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Volumn 83, Issue 4-5, 2013, Pages 459-473

Genome-wide annotation of genes and noncoding RNAs of foxtail millet in response to simulated drought stress by deep sequencing

Author keywords

Drought stress; Foxtail millet; Long noncoding RNA; siRNA; Transcriptome

Indexed keywords

POACEAE; SETARIA ITALICA; SORGHUM (GENUS); SORGHUM BICOLOR;

EID: 84884901660     PISSN: 01674412     EISSN: None     Source Type: Journal    
DOI: 10.1007/s11103-013-0104-6     Document Type: Article
Times cited : (143)

References (108)
  • 2
    • 0028385745 scopus 로고
    • The 5′-region of Arabidopsis thaliana cor15a has cis-acting elements that confer cold-, drought- and ABA-regulated gene expression
    • Baker SS, Wilhelm KS, Thomashow MF (1994) The 5′-region of Arabidopsis thaliana cor15a has cis-acting elements that confer cold-, drought- and ABA-regulated gene expression. Plant Mol Biol 24(5): 701-713.
    • (1994) Plant Mol Biol , vol.24 , Issue.5 , pp. 701-713
    • Baker, S.S.1    Wilhelm, K.S.2    Thomashow, M.F.3
  • 6
    • 84865079670 scopus 로고    scopus 로고
    • Computational Identification and Functional Predictions of Long Noncoding RNA in Zea mays
    • Boerner S, McGinnis KM (2012) Computational Identification and Functional Predictions of Long Noncoding RNA in Zea mays. PLoS ONE 7(8): e43047.
    • (2012) PLoS ONE , vol.7 , Issue.8
    • Boerner, S.1    McGinnis, K.M.2
  • 7
    • 29244490062 scopus 로고    scopus 로고
    • Endogenous siRNAs derived from a pair of natural cis-antisense transcripts regulate salt tolerance in Arabidopsis
    • Borsani O, Zhu J, Verslues PE, Sunkar R, Zhu JK (2005) Endogenous siRNAs derived from a pair of natural cis-antisense transcripts regulate salt tolerance in Arabidopsis. Cell 123(7): 1279-1291.
    • (2005) Cell , vol.123 , Issue.7 , pp. 1279-1291
    • Borsani, O.1    Zhu, J.2    Verslues, P.E.3    Sunkar, R.4    Zhu, J.K.5
  • 8
    • 0020458787 scopus 로고
    • Plant productivity and environment
    • Boyer JS (1982) Plant productivity and environment. Science 218(4571): 443-448.
    • (1982) Science , vol.218 , Issue.4571 , pp. 443-448
    • Boyer, J.S.1
  • 9
    • 0033962438 scopus 로고    scopus 로고
    • Involvement of CDSP 32, a drought-induced thioredoxin, in the response to oxidative stress in potato plants
    • Broin M, Cuine S, Peltier G, Rey P (2000) Involvement of CDSP 32, a drought-induced thioredoxin, in the response to oxidative stress in potato plants. FEBS Lett 467(2-3): 245-248.
    • (2000) FEBS Lett , vol.467 , Issue.2-3 , pp. 245-248
    • Broin, M.1    Cuine, S.2    Peltier, G.3    Rey, P.4
  • 10
    • 70849098812 scopus 로고    scopus 로고
    • Toggle involving cis-interfering noncoding RNAs controls variegated gene expression in yeast
    • Bumgarner SL, Dowell RD, Grisafi P, Gifford DK, Fink GR (2009) Toggle involving cis-interfering noncoding RNAs controls variegated gene expression in yeast. Proc Natl Acad Sci USA 106(43): 18321-18326.
    • (2009) Proc Natl Acad Sci USA , vol.106 , Issue.43 , pp. 18321-18326
    • Bumgarner, S.L.1    Dowell, R.D.2    Grisafi, P.3    Gifford, D.K.4    Fink, G.R.5
  • 12
    • 80052978224 scopus 로고    scopus 로고
    • Integrative annotation of human large intergenic noncoding RNAs reveals global properties and specific subclasses
    • Cabili MN, Trapnell C, Goff L, Koziol M, Tazon-Vega B, Regev A, Rinn JL (2011) Integrative annotation of human large intergenic noncoding RNAs reveals global properties and specific subclasses. Genes Dev 25(18): 1915-1927.
    • (2011) Genes Dev , vol.25 , Issue.18 , pp. 1915-1927
    • Cabili, M.N.1    Trapnell, C.2    Goff, L.3    Koziol, M.4    Tazon-Vega, B.5    Regev, A.6    Rinn, J.L.7
  • 15
    • 24644503098 scopus 로고    scopus 로고
    • Blast2GO: a universal tool for annotation, visualization and analysis in functional genomics research
    • Conesa A, Gotz S, Garcia-Gomez JM, Terol J, Talon M, Robles M (2005) Blast2GO: a universal tool for annotation, visualization and analysis in functional genomics research. Bioinformatics 21(18): 3674-3676.
    • (2005) Bioinformatics , vol.21 , Issue.18 , pp. 3674-3676
    • Conesa, A.1    Gotz, S.2    Garcia-Gomez, J.M.3    Terol, J.4    Talon, M.5    Robles, M.6
  • 17
    • 79955125389 scopus 로고    scopus 로고
    • Long non-coding RNAs and chromatin regulation
    • De Lucia F, Dean C (2011) Long non-coding RNAs and chromatin regulation. Curr Opin Plant Biol 14(2): 168-173.
