메뉴 건너뛰기




Volumn 8, Issue 7, 2013, Pages

Genome-Wide Analysis of Small RNA and Novel MicroRNA Discovery during Fiber and Seed Initial Development in Gossypium hirsutum. L

Author keywords

[No Author keywords available]

Indexed keywords

COMPLEMENTARY DNA; MICRORNA; PLANT RNA; SMALL RNA; TRANSCRIPTION FACTOR; UNCLASSIFIED DRUG;

EID: 84880801582     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0069743     Document Type: Article
Times cited : (22)

References (47)
  • 1
    • 0037015239 scopus 로고    scopus 로고
    • CARPEL FACTORY, a Dicer homolog, and HEN1, a novel protein, act in microRNA metabolism in Arabidopsis thaliana
    • Park W, Li J, Song R, Messing J, Chen X, (2002) CARPEL FACTORY, a Dicer homolog, and HEN1, a novel protein, act in microRNA metabolism in Arabidopsis thaliana. Curr Biol 12: 1484-1495.
    • (2002) Curr Biol , vol.12 , pp. 1484-1495
    • Park, W.1    Li, J.2    Song, R.3    Messing, J.4    Chen, X.5
  • 3
    • 0038076109 scopus 로고    scopus 로고
    • Negative feed-back regulation of Dicer-Like1 in Arabidopsis by microRNA-guided mRNA degradation
    • Xie Z, Kasschau KD, Carrington JC, (2003) Negative feed-back 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
  • 4
    • 4344637081 scopus 로고    scopus 로고
    • Arabidopsis micro-RNA biogenesis through Dicer-like 1 protein functions
    • Kurihara Y, Watanabe Y, (2004) Arabidopsis micro-RNA biogenesis through Dicer-like 1 protein functions. Proc Natl Acad Sci, USA 101: 12753-12758.
    • (2004) Proc Natl Acad Sci, USA , vol.101 , pp. 12753-12758
    • Kurihara, Y.1    Watanabe, Y.2
  • 5
    • 31044434491 scopus 로고    scopus 로고
    • The interaction between DCL1 and HYL1 is important for efficient and precise processing of pri-miRNA in plant microRNA biogenesis
    • Kurihara Y, Takashi Y, Watanabe Y, (2006) The interaction between DCL1 and HYL1 is important for efficient and precise processing of pri-miRNA in plant microRNA biogenesis. RNA 12: 206-212.
    • (2006) RNA , vol.12 , pp. 206-212
    • Kurihara, Y.1    Takashi, Y.2    Watanabe, Y.3
  • 6
    • 79955705363 scopus 로고    scopus 로고
    • MicroRNA networks and developmental plasticity in plants
    • Rubio-Somoza I, Weigel D, (2011) MicroRNA networks and developmental plasticity in plants. Trends Plant Sci 16 (5):: 258-264.
    • (2011) Trends Plant Sci , vol.16 , Issue.5 , pp. 258-264
    • Rubio-Somoza, I.1    Weigel, D.2
  • 7
    • 60149086351 scopus 로고    scopus 로고
    • Origin, biogenesis, and activity of plant micrornas
    • Voinnet O, (2009) Origin, biogenesis, and activity of plant micrornas. Cell 136: 669-687.
    • (2009) Cell , vol.136 , pp. 669-687
    • Voinnet, O.1
  • 8
    • 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. Nucl Acids Res 39: 152-157.
    • (2011) Nucl Acids Res , vol.39 , pp. 152-157
    • Kozomara, A.1    Griffiths-Jones, S.2
  • 9
    • 0002420554 scopus 로고
    • Development of the cotton fiber
    • Basra AS, Malik CP, (1984) Development of the cotton fiber. Int Rev Cytol Suppl 89: 65-113.
    • (1984) Int Rev Cytol , Issue.SUPPL. 89 , pp. 65-113
    • Basra, A.S.1    Malik, C.P.2
  • 10
    • 33744993149 scopus 로고    scopus 로고
    • Trichomes: different regulatory networks lead to convergent structures
    • Serna L, Martin C, (2006) Trichomes: different regulatory networks lead to convergent structures. Trends Plant Sci 11: 274-280.
