-RACE and qPCRs. J Plant Physiol. 2013;170:943-57.
    • (2013) J Plant Physiol , vol.170 , pp. 943-957
    • Wang, C.1    Han, J.2    Korir, N.K.3    Wang, X.4    Liu, H.5    Li, X.6
  • 29
    • 84896706704 scopus 로고    scopus 로고
    • Grapevine microRNAs responsive to exogenous gibberellin
    • Han J, Fang J, Wang C, Yin Y, Sun X, Leng X, et al. Grapevine microRNAs responsive to exogenous gibberellin. BMC Genomics. 2014;15:111.
    • (2014) BMC Genomics , vol.15 , pp. 111
    • Han, J.1    Fang, J.2    Wang, C.3    Yin, Y.4    Sun, X.5    Leng, X.6
  • 30
    • 84890885297 scopus 로고    scopus 로고
    • Transcriptome-wide analysis of dynamic variations in regulation modes of grapevine microRNAs on their target genes during grapevine development
    • Wang C, Leng X, Zhang Y, Kayesh E, Zhang Y, Sun X, et al. Transcriptome-wide analysis of dynamic variations in regulation modes of grapevine microRNAs on their target genes during grapevine development. Plant Mol Biol. 2014;84:269-85.
    • (2014) Plant Mol Biol , vol.84 , pp. 269-285
    • Wang, C.1    Leng, X.2    Zhang, Y.3    Kayesh, E.4    Zhang, Y.5    Sun, X.6
  • 31
    • 84867996752 scopus 로고    scopus 로고
    • High-throughput sequence analysis of small RNAs in grapevine (Vitis vinifera L.) affected by grapevine leafroll disease
    • Alabi OJ, Zheng Y, Jagadeeswaran G, Sunkar R, Naidu RA. High-throughput sequence analysis of small RNAs in grapevine (Vitis vinifera L.) affected by grapevine leafroll disease. Mol Plant Pathol. 2012;13:1060-76.
    • (2012) Mol Plant Pathol , vol.13 , pp. 1060-1076
    • Alabi, O.J.1    Zheng, Y.2    Jagadeeswaran, G.3    Sunkar, R.4    Naidu, R.A.5
  • 32
    • 84899487011 scopus 로고    scopus 로고
    • Sample sequencing of vascular plants demonstrates widespread conservation and divergence of microRNAs
    • Montes RAC, de Fátima R-CF, De Paoli E, Accerbi M, Rymarquis LA, Mahalingam G, et al. Sample sequencing of vascular plants demonstrates widespread conservation and divergence of microRNAs. Nat Commun. 2014;5:3722.
    • (2014) Nat Commun , vol.5 , pp. 3722
    • Montes, R.A.C.1    Fátima, R.-C.2    Paoli, E.3    Accerbi, M.4    Rymarquis, L.A.5    Mahalingam, G.6
  • 33
    • 82955207556 scopus 로고    scopus 로고
    • MicroRNAs as master regulators of the plant NB-LRR defense gene family via the production of phased, trans-acting siRNAs
    • Zhai J, Jeong DH, de Paoli E, Park S, Rosen BD, Li Y, et al. MicroRNAs as master regulators of the plant NB-LRR defense gene family via the production of phased, trans-acting siRNAs. Genes Dev. 2011;25:2540-53.
    • (2011) Genes Dev , vol.25 , pp. 2540-2553
    • Zhai, J.1    Jeong, D.H.2    Paoli, E.3    Park, S.4    Rosen, B.D.5    Li, Y.6
  • 34
    • 84863012576 scopus 로고    scopus 로고
    • Massive analysis of rice small RNAs: mechanistic implications of regulated microRNAs and variants for differential target RNA cleavage
    • Jeong D-H, Park S, Zhai J, Gurazada SGR, De Paoli E, Meyers BC, et al. Massive analysis of rice small RNAs: mechanistic implications of regulated microRNAs and variants for differential target RNA cleavage. Plant Cell. 2011;23:4185-207.
    • (2011) Plant Cell , vol.23 , pp. 4185-4207
    • Jeong, D.-H.1    Park, S.2    Zhai, J.3    Gurazada, S.G.R.4    Paoli, E.5    Meyers, B.C.6
  • 35
    • 84873045250 scopus 로고    scopus 로고
    • Genome-wide identification of soybean microRNAs and their targets reveals their organ-specificity and responses to phosphate starvation
    • Xu F, Liu Q, Chen L, Kuang J, Walk T, Wang J, et al. Genome-wide identification of soybean microRNAs and their targets reveals their organ-specificity and responses to phosphate starvation. BMC Genomics. 2013;14:66.