    • (2011) Curr Opin Plant Biol , vol.14 , Issue.2 , pp. 168-173
    • De Lucia, F.1    Dean, C.2
  • 18
    • 34249987407 scopus 로고    scopus 로고
    • Role of hydroxyproline-rich glycoproteins in resistance of pearl millet against downy mildew pathogen Sclerospora graminicola
    • Deepak S, Shailasree S, Kini RK, Hause B, Shetty SH, Mithofer A (2007) Role of hydroxyproline-rich glycoproteins in resistance of pearl millet against downy mildew pathogen Sclerospora graminicola. Planta 226(2): 323-333.
    • (2007) Planta , vol.226 , Issue.2 , pp. 323-333
    • Deepak, S.1    Shailasree, S.2    Kini, R.K.3    Hause, B.4    Shetty, S.H.5    Mithofer, A.6
  • 19
    • 23744495523 scopus 로고    scopus 로고
    • Hahb-4, a sunflower homeobox-leucine zipper gene, is a developmental regulator and confers drought tolerance to Arabidopsis thaliana plants
    • Dezar CA, Gago GM, Gonzalez DH, Chan RL (2005) Hahb-4, a sunflower homeobox-leucine zipper gene, is a developmental regulator and confers drought tolerance to Arabidopsis thaliana plants. Transgenic Res 14(4): 429-440.
    • (2005) Transgenic Res , vol.14 , Issue.4 , pp. 429-440
    • Dezar, C.A.1    Gago, G.M.2    Gonzalez, D.H.3    Chan, R.L.4
  • 20
    • 58449112390 scopus 로고    scopus 로고
    • Advances in foxtail millet biotechnology and its future directions
    • Diao Xianmin (2005) Advances in foxtail millet biotechnology and its future directions. J Hebei Agric Sci 9: 61-68.
    • (2005) J Hebei Agric Sci , vol.9 , pp. 61-68
    • Diao, X.1
  • 21
    • 58449132254 scopus 로고    scopus 로고
    • Foxtail millet production in China and its future development tendency
    • Y. Chai and F. S. Wan (Eds.), Beijing: Chinese Agricultural Science and Technology Press
    • Diao Xianmin (2007) Foxtail millet production in China and its future development tendency. In: Chai Y, Wan FS (eds) The industrial development of China special crops. Chinese Agricultural Science and Technology Press, Beijing, pp 32-43.
    • (2007) The Industrial Development of China Special Crops , pp. 32-43
    • Diao, X.1
  • 22
    • 84863115947 scopus 로고    scopus 로고
    • A long noncoding RNA regulates photoperiod-sensitive male sterility, an essential component of hybrid rice
    • Ding J, Lu Q, Ouyang Y, Mao H, Zhang P, Yao J, Xu C, Li X, Xiao J, Zhang Q (2012) A long noncoding RNA regulates photoperiod-sensitive male sterility, an essential component of hybrid rice. Proc Natl Acad Sci USA 109(7): 2654-2659.
    • (2012) Proc Natl Acad Sci USA , vol.109 , Issue.7 , pp. 2654-2659
    • Ding, J.1    Lu, Q.2    Ouyang, Y.3    Mao, H.4    Zhang, P.5    Yao, J.6    Xu, C.7    Li, X.8    Xiao, J.9    Zhang, Q.10
  • 24
    • 0037297787 scopus 로고    scopus 로고
    • OsDREB genes in rice, Oryza sativa L., encode transcription activators that function in drought-, high-salt- and cold-responsive gene expression
    • Dubouzet JG, Sakuma Y, Ito Y, Kasuga M, Dubouzet EG, Miura S, Seki M, Shinozaki K, Yamaguchi-Shinozaki K (2003) OsDREB genes in rice, Oryza sativa L., encode transcription activators that function in drought-, high-salt- and cold-responsive gene expression. Plant J 33(4): 751-763.
    • (2003) Plant J , vol.33 , Issue.4 , pp. 751-763
    • Dubouzet, J.G.1    Sakuma, Y.2    Ito, Y.3    Kasuga, M.4    Dubouzet, E.G.5    Miura, S.6    Seki, M.7    Shinozaki, K.8    Yamaguchi-Shinozaki, K.9
  • 25
    • 80054108670 scopus 로고    scopus 로고
    • Functional annotation of the transcriptome of Sorghum bicolor in response to osmotic stress and abscisic acid
    • Dugas DV, Monaco MK, Olsen A, Klein RR, Kumari S, Ware D, Klein PE (2011) Functional annotation of the transcriptome of Sorghum bicolor in response to osmotic stress and abscisic acid. BMC Genomics 12: 514.
    • (2011) BMC Genomics , vol.12 , pp. 514
    • Dugas, D.V.1    Monaco, M.K.2    Olsen, A.3    Klein, R.R.4    Kumari, S.5    Ware, D.6    Klein, P.E.7
  • 26
    • 67649933648 scopus 로고    scopus 로고
    • Transcriptome pathways unique to dehydration tolerant relatives of modern wheat
    • Ergen NZ, Thimmapuram J, Bohnert HJ, Budak H (2009) Transcriptome pathways unique to dehydration tolerant relatives of modern wheat. Funct Integr Genomics 9(3): 377-396.