    • (2006) Trends Plant Sci , vol.11 , pp. 274-280
    • Serna, L.1    Martin, C.2
  • 11
    • 77951239484 scopus 로고    scopus 로고
    • The maize SBP-box transcription factor encoded by tasselsheath4 regulates bract development and the establishment of meristem boundaries
    • Chuck G, Whipple C, Jackson D, Hake S, (2010) The maize SBP-box transcription factor encoded by tasselsheath4 regulates bract development and the establishment of meristem boundaries. Development 137: 1243-1250.
    • (2010) Development , vol.137 , pp. 1243-1250
    • Chuck, G.1    Whipple, C.2    Jackson, D.3    Hake, S.4
  • 12
    • 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, Weige D, et al. (2009) The sequential action of miR156 and miR172 regulates developmental timing in Arabidopsis. Cell 138: 750-759.
    • (2009) Cell , vol.138 , pp. 750-759
    • Wu, G.1    Park, M.Y.2    Conway, S.R.3    Wang, J.W.4    Weige, D.5
  • 13
    • 35748944555 scopus 로고    scopus 로고
    • The GIGANTEA-regulated microRNA172 mediates photoperiodic flowering independent of CONSTANS in Arabidopsis
    • Jung JH, Seo YH, Seo PJ, Reyes JL, Yun J, et al. (2007) The GIGANTEA-regulated microRNA172 mediates photoperiodic flowering independent of CONSTANS in Arabidopsis. Plant Cell 19: 2736-2748.
    • (2007) Plant Cell , vol.19 , pp. 2736-2748
    • Jung, J.H.1    Seo, Y.H.2    Seo, P.J.3    Reyes, J.L.4    Yun, J.5
  • 14
  • 15
    • 77956864465 scopus 로고    scopus 로고
    • Temporal control of trichome distribution by MicroRNA156-targeted SPL genes in Arabidopsis thaliana
    • Yu N, Cai WJ, Wang SC, Shan CM, Wang LJ, Chen XY, (2010) Temporal control of trichome distribution by MicroRNA156-targeted SPL genes in Arabidopsis thaliana. Plant Cell 22: 2322-2335.
    • (2010) Plant Cell , vol.22 , pp. 2322-2335
    • Yu, N.1    Cai, W.J.2    Wang, S.C.3    Shan, C.M.4    Wang, L.J.5    Chen, X.Y.6
  • 16
    • 33745726562 scopus 로고    scopus 로고
    • Shoot meristem function and leaf polarity: the role of Class III HD-ZIP genes
    • Byrne ME, (2006) Shoot meristem function and leaf polarity: the role of Class III HD-ZIP genes. PLoS Genet 2 (6):: e89.
    • (2006) PLoS Genet , vol.2 , Issue.6
    • Byrne, M.E.1
  • 17
    • 79955771780 scopus 로고    scopus 로고
    • Spatiotemporal manipulation of auxin biosynthesis in cotton ovule epidermal cells enhances fiber yield and quality
    • Zhang M, Zheng XL, Song SQ, Zeng QW, Hou L, et al. (2011) Spatiotemporal manipulation of auxin biosynthesis in cotton ovule epidermal cells enhances fiber yield and quality. Nat Biotechnol 29 (5):: 453-459.
    • (2011) Nat Biotechnol , vol.29 , Issue.5 , pp. 453-459
    • Zhang, M.1    Zheng, X.L.2    Song, S.Q.3    Zeng, Q.W.4    Hou, L.5
  • 19
    • 33751516753 scopus 로고    scopus 로고
    • Arabidopsis microRNA167 controls patterns of ARF6 and ARF8 expression, and regulates both female and male reproduction
    • Wu MF, Tian Q, Reed JW, (2006) Arabidopsis microRNA167 controls patterns of ARF6 and ARF8 expression, and regulates both female and male reproduction. Development 133 (21):: 4211-4218.
    • (2006) Development , vol.133 , Issue.21 , pp. 4211-4218
    • Wu, M.F.1    Tian, Q.2    Reed, J.W.3
  • 20
    • 79953698444 scopus 로고    scopus 로고
    • MicroRNAs regulate the timing of embryo maturation in Arabidopsis
    • Willmann MR, Mehalick AJ, Packer RL, Jenik PD, (2011) MicroRNAs regulate the timing of embryo maturation in Arabidopsis. Plant Physiol 155 (4):: 1871-1884.
    • (2011) Plant Physiol , vol.155 , Issue.4 , pp. 1871-1884
    • Willmann, M.R.1    Mehalick, A.J.2    Packer, R.L.3    Jenik, P.D.4
  • 21
    • 84866941666 scopus 로고    scopus 로고
    • The draft genome of a diploid cotton Gossypium raimondii
    • Wang K, Wang Z, Li F, Ye W, Wang J, et al. (2012) The draft genome of a diploid cotton Gossypium raimondii. Nat Genet 44 (10):: 1098-1103.