    • (2013) BMC Genomics , vol.14 , pp. 66
    • Xu, F.1    Liu, Q.2    Chen, L.3    Kuang, J.4    Walk, T.5    Wang, J.6
  • 36
    • 84890844310 scopus 로고    scopus 로고
    • Parallel analysis of RNA ends enhances global investigation of microRNAs and target RNAs of Brachypodium distachyon
    • Jeong DH, Schmidt S, Rymarquis L, Park S, Ganssmann M, German M, et al. Parallel analysis of RNA ends enhances global investigation of microRNAs and target RNAs of Brachypodium distachyon. Genome Biol. 2013;14:R145.
    • (2013) Genome Biol , vol.14 , pp. R145
    • Jeong, D.H.1    Schmidt, S.2    Rymarquis, L.3    Park, S.4    Ganssmann, M.5    German, M.6
  • 37
    • 84961288187 scopus 로고    scopus 로고
    • An atlas of soybean small RNAs identifies phased siRNAs from hundreds of coding genes
    • Arikit S, Xia R, Kakrana A, Kun Huang K, Zhai J, Zhe Z, et al. An atlas of soybean small RNAs identifies phased siRNAs from hundreds of coding genes. Plant Cell. 2014;26:4584-601.
    • (2014) Plant Cell , vol.26 , pp. 4584-4601
    • Arikit, S.1    Xia, R.2    Kakrana, A.3    Kun Huang, K.4    Zhai, J.5    Zhe, Z.6
  • 38
    • 84899708631 scopus 로고    scopus 로고
    • Comprehensive genome-wide study on tissue-specific and abiotic stress-specific miRNAs in triticum aestivum
    • Pandey R, Joshi G, Bhardwaj AR, Agarwal M, Katiyar-Agarwal SA. Comprehensive genome-wide study on tissue-specific and abiotic stress-specific miRNAs in triticum aestivum. PLoS One. 2014;9:e95800.
    • (2014) PLoS One , vol.9
    • Pandey, R.1    Joshi, G.2    Bhardwaj, A.R.3    Agarwal, M.4    Katiyar-Agarwal, S.A.5
  • 39
    • 84923064460 scopus 로고    scopus 로고
    • Bioinformatics analysis of small RNAs in pima (gossypium barbadense L.)
    • Hu H, Yu D, Liu H. Bioinformatics analysis of small RNAs in pima (gossypium barbadense L.). PLoS One. 2015;10:e0116826.
    • (2015) PLoS One , vol.10
    • Hu, H.1    Yu, D.2    Liu, H.3
  • 40
    • 84879704714 scopus 로고    scopus 로고
    • Comprehensive investigation of microRNAs enhanced by analysis of sequence variants, expression patterns, ARGONAUTE loading, and target cleavage
    • Jeong D-H, Thatcher SR, Brown RSH, Zhai J, Park S, Rymarquis LA, et al. Comprehensive investigation of microRNAs enhanced by analysis of sequence variants, expression patterns, ARGONAUTE loading, and target cleavage. Plant Physiol. 2013;162:1225-45.
    • (2013) Plant Physiol , vol.162 , pp. 1225-1245
    • Jeong, D.-H.1    Thatcher, S.R.2    Brown, R.S.H.3    Zhai, J.4    Park, S.5    Rymarquis, L.A.6
  • 41
    • 79961204641 scopus 로고    scopus 로고
    • Stars and symbiosis: MicroRNA- and MicroRNA*-mediated transcript cleavage involved in arbuscular mycorrhizal symbiosis
    • Devers EA, Branscheid A, May P, Krajinski F. Stars and symbiosis: MicroRNA- and MicroRNA*-mediated transcript cleavage involved in arbuscular mycorrhizal symbiosis. Plant Physiol. 2011;156:1990-2010.
    • (2011) Plant Physiol , vol.156 , pp. 1990-2010
    • Devers, E.A.1    Branscheid, A.2    May, P.3    Krajinski, F.4
  • 45
    • 34547115664 scopus 로고    scopus 로고
    • High-throughput sequencing of Arabidopsis microRNAs: evidence for frequent birth and death of MIRNAGenes
    • Fahlgren N, Howell MD, Kasschau KD, Chapman EJ, Sullivan CM, Cumbie JS, et al. High-throughput sequencing of Arabidopsis microRNAs: evidence for frequent birth and death of MIRNAGenes. PLoS One. 2007;2:e219.