    • (2009) Funct Integr Genomics , vol.9 , Issue.3 , pp. 377-396
    • Ergen, N.Z.1    Thimmapuram, J.2    Bohnert, H.J.3    Budak, H.4
  • 27
    • 0028388157 scopus 로고
    • The maize abscisic acid-responsive protein Rab17 is located in the nucleus and interacts with nuclear localization signals
    • Goday A, Jensen AB, Culianez-Macia FA, Mar Alba M, Figueras M, Serratosa J, Torrent M, Pages M (1994) The maize abscisic acid-responsive protein Rab17 is located in the nucleus and interacts with nuclear localization signals. Plant Cell 6(3): 351-360.
    • (1994) Plant Cell , vol.6 , Issue.3 , pp. 351-360
    • Goday, A.1    Jensen, A.B.2    Culianez-Macia, F.A.3    Mar Alba, M.4    Figueras, M.5    Serratosa, J.6    Torrent, M.7    Pages, M.8
  • 28
    • 0037394262 scopus 로고    scopus 로고
    • The evolution of CONSTANS-like gene families in barley, rice, and Arabidopsis
    • Griffiths S, Dunford RP, Coupland G, Laurie DA (2003) The evolution of CONSTANS-like gene families in barley, rice, and Arabidopsis. Plant Physiol 131(4): 1855-1867.
    • (2003) Plant Physiol , vol.131 , Issue.4 , pp. 1855-1867
    • Griffiths, S.1    Dunford, R.P.2    Coupland, G.3    Laurie, D.A.4
  • 30
    • 0031854031 scopus 로고    scopus 로고
    • The ARF family of transcription factors and their role in plant hormone-responsive transcription
    • Guilfoyle TJ, Ulmasov T, Hagen G (1998) The ARF family of transcription factors and their role in plant hormone-responsive transcription. Cell Mol Life Sci 54(7): 619-627.
    • (1998) Cell Mol Life Sci , vol.54 , Issue.7 , pp. 619-627
    • Guilfoyle, T.J.1    Ulmasov, T.2    Hagen, G.3
  • 34
    • 0036016444 scopus 로고    scopus 로고
    • The cell wall hydroxyproline-rich glycoprotein RSH is essential for normal embryo development in Arabidopsis
    • Hall Q, Cannon MC (2002) The cell wall hydroxyproline-rich glycoprotein RSH is essential for normal embryo development in Arabidopsis. Plant Cell 14(5): 1161-1172.
    • (2002) Plant Cell , vol.14 , Issue.5 , pp. 1161-1172
    • Hall, Q.1    Cannon, M.C.2
  • 35
    • 78650966670 scopus 로고    scopus 로고
    • Vernalization-mediated epigenetic silencing by a long intronic noncoding RNA
    • Heo JB, Sung S (2011) Vernalization-mediated epigenetic silencing by a long intronic noncoding RNA. Science 331(6013): 76-79.
    • (2011) Science , vol.331 , Issue.6013 , pp. 76-79
    • Heo, J.B.1    Sung, S.2
  • 36
    • 0032918558 scopus 로고    scopus 로고
    • Plant cis-acting regulatory DNA elements (PLACE) database: 1999
    • Higo K, Ugawa Y, Iwamoto M, Korenaga T (1999) Plant cis-acting regulatory DNA elements (PLACE) database: 1999. Nucleic Acids Res 27(1): 297-300.
    • (1999) Nucleic Acids Res , vol.27 , Issue.1 , pp. 297-300
    • Higo, K.1    Ugawa, Y.2    Iwamoto, M.3    Korenaga, T.4
  • 37
    • 79953746026 scopus 로고    scopus 로고
    • An siRNA pathway prevents transgenerational retrotransposition in plants subjected to stress
    • Ito H, Gaubert H, Bucher E, Mirouze M, Vaillant I, Paszkowski J (2011) An siRNA pathway prevents transgenerational retrotransposition in plants subjected to stress. Nature 472(7341): 115-119.
    • (2011) Nature , vol.472 , Issue.7341 , pp. 115-119
    • Ito, H.1    Gaubert, H.2    Bucher, E.3    Mirouze, M.4    Vaillant, I.5    Paszkowski, J.6
  • 38
    • 0034868711 scopus 로고    scopus 로고
    • Regulation of drought tolerance by gene manipulation of 9-cis-epoxycarotenoid dioxygenase, a key enzyme in abscisic acid biosynthesis in Arabidopsis
    • Iuchi S, Kobayashi M, Taji T, Naramoto M, Seki M, Kato T, Tabata S, Kakubari Y, Yamaguchi-Shinozaki K, Shinozaki K (2001) Regulation of drought tolerance by gene manipulation of 9-cis-epoxycarotenoid dioxygenase, a key enzyme in abscisic acid biosynthesis in Arabidopsis. Plant J 27(4): 325-333.
    • (2001) Plant J , vol.27 , Issue.4 , pp. 325-333
    • Iuchi, S.1    Kobayashi, M.2    Taji, T.3    Naramoto, M.4    Seki, M.5    Kato, T.6    Tabata, S.7    Kakubari, Y.8    Yamaguchi-Shinozaki, K.9    Shinozaki, K.10
  • 40
    • 62349107421 scopus 로고    scopus 로고
    • cDNA-AFLP analysis reveals differential gene expression in response to salt stress in foxtail millet (Setaria italica L.)