    • (2012) Nat Genet , vol.44 , Issue.10 , pp. 1098-1103
    • Wang, K.1    Wang, Z.2    Li, F.3    Ye, W.4    Wang, J.5
  • 22
    • 84871428041 scopus 로고    scopus 로고
    • Repeated polyploidization of Gossypium genomes and the evolution of spinnable cotton fibres
    • Paterson AH, Wendel JF, Gundlach H, Guo H, Jenkins J, et al. (2012) Repeated polyploidization of Gossypium genomes and the evolution of spinnable cotton fibres. Nature 492 (7429):: 423-427.
    • (2012) Nature , vol.492 , Issue.7429 , pp. 423-427
    • Paterson, A.H.1    Wendel, J.F.2    Gundlach, H.3    Guo, H.4    Jenkins, J.5
  • 23
    • 1542372510 scopus 로고    scopus 로고
    • Extraction of total RNA in cotton tissues with CTAB-acidic phenolic method
    • Jiang JX, Zhang TZ, (2003) Extraction of total RNA in cotton tissues with CTAB-acidic phenolic method. Cotton Sci 15: 166-167.
    • (2003) Cotton Sci , vol.15 , pp. 166-167
    • Jiang, J.X.1    Zhang, T.Z.2
  • 25
    • 0042121256 scopus 로고    scopus 로고
    • Mfold web server for nucleic acid folding and hybridization prediction
    • Zuker M, (2003) Mfold web server for nucleic acid folding and hybridization prediction. Nucl Acids Res 31 (13):: 3406-3415.
    • (2003) Nucl Acids Res , vol.31 , Issue.13 , pp. 3406-3415
    • Zuker, M.1
  • 26
    • 79959967431 scopus 로고    scopus 로고
    • psRNATarget: a plant small RNA target analysis server
    • Dai XB, Zhao PX, (2011) psRNATarget: a plant small RNA target analysis server. Nucl Acids Res 39: W155-W159.
    • (2011) Nucl Acids Res , vol.39
    • Dai, X.B.1    Zhao, P.X.2
  • 27
    • 24644503098 scopus 로고    scopus 로고
    • Blast2GO: a universal tool for annotation, visualization and analysis in functional genomics research
    • Conesa A, Götz S, García-Gómez JM, Terol J, Talón M, et al. (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    Götz, S.2    García-Gómez, J.M.3    Terol, J.4    Talón, M.5
  • 28
    • 84869825304 scopus 로고    scopus 로고
    • MicroRNA159 can act as a switch or tuning microRNA independently of its abundance in Arabidopsis
    • Alonso-Peral MM, Sun C, Millar AA, (2012) MicroRNA159 can act as a switch or tuning microRNA independently of its abundance in Arabidopsis. PLoS ONE 7 (4):: e34751.
    • (2012) PLoS ONE , vol.7 , Issue.4
    • Alonso-Peral, M.M.1    Sun, C.2    Millar, A.A.3
  • 29
    • 41349114789 scopus 로고    scopus 로고
    • Sorting of small RNAs into Arabidopsis Argonaute complexes is directed by the 5′ terminal nucleotide
    • Mi S, Cai T, Hu Y, Chen Y, Hodges E, et al. (2008) Sorting of small RNAs into Arabidopsis Argonaute complexes is directed by the 5′ terminal nucleotide. Cell 133: 116-127.
    • (2008) Cell , vol.133 , pp. 116-127
    • Mi, S.1    Cai, T.2    Hu, Y.3    Chen, Y.4    Hodges, E.5
  • 30
    • 0001408697 scopus 로고
    • Ultrastructural aspects of early stages in cotton fiber elongation
    • Ramsey JC, Berlin JD, (1976) Ultrastructural aspects of early stages in cotton fiber elongation. Am J Bot 63 (6):: 868-876.
    • (1976) Am J Bot , vol.63 , Issue.6 , pp. 868-876
    • Ramsey, J.C.1    Berlin, J.D.2
  • 31
    • 0002962144 scopus 로고
    • Ultrastructural of early stages of cotton fiber differentiation
    • Ramsey J C, Berlin J D, (1976) Ultrastructural of early stages of cotton fiber differentiation. Bot Gaz 137 (1):: 11-19.