    • (2007) PLoS One , vol.2
    • Fahlgren, N.1    Howell, M.D.2    Kasschau, K.D.3    Chapman, E.J.4    Sullivan, C.M.5    Cumbie, J.S.6
  • 46
    • 84900846639 scopus 로고    scopus 로고
    • A comparison of performance of plant miRNA target prediction tools and the characterization of features for genome-wide target prediction
    • Srivastava PK, Moturu TR, Pandey P, Baldwin IT, Pandey SP. A comparison of performance of plant miRNA target prediction tools and the characterization of features for genome-wide target prediction. BMC Genomics. 2014;15:348.
    • (2014) BMC Genomics , vol.15 , pp. 348
    • Srivastava, P.K.1    Moturu, T.R.2    Pandey, P.3    Baldwin, I.T.4    Pandey, S.P.5
  • 47
    • 79959967431 scopus 로고    scopus 로고
    • psRNATarget: a plant small RNA target analysis server
    • Dai X, Zhao PX. psRNATarget: a plant small RNA target analysis server. Nucleic Acids Res. 2011;39:W155-9.
    • (2011) Nucleic Acids Res , vol.39 , pp. W155-W159
    • Dai, X.1    Zhao, P.X.2
  • 48
    • 34047174556 scopus 로고    scopus 로고
    • The heterochronic maize mutant Corngrass1 results from overexpression of a tandem microRNA
    • Chuck G, Cigan AM, Saeteurn K, Hake S. The heterochronic maize mutant Corngrass1 results from overexpression of a tandem microRNA. Nat Genet. 2007;39:544-9.
    • (2007) Nat Genet , vol.39 , pp. 544-549
    • Chuck, G.1    Cigan, A.M.2    Saeteurn, K.3    Hake, S.4
  • 49
    • 68749100821 scopus 로고    scopus 로고
    • The sequential action of miR156 and miR172 regulates developmental timing in Arabidopsis
    • Wu G, Park MY, Conway SR, Wang JW, Weigel D, Poethig RS. The sequential action of miR156 and miR172 regulates developmental timing in Arabidopsis. Cell. 2009;138:750-9.
    • (2009) Cell , vol.138 , pp. 750-759
    • Wu, G.1    Park, M.Y.2    Conway, S.R.3    Wang, J.W.4    Weigel, D.5    Poethig, R.S.6
  • 50
    • 78650648484 scopus 로고    scopus 로고
    • Regulation of flowering time and floral patterning by miR172
    • Zhu QH, Helliwell CA. Regulation of flowering time and floral patterning by miR172. J Exp Bot. 2011;62:487-95.
    • (2011) J Exp Bot , vol.62 , pp. 487-495
    • Zhu, Q.H.1    Helliwell, C.A.2
  • 51
    • 84897400157 scopus 로고    scopus 로고
    • Identification and profiling of novel and conserved microRNAs during the flower opening process in Prunus mume via deep sequencing
    • Wang T, Pan H, Wang J, Yang W, Cheng T, Zhang Q. Identification and profiling of novel and conserved microRNAs during the flower opening process in Prunus mume via deep sequencing. Mol Genet Genomics. 2014;289:169-83.
    • (2014) Mol Genet Genomics , vol.289 , pp. 169-183
    • Wang, T.1    Pan, H.2    Wang, J.3    Yang, W.4    Cheng, T.5    Zhang, Q.6
  • 52
    • 61649088270 scopus 로고    scopus 로고
    • Type B phosphatidylinositol-4-phosphate 5-kinases mediate Arabidopsis and Nicotiana tabacum pollen tube growth by regulating apical pectin secretion
    • Ischebeck T, Stenzel I, Heilmann I. Type B phosphatidylinositol-4-phosphate 5-kinases mediate Arabidopsis and Nicotiana tabacum pollen tube growth by regulating apical pectin secretion. Plant Cell. 2008;20:3312-30.
