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Volumn 550, Issue 2, 2014, Pages 230-237

Genome-wide identification of cytosine-5 DNA methyltransferases and demethylases in Solanum lycopersicum

Author keywords

DNA methylation; Phylogenetic analyses; Subcellular localization; Tomato fruit ripening

Indexed keywords

CYTOSINE 5 DNA METHYLTRANSFERASES; DNA METHYLTRANSFERASE; UNCLASSIFIED DRUG; VEGETABLE PROTEIN; DNA (CYTOSINE 5) METHYLTRANSFERASE; HISTONE DEMETHYLASE;

EID: 84921656781     PISSN: 03781119     EISSN: 18790038     Source Type: Journal    
DOI: 10.1016/j.gene.2014.08.034     Document Type: Article
Times cited : (53)

References (37)
  • 1
    • 80054718602 scopus 로고    scopus 로고
    • Spontaneous epigenetic variation in the Arabidopsis thaliana methylome
    • Becker C., Hagmann J., Muller J., et al. Spontaneous epigenetic variation in the Arabidopsis thaliana methylome. Nature 2011, 480(7376):245-249.
    • (2011) Nature , vol.480 , Issue.7376 , pp. 245-249
    • Becker, C.1    Hagmann, J.2    Muller, J.3
  • 2
    • 84871909033 scopus 로고    scopus 로고
    • The tomato FRUITFULL homologs TDR4/FUL1 and MBP7/FUL2 regulate ethylene-independent aspects of fruit ripening
    • Bemer M., Karlova R., Ballester A.R., et al. The tomato FRUITFULL homologs TDR4/FUL1 and MBP7/FUL2 regulate ethylene-independent aspects of fruit ripening. Plant Cell 2012, 24(11):4437-4451.
    • (2012) Plant Cell , vol.24 , Issue.11 , pp. 4437-4451
    • Bemer, M.1    Karlova, R.2    Ballester, A.R.3
  • 3
    • 3242723316 scopus 로고    scopus 로고
    • DNA methylation and epigenetics
    • Bender J. DNA methylation and epigenetics. Annu. Rev. Plant Biol. 2004, 55:41-68.
    • (2004) Annu. Rev. Plant Biol. , vol.55 , pp. 41-68
    • Bender, J.1
  • 4
    • 37049251589 scopus 로고
    • Ethylene action and the riping of fruits
    • Burg S., Burg E. Ethylene action and the riping of fruits. Science 1965, 148(3674):1190-1196.
    • (1965) Science , vol.148 , Issue.3674 , pp. 1190-1196
    • Burg, S.1    Burg, E.2
  • 5
    • 0037058968 scopus 로고    scopus 로고
    • Locus-specific control of asymmetric and CpNpG methylation by the DRM and CMT3 methyltransferase genes
    • Cao X.F., Jacobsen S.E. Locus-specific control of asymmetric and CpNpG methylation by the DRM and CMT3 methyltransferase genes. Proc. Natl. Acad. Sci. U. S. A. 2002, 994:16491-16498.
    • (2002) Proc. Natl. Acad. Sci. U. S. A. , vol.994 , pp. 16491-16498
    • Cao, X.F.1    Jacobsen, S.E.2
  • 6
    • 0347033302 scopus 로고    scopus 로고
    • Role of the DRM and CMT3 methyltransferases in RNA-directed DNA methylation
    • Cao X.F., Aufsatz W., Zilberman D., et al. Role of the DRM and CMT3 methyltransferases in RNA-directed DNA methylation. Curr. Biol. 2003, 13(24):2212-2217.
    • (2003) Curr. Biol. , vol.13 , Issue.24 , pp. 2212-2217
    • Cao, X.F.1    Aufsatz, W.2    Zilberman, D.3
  • 7
    • 67650252226 scopus 로고    scopus 로고
    • RNA-directed DNA methylation and demethylation in plants
    • Chinnusamy V., Zhu J. RNA-directed DNA methylation and demethylation in plants. Sci. China Ser. C Life Sci. 2009, 52(4):331-343.
    • (2009) Sci. China Ser. C Life Sci. , vol.52 , Issue.4 , pp. 331-343
    • Chinnusamy, V.1    Zhu, J.2
  • 8
    • 0037067658 scopus 로고    scopus 로고
    • DEMETER, a DNA glycosylase domain protein, is required for endosperm gene imprinting and seed viability in Arabidopsis
    • Choi Y.H., Gehring M., Johnson L., et al. DEMETER, a DNA glycosylase domain protein, is required for endosperm gene imprinting and seed viability in Arabidopsis. Cell 2002, 110(1):33-42.
    • (2002) Cell , vol.110 , Issue.1 , pp. 33-42