    • (1976) Bot Gaz , vol.137 , Issue.1 , pp. 11-19
    • Ramsey, J.C.1    Berlin, J.D.2
  • 32
    • 70350451757 scopus 로고    scopus 로고
    • Enrichment of a set of microRNAs during the cotton fiber development
    • Kwak PB, Wang QQ, Chen XS, Qiu CX, Yang ZM, (2009) Enrichment of a set of microRNAs during the cotton fiber development. BMC Genomics 10: 456-467.
    • (2009) BMC Genomics , vol.10 , pp. 456-467
    • Kwak, P.B.1    Wang, Q.Q.2    Chen, X.S.3    Qiu, C.X.4    Yang, Z.M.5
  • 33
    • 76249125348 scopus 로고    scopus 로고
    • Genome-wide analysis reveals rapid and dynamic changes in miRNA and siRNA sequence and expression during ovule and fiber development in allotetraploid cotton (Gossypium hirsutum L.)
    • Pang MX, Woodward AW, Agarwal V, Guan XY, Ha M, et al. (2009) Genome-wide analysis reveals rapid and dynamic changes in miRNA and siRNA sequence and expression during ovule and fiber development in allotetraploid cotton (Gossypium hirsutum L.). Genome Biol 10: R122.
    • (2009) Genome Biol , vol.10
    • Pang, M.X.1    Woodward, A.W.2    Agarwal, V.3    Guan, X.Y.4    Ha, M.5
  • 34
    • 84866405189 scopus 로고    scopus 로고
    • A comparative miRNAome analysis reveals seven fiber initiation-related and 36 novel miRNAs in developing cotton ovules
    • Wang ZM, Xue W, Dong CH, Jin LG, Bian SM, et al. (2011) A comparative miRNAome analysis reveals seven fiber initiation-related and 36 novel miRNAs in developing cotton ovules. Mol Plant 5 (4):: 889-900.
    • (2011) Mol Plant , vol.5 , Issue.4 , pp. 889-900
    • Wang, Z.M.1    Xue, W.2    Dong, C.H.3    Jin, L.G.4    Bian, S.M.5
  • 35
    • 84864310760 scopus 로고    scopus 로고
    • Identification and analyses of miRNA genes in allotetraploid Gossypium hirsutum fiber cells based on the sequenced diploid G. raimondii genome
    • Li Q, Jin X, Zhu YX, (2012) Identification and analyses of miRNA genes in allotetraploid Gossypium hirsutum fiber cells based on the sequenced diploid G. raimondii genome. J Genet Genomics 39 (7):: 351-360.
    • (2012) J Genet Genomics , vol.39 , Issue.7 , pp. 351-360
    • Li, Q.1    Jin, X.2    Zhu, Y.X.3
  • 36
    • 79953086307 scopus 로고    scopus 로고
    • Evolution and functional diversification of MIRNA Genes
    • Cuperus JT, Fahlgren N, Carrington JC, (2011) Evolution and functional diversification of MIRNA Genes. Plant Cell 23: 431-442.
    • (2011) Plant Cell , vol.23 , pp. 431-442
    • Cuperus, J.T.1    Fahlgren, N.2    Carrington, J.C.3
  • 37
  • 38
    • 56649102410 scopus 로고    scopus 로고
    • Evolution of Arabidopsis MIR genes generates novel microRNA classes
    • Vazquez F, Blevins T, Ailhas J, Boller T, Meins F, (2008) Evolution of Arabidopsis MIR genes generates novel microRNA classes. Nucl Acids Res 36: 6429-6438.
    • (2008) Nucl Acids Res , vol.36 , pp. 6429-6438
    • Vazquez, F.1    Blevins, T.2    Ailhas, J.3    Boller, T.4    Meins, F.5
  • 39
    • 70249130793 scopus 로고    scopus 로고
    • Conserved miRNA analysis in Gossypium hirsutum through small RNA sequencing
    • Ruan MB, Zhao YT, Meng ZH, Wang XJ, Yang WC, (2009) Conserved miRNA analysis in Gossypium hirsutum through small RNA sequencing. Genomics 94: 263-268.