    • Jayaraman A, Puranik S, Rai NK, Vidapu S, Sahu PP, Lata C, Prasad M (2008) cDNA-AFLP analysis reveals differential gene expression in response to salt stress in foxtail millet (Setaria italica L.). Mol Biotechnol 40(3): 241-251.
    • (2008) Mol Biotechnol , vol.40 , Issue.3 , pp. 241-251
    • Jayaraman, A.1    Puranik, S.2    Rai, N.K.3    Vidapu, S.4    Sahu, P.P.5    Lata, C.6    Prasad, M.7
  • 42
    • 84855566591 scopus 로고    scopus 로고
    • Long noncoding RNA: unveiling hidden layer of gene regulatory networks
    • Kim ED, Sung S (2012) Long noncoding RNA: unveiling hidden layer of gene regulatory networks. Trends Plant Sci 17(1): 16-21.
    • (2012) Trends Plant Sci , vol.17 , Issue.1 , pp. 16-21
    • Kim, E.D.1    Sung, S.2
  • 43
    • 5144219900 scopus 로고    scopus 로고
    • ABF2, an ABRE-binding bZIP factor, is an essential component of glucose signaling and its overexpression affects multiple stress tolerance
    • Kim S, Kang JY, Cho DI, Park JH, Kim SY (2004) ABF2, an ABRE-binding bZIP factor, is an essential component of glucose signaling and its overexpression affects multiple stress tolerance. Plant J 40(1): 75-87.
    • (2004) Plant J , vol.40 , Issue.1 , pp. 75-87
    • Kim, S.1    Kang, J.Y.2    Cho, D.I.3    Park, J.H.4    Kim, S.Y.5
  • 45
    • 34547582418 scopus 로고    scopus 로고
    • CPC: assess the protein-coding potential of transcripts using sequence features and support vector machine
    • Kong L, Zhang Y, Ye ZQ, Liu XQ, Zhao SQ, Wei L, Gao G (2007) CPC: assess the protein-coding potential of transcripts using sequence features and support vector machine. Nucleic Acids Res 35(Web Server issue): W345-W349.
    • (2007) Nucleic Acids Res , vol.35
    • Kong, L.1    Zhang, Y.2    Ye, Z.Q.3    Liu, X.Q.4    Zhao, S.Q.5    Wei, L.6    Gao, G.7
  • 46
    • 78651293534 scopus 로고    scopus 로고
    • miRBase: integrating microRNA annotation and deep-sequencing data
    • Kozomara A, Griffiths-Jones S (2011) miRBase: integrating microRNA annotation and deep-sequencing data. Nucleic Acids Res 39(Database issue): D152-D157.
    • (2011) Nucleic Acids Res , vol.39
    • Kozomara, A.1    Griffiths-Jones, S.2
  • 47
    • 45849109117 scopus 로고    scopus 로고
    • The common function of a novel subfamily of B-Box zinc finger proteins with reference to circadian-associated events in Arabidopsis thaliana
    • Kumagai T, Ito S, Nakamichi N, Niwa Y, Murakami M, Yamashino T, Mizuno T (2008) The common function of a novel subfamily of B-Box zinc finger proteins with reference to circadian-associated events in Arabidopsis thaliana. Biosci Biotechnol Biochem 72(6): 1539-1549.
    • (2008) Biosci Biotechnol Biochem , vol.72 , Issue.6 , pp. 1539-1549
    • Kumagai, T.1    Ito, S.2    Nakamichi, N.3    Niwa, Y.4    Murakami, M.5    Yamashino, T.6    Mizuno, T.7
  • 48
    • 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 (2009) Ultrafast and memory-efficient alignment of short DNA sequences to the human genome. Genome Biol 10(3): R25.
    • (2009) Genome Biol , vol.10 , Issue.3
    • Langmead, B.1    Trapnell, C.2    Pop, M.3    Salzberg, S.L.4
  • 49
    • 77949487226 scopus 로고    scopus 로고
    • Comparative transcriptome analysis of differentially expressed genes in foxtail millet (Setaria italica L.) during dehydration stress
    • Lata C, Sahu PP, Prasad M (2010) Comparative transcriptome analysis of differentially expressed genes in foxtail millet (Setaria italica L.) during dehydration stress. Biochem Biophys Res Commun 393(4): 720-727.
    • (2010) Biochem Biophys Res Commun , vol.393 , Issue.4 , pp. 720-727
    • Lata, C.1    Sahu, P.P.2    Prasad, M.3
  • 50
    • 77249170184 scopus 로고    scopus 로고
    • Establishing, maintaining and modifying DNA methylation patterns in plants and animals
    • Law JA, Jacobsen SE (2010) Establishing, maintaining and modifying DNA methylation patterns in plants and animals. Nat Rev Genet 11(3): 204-220.
    • (2010) Nat Rev Genet , vol.11 , Issue.3 , pp. 204-220
    • Law, J.A.1    Jacobsen, S.E.2
  • 51
    • 79952299493 scopus 로고    scopus 로고
    • Comparative analysis of drought-responsive transcriptome in Indica rice genotypes with contrasting drought tolerance
    • Lenka SK, Katiyar A, Chinnusamy V, Bansal KC (2011) Comparative analysis of drought-responsive transcriptome in Indica rice genotypes with contrasting drought tolerance. Plant Biotechnol J 9(3): 315-327.