    • (2008) Plant Cell , vol.20 , pp. 3312-3330
    • Ischebeck, T.1    Stenzel, I.2    Heilmann, I.3
  • 53
    • 84867439595 scopus 로고    scopus 로고
    • Variable regions of PI4P 5-kinases direct PtdIns(4,5)P2 toward alternative regulatory functions in tobacco pollen tubes
    • Stenzel I, Ischebeck T, Quint M, Heilmann I. Variable regions of PI4P 5-kinases direct PtdIns(4,5)P2 toward alternative regulatory functions in tobacco pollen tubes. Frontiers Plant Sci. 2011;2:114.
    • (2011) Frontiers Plant Sci , vol.2 , pp. 114
    • Stenzel, I.1    Ischebeck, T.2    Quint, M.3    Heilmann, I.4
  • 54
    • 84891818318 scopus 로고    scopus 로고
    • MiRBase: Annotating high confidence microRNAs using deep sequencing data
    • Kozomara A, Griffiths-Jones S. MiRBase: Annotating high confidence microRNAs using deep sequencing data. Nucleic Acids Res. 2014;42:D68-73.
    • (2014) Nucleic Acids Res , vol.42 , pp. D68-D73
    • Kozomara, A.1    Griffiths-Jones, S.2
  • 55
    • 84867849258 scopus 로고    scopus 로고
    • Genome-wide identification of reverse complementary microRNA genes in plants
    • Shao C, Ma X, Xu X, Wang H, Meng Y. Genome-wide identification of reverse complementary microRNA genes in plants. PLoS One. 2012;7:e46991.
    • (2012) PLoS One , vol.7
    • Shao, C.1    Ma, X.2    Xu, X.3    Wang, H.4    Meng, Y.5
  • 56
    • 84875787906 scopus 로고    scopus 로고
    • Identification of conserved microRNAs and their targets in the model legume Lotus japonicus
    • Hu J, Zhang H, Ding Y. Identification of conserved microRNAs and their targets in the model legume Lotus japonicus. J Biotechnol. 2013;164:520-4.
    • (2013) J Biotechnol , vol.164 , pp. 520-524
    • Hu, J.1    Zhang, H.2    Ding, Y.3
  • 57
    • 38149052111 scopus 로고    scopus 로고
    • MicroRNAs in the Drosophila bithorax complex
    • Bender W. MicroRNAs in the Drosophila bithorax complex. Genes Dev. 2008;22:14-9.
    • (2008) Genes Dev , vol.22 , pp. 14-19
    • Bender, W.1
  • 58
    • 38149026919 scopus 로고    scopus 로고
    • A single Hox locus in Drosophila produces functional microRNAs from opposite DNA strands
    • Stark A, Bushati N, Jan CH, Kheradpour P, Hodges E, Brennecke J, et al. A single Hox locus in Drosophila produces functional microRNAs from opposite DNA strands. Genes Dev. 2008;22:8-13.
    • (2008) Genes Dev , vol.22 , pp. 8-13
    • Stark, A.1    Bushati, N.2    Jan, C.H.3    Kheradpour, P.4    Hodges, E.5    Brennecke, J.6
  • 59
    • 38149022486 scopus 로고    scopus 로고
    • Functionally distinct regulatory RNAs generated by bidirectional transcription and processing of microRNA loci
    • Tyler DM, Okamura K, Chung WJ, Hagen JW, Berezikov E, Hannon GJ, et al. Functionally distinct regulatory RNAs generated by bidirectional transcription and processing of microRNA loci. Genes Dev. 2008;22:26-36.
    • (2008) Genes Dev , vol.22 , pp. 26-36
    • Tyler, D.M.1    Okamura, K.2    Chung, W.J.3    Hagen, J.W.4    Berezikov, E.5    Hannon, G.J.6
  • 60
    • 0347444723 scopus 로고    scopus 로고
    • MicroRNAs: genomics, biogenesis, mechanism, and function
    • Bartel DP. MicroRNAs: genomics, biogenesis, mechanism, and function. Cell. 2004;116:281-97.
    • (2004) Cell , vol.116 , pp. 281-297
    • Bartel, D.P.1
  • 61
    • 60149088848 scopus 로고    scopus 로고
    • Origins and mechanisms of miRNAs and siRNAs
    • Carthew RW, Sontheimer EJ. Origins and mechanisms of miRNAs and siRNAs. Cell. 2009;136:642-55.