    • (2009) Genomics , vol.94 , pp. 263-268
    • Ruan, M.B.1    Zhao, Y.T.2    Meng, Z.H.3    Wang, X.J.4    Yang, W.C.5
  • 40
    • 84866167836 scopus 로고    scopus 로고
    • Genome-wide profiling of miRNAs and other small non-coding RNAs in the Verticillium dahliae-inoculated cotton roots
    • Yin ZJ, Li Y, Han XL, Shen FF, (2012) Genome-wide profiling of miRNAs and other small non-coding RNAs in the Verticillium dahliae-inoculated cotton roots. PLoS ONE 7 (4):: e35765.
    • (2012) PLoS ONE , vol.7 , Issue.4
    • Yin, Z.J.1    Li, Y.2    Han, X.L.3    Shen, F.F.4
  • 41
    • 0001485210 scopus 로고
    • Genetics, cytology, and evolution of Gossypium
    • Endrizzi JD, Turcotte EL, Kohel RJ, (1985) Genetics, cytology, and evolution of Gossypium. Adv Genet 23: 271-375.
    • (1985) Adv Genet , vol.23 , pp. 271-375
    • Endrizzi, J.D.1    Turcotte, E.L.2    Kohel, R.J.3
  • 42
    • 36148975768 scopus 로고    scopus 로고
    • Polyploidy and the evolutionary history of cotton
    • Wendel JF, Cronn RC, (2003) Polyploidy and the evolutionary history of cotton. Adv Agron 78: 139-186.
    • (2003) Adv Agron , vol.78 , pp. 139-186
    • Wendel, J.F.1    Cronn, R.C.2
  • 43
    • 24944493388 scopus 로고    scopus 로고
    • MicroRNA-directed regulation of Arabidopsis AUXIN RESPONSE FACTOR17 is essential for proper development and modulates expression of early auxin response genes
    • Mallory AC, Bartel DP, Bartel B, (2005) MicroRNA-directed regulation of Arabidopsis AUXIN RESPONSE FACTOR17 is essential for proper development and modulates expression of early auxin response genes. Plant Cell 17: 1360-1375.
    • (2005) Plant Cell , vol.17 , pp. 1360-1375
    • Mallory, A.C.1    Bartel, D.P.2    Bartel, B.3
  • 44
    • 33645814822 scopus 로고    scopus 로고
    • Evidence of an auxin signal pathway, microRNA167-ARF8-GH3, and its response to exogenous auxin in cultured rice cells
    • Yang JH, Han SJ, Yoon EK, Lee WS, (2006) Evidence of an auxin signal pathway, microRNA167-ARF8-GH3, and its response to exogenous auxin in cultured rice cells. Nucl Acids Res 34 (6):: 1892-1899.
    • (2006) Nucl Acids Res , vol.34 , Issue.6 , pp. 1892-1899
    • Yang, J.H.1    Han, S.J.2    Yoon, E.K.3    Lee, W.S.4
  • 45
    • 84868116999 scopus 로고    scopus 로고
    • IAA-Ala resistant3, an evolutionarily conserved target of miR167, mediates Arabidopsis root architecture changes during high osmotic stress
    • Kinoshita N, Wang H, Kasahara H, Liu J, Macpherson C, et al. (2012) IAA-Ala resistant3, an evolutionarily conserved target of miR167, mediates Arabidopsis root architecture changes during high osmotic stress. Plant Cell 24 (9):: 3590-3602.
    • (2012) Plant Cell , vol.24 , Issue.9 , pp. 3590-3602
    • Kinoshita, N.1    Wang, H.2    Kasahara, H.3    Liu, J.4    Macpherson, C.5
  • 46
    • 77951143315 scopus 로고    scopus 로고
    • Auxin polar transport is essential for the development of zygote and embryo in Nicotiana tabacum L. and correlated with ABP1 and PM H+-ATPase activities
    • Chen D, Ren Y, Deng Y, Zhao J, (2010) Auxin polar transport is essential for the development of zygote and embryo in Nicotiana tabacum L. and correlated with ABP1 and PM H+-ATPase activities. J Exp Bot 61 (6):: 1853-1867.
    • (2010) J Exp Bot , vol.61 , Issue.6 , pp. 1853-1867
    • Chen, D.1    Ren, Y.2    Deng, Y.3    Zhao, J.4
  • 47
    • 54149095553 scopus 로고    scopus 로고
    • Biological principles of microRNA-mediated regulation: shared themes amid diversity
    • Flynt AS, Lai EC, (2008) Biological principles of microRNA-mediated regulation: shared themes amid diversity. Nat Rev Genet 9: 831-842.
    • (2008) Nat Rev Genet , vol.9 , pp. 831-842
    • Flynt, A.S.1    Lai, E.C.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.