    • (2011) Plant Biotechnol J , vol.9 , Issue.3 , pp. 315-327
    • Lenka, S.K.1    Katiyar, A.2    Chinnusamy, V.3    Bansal, K.C.4
  • 52
    • 79958774172 scopus 로고    scopus 로고
    • Setaria viridis and Setaria italica, model genetic systems for the Panicoid grasses
    • Li P, Brutnell TP (2011) Setaria viridis and Setaria italica, model genetic systems for the Panicoid grasses. J Exp Bot 62(9): 3031-3037.
    • (2011) J Exp Bot , vol.62 , Issue.9 , pp. 3031-3037
    • Li, P.1    Brutnell, T.P.2
  • 55
    • 0029664413 scopus 로고    scopus 로고
    • Oxidative stress induced heat shock factor phosphorylation and HSF-dependent activation of yeast metallothionein gene transcription
    • Liu XD, Thiele DJ (1996) Oxidative stress induced heat shock factor phosphorylation and HSF-dependent activation of yeast metallothionein gene transcription. Genes Dev 10(5): 592-603.
    • (1996) Genes Dev , vol.10 , Issue.5 , pp. 592-603
    • Liu, X.D.1    Thiele, D.J.2
  • 56
  • 57
    • 0035710746 scopus 로고    scopus 로고
    • Analysis of relative gene expression data using real-time quantitative PCR and the 2(-Delta Delta C(T)) Method
    • Livak KJ, Schmittgen TD (2001) Analysis of relative gene expression data using real-time quantitative PCR and the 2(-Delta Delta C(T)) Method. Methods 25(4): 402-408.
    • (2001) Methods , vol.25 , Issue.4 , pp. 402-408
    • Livak, K.J.1    Schmittgen, T.D.2
  • 58
  • 60
    • 60349120914 scopus 로고    scopus 로고
    • Long non-coding RNAs: insights into functions
    • Mercer TR, Dinger ME, Mattick JS (2009) Long non-coding RNAs: insights into functions. Nat Rev Genet 10(3): 155-159.
    • (2009) Nat Rev Genet , vol.10 , Issue.3 , pp. 155-159
    • Mercer, T.R.1    Dinger, M.E.2    Mattick, J.S.3
  • 61
    • 72849144434 scopus 로고    scopus 로고
    • Sequencing technologies-the next generation
    • Metzker ML (2010) Sequencing technologies-the next generation. Nat Rev Genet 11(1): 31-46.
    • (2010) Nat Rev Genet , vol.11 , Issue.1 , pp. 31-46
    • Metzker, M.L.1
  • 62
    • 84864927713 scopus 로고    scopus 로고
    • Emerging functional and mechanistic paradigms of mammalian long non-coding RNAs
    • Moran VA, Perera RJ, Khalil AM (2012) Emerging functional and mechanistic paradigms of mammalian long non-coding RNAs. Nucleic Acids Res 40(14): 6391-6400.
    • (2012) Nucleic Acids Res , vol.40 , Issue.14 , pp. 6391-6400
    • Moran, V.A.1    Perera, R.J.2    Khalil, A.M.3
  • 63
    • 14844337487 scopus 로고    scopus 로고
    • Genome-wide profiling of stored mRNA in Arabidopsis thaliana seed germination: epigenetic and genetic regulation of transcription in seed
    • Nakabayashi K, Okamoto M, Koshiba T, Kamiya Y, Nambara E (2005) Genome-wide profiling of stored mRNA in Arabidopsis thaliana seed germination: epigenetic and genetic regulation of transcription in seed. Plant J 41(5): 697-709.
    • (2005) Plant J , vol.41 , Issue.5 , pp. 697-709
    • Nakabayashi, K.1    Okamoto, M.2    Koshiba, T.3    Kamiya, Y.4    Nambara, E.5
  • 64
    • 58449091869 scopus 로고    scopus 로고
    • Transcriptional regulatory networks in response to abiotic stresses in Arabidopsis and grasses
    • Nakashima K, Ito Y, Yamaguchi-Shinozaki K (2009) Transcriptional regulatory networks in response to abiotic stresses in Arabidopsis and grasses. Plant Physiol 149(1): 88-95.
    • (2009) Plant Physiol , vol.149 , Issue.1 , pp. 88-95
    • Nakashima, K.1    Ito, Y.2    Yamaguchi-Shinozaki, K.3
  • 69
    • 34447550259 scopus 로고    scopus 로고
    • The role of small RNAs in abiotic stress
    • Phillips JR, Dalmay T, Bartels D (2007) The role of small RNAs in abiotic stress. FEBS Lett 581(19): 3592-3597.
    • (2007) FEBS Lett , vol.581 , Issue.19 , pp. 3592-3597
    • Phillips, J.R.1    Dalmay, T.2    Bartels, D.3
  • 70
    • 77951770756 scopus 로고    scopus 로고
    • BEDTools: a flexible suite of utilities for comparing genomic features
    • Quinlan AR, Hall IM (2010) BEDTools: a flexible suite of utilities for comparing genomic features. Bioinformatics 26(6): 841-842.