    • (2009) Cell , vol.136 , pp. 642-655
    • Carthew, R.W.1    Sontheimer, E.J.2
  • 62
    • 79955499404 scopus 로고    scopus 로고
    • Arabidopsis argonaute 2 regulates innate immunity via miRNA393*-mediated silencing of a Golgi-localized SNARE gene, MEMB12
    • Zhang X, Zhao H, Gao S, Wang WC, Katiyar-Agarwal S, Huang H, et al. Arabidopsis argonaute 2 regulates innate immunity via miRNA393*-mediated silencing of a Golgi-localized SNARE gene, MEMB12. Mol Cell. 2011;42:356-66.
    • (2011) Mol Cell , vol.42 , pp. 356-366
    • Zhang, X.1    Zhao, H.2    Gao, S.3    Wang, W.C.4    Katiyar-Agarwal, S.5    Huang, H.6
  • 63
    • 77952368550 scopus 로고    scopus 로고
    • Mammalian microRNAs: Experimental evaluation of novel and previously annotated genes
    • Chiang HR, Schoenfeld LW, Ruby JG, Auyeung VC, Spies N, Baek D, et al. Mammalian microRNAs: Experimental evaluation of novel and previously annotated genes. Genes Dev. 2010;24:992-1009.
    • (2010) Genes Dev , vol.24 , pp. 992-1009
    • Chiang, H.R.1    Schoenfeld, L.W.2    Ruby, J.G.3    Auyeung, V.C.4    Spies, N.5    Baek, D.6
  • 65
    • 4344637081 scopus 로고    scopus 로고
    • Arabidopsis micro-RNA biogenesis through Dicer-like 1 protein functions
    • Kurihara Y, Watanabe Y. Arabidopsis micro-RNA biogenesis through Dicer-like 1 protein functions. Proc Natl Acad Sci U S A. 2004;101:12753-8.
    • (2004) Proc Natl Acad Sci U S A , vol.101 , pp. 12753-12758
    • Kurihara, Y.1    Watanabe, Y.2
  • 66
    • 78650516640 scopus 로고    scopus 로고
    • Multiple distinct small RNAs originate from the same microRNA precursors
    • Zhang W, Gao S, Zhou X, Xia J, Chellappan P, Zhou X, et al. Multiple distinct small RNAs originate from the same microRNA precursors. Genome Biol. 2010;11:R81.
    • (2010) Genome Biol , vol.11 , pp. R81
    • Zhang, W.1    Gao, S.2    Zhou, X.3    Xia, J.4    Chellappan, P.5    Zhou, X.6
  • 67
    • 60149086351 scopus 로고    scopus 로고
    • Origin, biogenesis, and activity of plant MicroRNAs
    • Voinnet O. Origin, biogenesis, and activity of plant MicroRNAs. Cell. 2009;136:669-87.
    • (2009) Cell , vol.136 , pp. 669-687
    • Voinnet, O.1
  • 68
    • 77349092849 scopus 로고    scopus 로고
    • Deep sequencing of small RNA libraries reveals dynamic regulation of conserved and novel microRNAs and microRNA-stars during silkworm development
    • Jagadeeswaran G, Zheng Y, Sumathipala N, Jiang H, Arrese EL, Soulages JL, et al. Deep sequencing of small RNA libraries reveals dynamic regulation of conserved and novel microRNAs and microRNA-stars during silkworm development. BMC Genomics. 2010;11:52.
    • (2010) BMC Genomics , vol.11 , pp. 52
    • Jagadeeswaran, G.1    Zheng, Y.2    Sumathipala, N.3    Jiang, H.4    Arrese, E.L.5    Soulages, J.L.6
  • 69
    • 84869104893 scopus 로고    scopus 로고
    • Identification and profiling of novel microRNAs in the Brassica rapa genome based on small RNA deep sequencing
    • Kim B, Yu H-J, Park S-G, Shin JY, Oh M, Kim N, et al. Identification and profiling of novel microRNAs in the Brassica rapa genome based on small RNA deep sequencing. BMC Plant Biol. 2012;12:218.
    • (2012) BMC Plant Biol , vol.12 , pp. 218
    • Kim, B.1    Yu, H.-J.2    Park, S.-G.3    Shin, J.Y.4    Oh, M.5    Kim, N.6
  • 70
    • 46949106175 scopus 로고    scopus 로고
    • A molecular genetic perspective of reproductive development in grapevine
    • Carmona MJ, Chaïb J, Martínez-Zapater JM, Thomas MR. A molecular genetic perspective of reproductive development in grapevine. J Exp Bot. 2008;59:2579-96.
    • (2008) J Exp Bot , vol.59 , pp. 2579-2596
    • Carmona, M.J.1    Chaïb, J.2    Martínez-Zapater, J.M.3    Thomas, M.R.4
  • 71
    • 84883212289 scopus 로고    scopus 로고
    • Identification of microRNA targets in tomato fruit development using high-throughput sequencing and degradome analysis
    • Karlova R, van Haarst JC, Maliepaard C, van de Geest H, Bovy AG, Lammers M, et al. Identification of microRNA targets in tomato fruit development using high-throughput sequencing and degradome analysis. J Exp Bot. 2013;64:1863-78.
    • (2013) J Exp Bot , vol.64 , pp. 1863-1878
    • Karlova, R.1    Haarst, J.C.2    Maliepaard, C.3    Geest, H.4    Bovy, A.G.5    Lammers, M.6
  • 72
    • 84926359999 scopus 로고    scopus 로고
    • MicroRNA profiling analysis throughout tomato fruit development and ripening reveals potential regulatory role of RIN on microRNAs accumulation
    • Gao C, Ju Z, Cao D, Zhai B, Qin G, Zhu H, et al. MicroRNA profiling analysis throughout tomato fruit development and ripening reveals potential regulatory role of RIN on microRNAs accumulation. Plant Biotechnol J. 2015;13:370-82.
    • (2015) Plant Biotechnol J , vol.13 , pp. 370-382
    • Gao, C.1    Ju, Z.2    Cao, D.3    Zhai, B.4    Qin, G.5    Zhu, H.6
  • 73
    • 68749095252 scopus 로고    scopus 로고
    • miR156-regulated SPL transcription factors define an endogenous flowering pathway in Arabidopsis thaliana
    • Wang JW, Czech B, Weigel D. miR156-regulated SPL transcription factors define an endogenous flowering pathway in Arabidopsis thaliana. Cell. 2009;138:738-49.
    • (2009) Cell , vol.138 , pp. 738-749
    • Wang, J.W.1    Czech, B.2    Weigel, D.3
  • 74
    • 84979819147 scopus 로고    scopus 로고
    • Orchestration of the floral transition and floral development in Arabidopsis by the bifunctional transcription factor APETALA2
    • Yant L, Mathieu J, Dinh TT, Ott F, Lanz C, Wollmann H, et al. Orchestration of the floral transition and floral development in Arabidopsis by the bifunctional transcription factor APETALA2. Plant Cell. 2010;22:2156-70.
    • (2010) Plant Cell , vol.22 , pp. 2156-2170
    • Yant, L.1    Mathieu, J.2    Dinh, T.T.3    Ott, F.4    Lanz, C.5    Wollmann, H.6
  • 76
    • 0037252211 scopus 로고    scopus 로고
    • Abscission of grapevine fruitlets in relation to ethylene biosynthesis
    • Hilt C, Bessis R. Abscission of grapevine fruitlets in relation to ethylene biosynthesis. Vitis. 2003;42:1-3.
    • (2003) Vitis , vol.42 , pp. 1-3
    • Hilt, C.1    Bessis, R.2
  • 77
    • 4644367212 scopus 로고    scopus 로고
    • Ethylene seems required for the berry development and ripening in grape, a non-climacteric fruit
    • Chervin C, El-Kereamy A, Roustan J-P, Latché A, Lamon J, Bouzayen M. Ethylene seems required for the berry development and ripening in grape, a non-climacteric fruit. Plant Sci. 2004;167:1301-5.
    • (2004) Plant Sci , vol.167 , pp. 1301-1305
    • Chervin, C.1    El-Kereamy, A.2    Roustan, J.-P.3    Latché, A.4    Lamon, J.5    Bouzayen, M.6
  • 78
    • 48749124623 scopus 로고    scopus 로고
    • Stamen development in Arabidopsis is arrested by organ-specific overexpression of a cucumber ethylene synthesis gene CsACO2
    • Duan QH, Wang DH, Xu ZH, Bai SN. Stamen development in Arabidopsis is arrested by organ-specific overexpression of a cucumber ethylene synthesis gene CsACO2. Planta. 2008;228:537-43.