    • (2010) Bioinformatics , vol.26 , Issue.6 , pp. 841-842
    • Quinlan, A.R.1    Hall, I.M.2
  • 71
    • 77954921218 scopus 로고    scopus 로고
    • ABO3, a WRKY transcription factor, mediates plant responses to abscisic acid and drought tolerance in Arabidopsis
    • Ren X, Chen Z, Liu Y, Zhang H, Zhang M, Liu Q, Hong X, Zhu JK, Gong Z (2010) ABO3, a WRKY transcription factor, mediates plant responses to abscisic acid and drought tolerance in Arabidopsis. Plant J 63: 417-429.
    • (2010) Plant J , vol.63 , pp. 417-429
    • Ren, X.1    Chen, Z.2    Liu, Y.3    Zhang, H.4    Zhang, M.5    Liu, Q.6    Hong, X.7    Zhu, J.K.8    Gong, Z.9
  • 73
    • 0035544373 scopus 로고    scopus 로고
    • Functional importance of conserved domains in the flowering-time gene CONSTANS demonstrated by analysis of mutant alleles and transgenic plants
    • Robson F, Costa MM, Hepworth SR, Vizir I, Pineiro M, Reeves PH, Putterill J, Coupland G (2001) Functional importance of conserved domains in the flowering-time gene CONSTANS demonstrated by analysis of mutant alleles and transgenic plants. Plant J 28(6): 619-631.
    • (2001) Plant J , vol.28 , Issue.6 , pp. 619-631
    • Robson, F.1    Costa, M.M.2    Hepworth, S.R.3    Vizir, I.4    Pineiro, M.5    Reeves, P.H.6    Putterill, J.7    Coupland, G.8
  • 74
    • 33745477457 scopus 로고    scopus 로고
    • Functional analysis of an Arabidopsis transcription factor, DREB2A, involved in drought-responsive gene expression
    • Sakuma Y, Maruyama K, Osakabe Y, Qin F, Seki M, Shinozaki K, Yamaguchi-Shinozaki K (2006) Functional analysis of an Arabidopsis transcription factor, DREB2A, involved in drought-responsive gene expression. Plant Cell 18(5): 1292-1309.
    • (2006) Plant Cell , vol.18 , Issue.5 , pp. 1292-1309
    • Sakuma, Y.1    Maruyama, K.2    Osakabe, Y.3    Qin, F.4    Seki, M.5    Shinozaki, K.6    Yamaguchi-Shinozaki, K.7
  • 76
    • 79952422304 scopus 로고    scopus 로고
    • Quality control and preprocessing of metagenomic datasets
    • Schmieder R, Edwards R (2011) Quality control and preprocessing of metagenomic datasets. Bioinformatics 27(6): 863-864.
    • (2011) Bioinformatics , vol.27 , Issue.6 , pp. 863-864
    • Schmieder, R.1    Edwards, R.2
  • 77
    • 2442602365 scopus 로고    scopus 로고
    • Plant PP2C phosphatases: emerging functions in stress signaling
    • Schweighofer A, Hirt H, Meskiene I (2004) Plant PP2C phosphatases: emerging functions in stress signaling. Trends Plant Sci 9(5): 236-243.
    • (2004) Trends Plant Sci , vol.9 , Issue.5 , pp. 236-243
    • Schweighofer, A.1    Hirt, H.2    Meskiene, I.3
  • 78
    • 0035107803 scopus 로고    scopus 로고
    • Monitoring the expression pattern of 1300 Arabidopsis genes under drought and cold stresses by using a full-length cDNA microarray
    • Seki M, Narusaka M, Abe H, Kasuga M, Yamaguchi-Shinozaki K, Carninci P, Hayashizaki Y, Shinozaki K (2001) Monitoring the expression pattern of 1300 Arabidopsis genes under drought and cold stresses by using a full-length cDNA microarray. Plant Cell 13(1): 61-72.
    • (2001) Plant Cell , vol.13 , Issue.1 , pp. 61-72
    • Seki, M.1    Narusaka, M.2    Abe, H.3    Kasuga, M.4    Yamaguchi-Shinozaki, K.5    Carninci, P.6    Hayashizaki, Y.7    Shinozaki, K.8
  • 80
    • 0029257141 scopus 로고
    • Functional dissection of an abscisic acid (ABA)-inducible gene reveals two independent ABA-responsive complexes each containing a G-box and a novel cis-acting element
    • Shen Q, Ho TH (1995) Functional dissection of an abscisic acid (ABA)-inducible gene reveals two independent ABA-responsive complexes each containing a G-box and a novel cis-acting element. Plant Cell 7(3): 295-307.
    • (1995) Plant Cell , vol.7 , Issue.3 , pp. 295-307
    • Shen, Q.1    Ho, T.H.2
  • 81
    • 0034028259 scopus 로고    scopus 로고
    • Molecular responses to dehydration and low temperature: differences and cross-talk between two stress signaling pathways
    • Shinozaki K, Yamaguchi-Shinozaki K (2000) Molecular responses to dehydration and low temperature: differences and cross-talk between two stress signaling pathways. Curr Opin Plant Biol 3(3): 217-223.
    • (2000) Curr Opin Plant Biol , vol.3 , Issue.3 , pp. 217-223
    • Shinozaki, K.1    Yamaguchi-Shinozaki, K.2
  • 82
    • 0141725442 scopus 로고    scopus 로고
    • Regulatory network of gene expression in the drought and cold stress responses
    • Shinozaki K, Yamaguchi-Shinozaki K, Seki M (2003) Regulatory network of gene expression in the drought and cold stress responses. Curr Opin Plant Biol 6(5): 410-417.