    • (2008) Planta , vol.228 , pp. 537-543
    • Duan, Q.H.1    Wang, D.H.2    Xu, Z.H.3    Bai, S.N.4
  • 81
    • 9644272448 scopus 로고    scopus 로고
    • Evolution of microRNA genes by inverted duplication of target gene sequences in Arabidopsis thaliana
    • Allen E, Xie Z, Gustafson AM, Sung G-H, Spatafora JW, Carrington JC. Evolution of microRNA genes by inverted duplication of target gene sequences in Arabidopsis thaliana. Nat Genet. 2004;36:1282-90.
    • (2004) Nat Genet , vol.36 , pp. 1282-1290
    • Allen, E.1    Xie, Z.2    Gustafson, A.M.3    Sung, G.-H.4    Spatafora, J.W.5    Carrington, J.C.6
  • 82
    • 33746513103 scopus 로고    scopus 로고
    • A naturally occurring epigenetic mutation in a gene encoding an SBP-box transcription factor inhibits tomato fruit ripening
    • Manning K, Tör M, Poole M, Hong Y, Thompson AJ, King GJ, et al. A naturally occurring epigenetic mutation in a gene encoding an SBP-box transcription factor inhibits tomato fruit ripening. Nat Genet. 2006;38:948-52.
    • (2006) Nat Genet , vol.38 , pp. 948-952
    • Manning, K.1    Tör, M.2    Poole, M.3    Hong, Y.4    Thompson, A.J.5    King, G.J.6
  • 83
    • 34248213602 scopus 로고    scopus 로고
    • Fruit ripening mutants yield insights into ripening control
    • Giovannoni JJ. Fruit ripening mutants yield insights into ripening control. Curr Opin Plant Biol. 2007;10:283-9.
    • (2007) Curr Opin Plant Biol , vol.10 , pp. 283-289
    • Giovannoni, J.J.1
  • 84
    • 79957768322 scopus 로고    scopus 로고
    • Negative regulation of anthocyanin biosynthesis in Arabidopsis by a miR156-targeted SPL transcription factor
    • Gou J-Y, Felippes FF, Liu C-J, Weigel D, Wang J-W. Negative regulation of anthocyanin biosynthesis in Arabidopsis by a miR156-targeted SPL transcription factor. Plant Cell. 2011;23:1512-22.
    • (2011) Plant Cell , vol.23 , pp. 1512-1522
    • Gou, J.-Y.1    Felippes, F.F.2    Liu, C.-J.3    Weigel, D.4    Wang, J.-W.5
  • 85
    • 84916603302 scopus 로고    scopus 로고
    • The miR156-SPL9-DFR pathway coordinates the relationship between development and abiotic stress tolerance in plants
    • Cui L-G, Shan J-X, Shi M, Gao J-P, Lin H-X. The miR156-SPL9-DFR pathway coordinates the relationship between development and abiotic stress tolerance in plants. Plant J. 2014;80:1108-17.
    • (2014) Plant J , vol.80 , pp. 1108-1117
    • Cui, L.-G.1    Shan, J.-X.2    Shi, M.3    Gao, J.-P.4    Lin, H.-X.5
  • 89
    • 0037066465 scopus 로고    scopus 로고
    • A MADS-box gene necessary for fruit ripening at the tomato ripening-inhibitor (rin) locus
    • Vrebalov J, Ruezinsky D, Padmanabhan V, White R, Medrano D, Drake R, et al. A MADS-box gene necessary for fruit ripening at the tomato ripening-inhibitor (rin) locus. Science. 2002;296:343-6.
    • (2002) Science , vol.296 , pp. 343-346
    • Vrebalov, J.1    Ruezinsky, D.2    Padmanabhan, V.3    White, R.4    Medrano, D.5    Drake, R.6
  • 90
    • 84866627213 scopus 로고    scopus 로고
    • miR395 is a general component of the sulfate assimilation regulatory network in Arabidopsis
    • Matthewman CA, Kawashima CG, Húska D, Csorba T, Dalmay T, Kopriva S. miR395 is a general component of the sulfate assimilation regulatory network in Arabidopsis. FEBS Lett. 2012;586:3242-8.
    • (2012) FEBS Lett , vol.586 , pp. 3242-3248
    • Matthewman, C.A.1    Kawashima, C.G.2    Húska, D.3    Csorba, T.4    Dalmay, T.5    Kopriva, S.6
  • 92
    • 78549269178 scopus 로고    scopus 로고
    • Reciprocal regulation among miR395, APS and SULTR2;1 in Arabidopsis thaliana
    • Liang G, Yu D. Reciprocal regulation among miR395, APS and SULTR2;1 in Arabidopsis thaliana. Plant Signal Behav. 2010;5:1257-9.