    • (2003) Curr Opin Plant Biol , vol.6 , Issue.5 , pp. 410-417
    • Shinozaki, K.1    Yamaguchi-Shinozaki, K.2    Seki, M.3
  • 83
    • 0036779396 scopus 로고    scopus 로고
    • Transcription factors in plant defense and stress responses
    • Singh K, Foley RC, Onate-Sanchez L (2002) Transcription factors in plant defense and stress responses. Curr Opin Plant Biol 5(5): 430-436.
    • (2002) Curr Opin Plant Biol , vol.5 , Issue.5 , pp. 430-436
    • Singh, K.1    Foley, R.C.2    Onate-Sanchez, L.3
  • 84
    • 34347263491 scopus 로고    scopus 로고
    • Small RNAs as big players in plant abiotic stress responses and nutrient deprivation
    • Sunkar R, Chinnusamy V, Zhu J, Zhu JK (2007) Small RNAs as big players in plant abiotic stress responses and nutrient deprivation. Trends Plant Sci 12(7): 301-309.
    • (2007) Trends Plant Sci , vol.12 , Issue.7 , pp. 301-309
    • Sunkar, R.1    Chinnusamy, V.2    Zhu, J.3    Zhu, J.K.4
  • 85
    • 72049133207 scopus 로고    scopus 로고
    • Cold-induced silencing by long antisense transcripts of an Arabidopsis Polycomb target
    • Swiezewski S, Liu F, Magusin A, Dean C (2009) Cold-induced silencing by long antisense transcripts of an Arabidopsis Polycomb target. Nature 462(7274): 799-802.
    • (2009) Nature , vol.462 , Issue.7274 , pp. 799-802
    • Swiezewski, S.1    Liu, F.2    Magusin, A.3    Dean, C.4
  • 86
    • 75749084035 scopus 로고    scopus 로고
    • Proline: a multifunctional amino acid
    • Szabados L, Savoure A (2010) Proline: a multifunctional amino acid. Trends Plant Sci 15(2): 89-97.
    • (2010) Trends Plant Sci , vol.15 , Issue.2 , pp. 89-97
    • Szabados, L.1    Savoure, A.2
  • 90
    • 84455206362 scopus 로고    scopus 로고
    • Conserved function of lincRNAs in vertebrate embryonic development despite rapid sequence evolution
    • Ulitsky I, Shkumatava A, Jan CH, Sive H, Bartel DP (2011) Conserved function of lincRNAs in vertebrate embryonic development despite rapid sequence evolution. Cell 147(7): 1537-1550.
    • (2011) Cell , vol.147 , Issue.7 , pp. 1537-1550
    • Ulitsky, I.1    Shkumatava, A.2    Jan, C.H.3    Sive, H.4    Bartel, D.P.5
  • 91
    • 0033545881 scopus 로고    scopus 로고
    • Activation and repression of transcription by auxin-response factors
    • Ulmasov T, Hagen G, Guilfoyle TJ (1999) Activation and repression of transcription by auxin-response factors. Proc Natl Acad Sci USA 96(10): 5844-5849.
    • (1999) Proc Natl Acad Sci USA , vol.96 , Issue.10 , pp. 5844-5849
    • Ulmasov, T.1    Hagen, G.2    Guilfoyle, T.J.3
  • 92
    • 0034633775 scopus 로고    scopus 로고
    • Arabidopsis basic leucine zipper transcription factors involved in an abscisic acid-dependent signal transduction pathway under drought and high-salinity conditions
    • Uno Y, Furihata T, Abe H, Yoshida R, Shinozaki K, Yamaguchi-Shinozaki K (2000) Arabidopsis basic leucine zipper transcription factors involved in an abscisic acid-dependent signal transduction pathway under drought and high-salinity conditions. Proc Natl Acad Sci USA 97(21): 11632-11637.
    • (2000) Proc Natl Acad Sci USA , vol.97 , Issue.21 , pp. 11632-11637
    • Uno, Y.1    Furihata, T.2    Abe, H.3    Yoshida, R.4    Shinozaki, K.5    Yamaguchi-Shinozaki, K.6
  • 93
    • 68249092895 scopus 로고    scopus 로고
    • A guide to using MapMan to visualize and compare Omics data in plants: a case study in the crop species, Maize
    • Usadel B, Poree F, Nagel A, Lohse M, Czedik-Eysenberg A, Stitt M (2009) A guide to using MapMan to visualize and compare Omics data in plants: a case study in the crop species, Maize. Plant, Cell Environ 32(9): 1211-1229.
    • (2009) Plant, Cell Environ , vol.32 , Issue.9 , pp. 1211-1229
    • Usadel, B.1    Poree, F.2    Nagel, A.3    Lohse, M.4    Czedik-Eysenberg, A.5    Stitt, M.6
  • 94
    • 33745586022 scopus 로고    scopus 로고
    • Senescence- and drought-related changes in peroxidase and superoxide dismutase isoforms in leaves of Ramonda serbica
    • Veljovic-Jovanovic S, Kukavica B, Stevanovic B, Navari-Izzo F (2006) Senescence- and drought-related changes in peroxidase and superoxide dismutase isoforms in leaves of Ramonda serbica. J Exp Bot 57(8): 1759-1768.