    • (2010) Plant Signal Behav , vol.5 , pp. 1257-1259
    • Liang, G.1    Yu, D.2
  • 94
    • 84875043508 scopus 로고    scopus 로고
    • Vitis vinifera secondary metabolism as affected by sulfate depletion: diagnosis through phenylpropanoid pathway genes and metabolites
    • Tavares S, Vesentini D, Fernandes JC, Ferreira RB, Laureano O, Ricardo-Da-Silva JM, et al. Vitis vinifera secondary metabolism as affected by sulfate depletion: diagnosis through phenylpropanoid pathway genes and metabolites. Plant Physiol Biochem. 2013;66:118-26.
    • (2013) Plant Physiol Biochem , vol.66 , pp. 118-126
    • Tavares, S.1    Vesentini, D.2    Fernandes, J.C.3    Ferreira, R.B.4    Laureano, O.5    Ricardo-Da-Silva, J.M.6
  • 95
    • 0036857804 scopus 로고    scopus 로고
    • Anthocyanin biosynthetic genes are coordinately expressed during red coloration in apple skin
    • Honda C, Kotoda N, Wada M, Kondo S, Kobayashi S, Soejima J, et al. Anthocyanin biosynthetic genes are coordinately expressed during red coloration in apple skin. Plant Physiol Biochem. 2002;40:955-62.
    • (2002) Plant Physiol Biochem , vol.40 , pp. 955-962
    • Honda, C.1    Kotoda, N.2    Wada, M.3    Kondo, S.4    Kobayashi, S.5    Soejima, J.6
  • 96
    • 84891137901 scopus 로고    scopus 로고
    • Brassinosteroids regulate anthocyanin biosynthesis in the ripening of grape berries
    • Luan L, Zhang Z, Xi Z, Huo SS, Ma LN. Brassinosteroids regulate anthocyanin biosynthesis in the ripening of grape berries. South African J Enol Viticulture. 2013;34:196-203.
    • (2013) South African J Enol Viticulture , vol.34 , pp. 196-203
    • Luan, L.1    Zhang, Z.2    Xi, Z.3    Huo, S.S.4    Ma, L.N.5
  • 99
    • 84982358134 scopus 로고
    • A revised medium for rapid growth and bio assays with tobacco tissue cultures
    • Murashige T, Skoog F. A revised medium for rapid growth and bio assays with tobacco tissue cultures. Physiol Plant. 1962;15:473-97.
    • (1962) Physiol Plant , vol.15 , pp. 473-497
    • Murashige, T.1    Skoog, F.2
  • 100
    • 62349130698 scopus 로고    scopus 로고
    • Ultrafast and memory-efficient alignment of short DNA sequences to the human genome
    • Langmead B, Trapnell C, Pop M, Salzberg SL. Ultrafast and memory-efficient alignment of short DNA sequences to the human genome. Genome Biol. 2009;10:R25.
    • (2009) Genome Biol , vol.10 , pp. R25
    • Langmead, B.1    Trapnell, C.2    Pop, M.3    Salzberg, S.L.4
  • 102
    • 38849140922 scopus 로고    scopus 로고
    • Protocol: a highly sensitive RT-PCR method for detection and quantification of microRNAs
    • Varkonyi-Gasic E, Wu R, Wood M, Walton EF, Hellens RP. Protocol: a highly sensitive RT-PCR method for detection and quantification of microRNAs. Plant Methods. 2007;3:12.
    • (2007) Plant Methods , vol.3 , pp. 12
    • Varkonyi-Gasic, E.1    Wu, R.2    Wood, M.3    Walton, E.F.4    Hellens, R.P.5
  • 103
    • 84883653624 scopus 로고    scopus 로고
    • Rootstock and soil induce transcriptome modulation of phenylpropanoid pathway in grape leaves
    • Marè C, Aprile A, Roncaglia E, Tocci E, Corino LG, De Bellis L, et al. Rootstock and soil induce transcriptome modulation of phenylpropanoid pathway in grape leaves. J Plant Interact. 2013;8:334-49.
    • (2013) J Plant Interact , vol.8 , pp. 334-349
    • Marè, C.1    Aprile, A.2    Roncaglia, E.3    Tocci, E.4    Corino, L.G.5    Bellis, L.6


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