    • (2006) J Exp Bot , vol.57 , Issue.8 , pp. 1759-1768
    • Veljovic-Jovanovic, S.1    Kukavica, B.2    Stevanovic, B.3    Navari-Izzo, F.4
  • 95
    • 57749195712 scopus 로고    scopus 로고
    • RNA-Seq: a revolutionary tool for transcriptomics
    • Wang Z, Gerstein M, Snyder M (2009) RNA-Seq: a revolutionary tool for transcriptomics. Nat Rev Genet 10(1): 57-63.
    • (2009) Nat Rev Genet , vol.10 , Issue.1 , pp. 57-63
    • Wang, Z.1    Gerstein, M.2    Snyder, M.3
  • 97
    • 75249095274 scopus 로고    scopus 로고
    • DEGseq: an R package for identifying differentially expressed genes from RNA-seq data
    • Wang L, Feng Z, Wang X, Zhang X (2010b) DEGseq: an R package for identifying differentially expressed genes from RNA-seq data. Bioinformatics 26(1): 136-138.
    • (2010) Bioinformatics , vol.26 , Issue.1 , pp. 136-138
    • Wang, L.1    Feng, Z.2    Wang, X.3    Zhang, X.4
  • 98
    • 77956085371 scopus 로고    scopus 로고
    • Time of day shapes Arabidopsis drought transcriptomes
    • Wilkins O, Brautigam K, Campbell MM (2010) Time of day shapes Arabidopsis drought transcriptomes. Plant J 63(5): 715-727.
    • (2010) Plant J , vol.63 , Issue.5 , pp. 715-727
    • Wilkins, O.1    Brautigam, K.2    Campbell, M.M.3
  • 99
    • 79953723492 scopus 로고    scopus 로고
    • Identification and characterization of wheat long non-protein coding RNAs responsive to powdery mildew infection and heat stress by using microarray analysis and SBS sequencing
    • Xin M, Wang Y, Yao Y, Song N, Hu Z, Qin D, Xie C, Peng H, Ni Z, Sun Q (2011) Identification and characterization of wheat long non-protein coding RNAs responsive to powdery mildew infection and heat stress by using microarray analysis and SBS sequencing. BMC Plant Biol 11: 61.
    • (2011) BMC Plant Biol , vol.11 , pp. 61
    • Xin, M.1    Wang, Y.2    Yao, Y.3    Song, N.4    Hu, Z.5    Qin, D.6    Xie, C.7    Peng, H.8    Ni, Z.9    Sun, Q.10
  • 100
    • 13744261322 scopus 로고    scopus 로고
    • Organization of cis-acting regulatory elements in osmotic- and cold-stress-responsive promoters
    • Yamaguchi-Shinozaki K, Shinozaki K (2005) Organization of cis-acting regulatory elements in osmotic- and cold-stress-responsive promoters. Trends Plant Sci 10(2): 88-94.
    • (2005) Trends Plant Sci , vol.10 , Issue.2 , pp. 88-94
    • Yamaguchi-Shinozaki, K.1    Shinozaki, K.2
  • 101
    • 70350719616 scopus 로고    scopus 로고
    • An abiotic stress-responsive bZIP transcription factor from wild and cultivated tomatoes regulates stress-related genes
    • Yanez M, Caceres S, Orellana S, Bastias A, Verdugo I, Ruiz-Lara S, Casaretto JA (2009) An abiotic stress-responsive bZIP transcription factor from wild and cultivated tomatoes regulates stress-related genes. Plant Cell Rep 28(10): 1497-1507.
    • (2009) Plant Cell Rep , vol.28 , Issue.10 , pp. 1497-1507
    • Yanez, M.1    Caceres, S.2    Orellana, S.3    Bastias, A.4    Verdugo, I.5    Ruiz-Lara, S.6    Casaretto, J.A.7
  • 104
    • 66949124248 scopus 로고    scopus 로고
    • Stress-induced changes in the Arabidopsis thaliana transcriptome analyzed using whole-genome tiling arrays
    • Zeller G, Henz SR, Widmer CK, Sachsenberg T, Ratsch G, Weigel D, Laubinger S (2009) Stress-induced changes in the Arabidopsis thaliana transcriptome analyzed using whole-genome tiling arrays. Plant J 58(6): 1068-1082.
    • (2009) Plant J , vol.58 , Issue.6 , pp. 1068-1082
    • Zeller, G.1    Henz, S.R.2    Widmer, C.K.3    Sachsenberg, T.4    Ratsch, G.5    Weigel, D.6    Laubinger, S.7
  • 105
    • 78651337578 scopus 로고    scopus 로고
    • PlantTFDB 2.0: update and improvement of the comprehensive plant transcription factor database
    • Zhang H, Jin J, Tang L, Zhao Y, Gu X, Gao G, Luo J (2011) PlantTFDB 2. 0: update and improvement of the comprehensive plant transcription factor database. Nucleic Acids Res 39(Database issue): D1114-D1117.
    • (2011) Nucleic Acids Res , vol.39
    • Zhang, H.1    Jin, J.2    Tang, L.3    Zhao, Y.4    Gu, X.5    Gao, G.6    Luo, J.7


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