    • Choi, Y.H.1    Gehring, M.2    Johnson, L.3
  • 9
    • 78650079526 scopus 로고    scopus 로고
    • A tomato (Solanum lycopersicum) APETALA2/ERF gene, SlAP2a, is a negative regulator of fruit ripening
    • Chung M., Vrebalov J., Alba R., et al. A tomato (Solanum lycopersicum) APETALA2/ERF gene, SlAP2a, is a negative regulator of fruit ripening. Plant J. 2010, 64(6):936-947.
    • (2010) Plant J. , vol.64 , Issue.6 , pp. 936-947
    • Chung, M.1    Vrebalov, J.2    Alba, R.3
  • 10
    • 40749109894 scopus 로고    scopus 로고
    • Shotgun bisulphite sequencing of the Arabidopsis genome reveals DNA methylation patterning
    • Cokus S.J., Feng S., Zhang X., et al. Shotgun bisulphite sequencing of the Arabidopsis genome reveals DNA methylation patterning. Nature 2008, 452(7184):215-219.
    • (2008) Nature , vol.452 , Issue.7184 , pp. 215-219
    • Cokus, S.J.1    Feng, S.2    Zhang, X.3
  • 11
    • 0029738387 scopus 로고    scopus 로고
    • Reduced DNA methylation in Arabidopsis thaliana results in abnormal plant development
    • Finnegan E.J., Peacock W.J., Dennis E.S. Reduced DNA methylation in Arabidopsis thaliana results in abnormal plant development. Proc. Natl. Acad. Sci. U. S. A. 1996, 93(16):8449-8454.
    • (1996) Proc. Natl. Acad. Sci. U. S. A. , vol.93 , Issue.16 , pp. 8449-8454
    • Finnegan, E.J.1    Peacock, W.J.2    Dennis, E.S.3
  • 12
    • 84875514782 scopus 로고    scopus 로고
    • A large-scale identification of direct targets of the tomato MADS box transcription factor ripening inhibitor reveals the regulation of fruit ripening
    • Fujisawa M., Nakano T., Shima Y., et al. A large-scale identification of direct targets of the tomato MADS box transcription factor ripening inhibitor reveals the regulation of fruit ripening. Plant Cell 2013, 25(2):371-386.
    • (2013) Plant Cell , vol.25 , Issue.2 , pp. 371-386
    • Fujisawa, M.1    Nakano, T.2    Shima, Y.3
  • 13
    • 2942690153 scopus 로고    scopus 로고
    • Genetic regulation of fruit development and ripening
    • Giovannoni J.J. Genetic regulation of fruit development and ripening. Plant Cell 2004, 16:S170-S180. (Suppl).
    • (2004) Plant Cell , vol.16 , pp. S170-S180
    • Giovannoni, J.J.1
  • 14
    • 84876533617 scopus 로고    scopus 로고
    • Building phylogenetic trees from molecular data with MEGA
    • Hall B.G. Building phylogenetic trees from molecular data with MEGA. Mol. Biol. Evol. 2013, 30(5):1229-1235.
    • (2013) Mol. Biol. Evol. , vol.30 , Issue.5 , pp. 1229-1235
    • Hall, B.G.1
  • 15
    • 0001375191 scopus 로고
    • Antisense gene that inhibits synthesis of the hormone ethylene in transgenic plants
    • Hamilton A.J., Lycett G.W., Grierson D. Antisense gene that inhibits synthesis of the hormone ethylene in transgenic plants. Nature 1990, 346:284-287.
    • (1990) Nature , vol.346 , pp. 284-287
    • Hamilton, A.J.1    Lycett, G.W.2    Grierson, D.3
  • 16
    • 34548138278 scopus 로고    scopus 로고
    • Epigenetics: a historical overview
    • Holliday R. Epigenetics: a historical overview. Epigenetics 2006, 1(2):76-80.
    • (2006) Epigenetics , vol.1 , Issue.2 , pp. 76-80
    • Holliday, R.1
  • 17
    • 0035873992 scopus 로고    scopus 로고
    • RNA-directed transcriptional gene silencing in plants can be inherited independently of the RNA trigger and requires Met1 for maintenance
    • Jones L., Ratcliff F., Baulcombe D.F. RNA-directed transcriptional gene silencing in plants can be inherited independently of the RNA trigger and requires Met1 for maintenance. Curr. Biol. 2001, 11(10):747-757.
    • (2001) Curr. Biol. , vol.11 , Issue.10 , pp. 747-757
    • Jones, L.1    Ratcliff, F.2    Baulcombe, D.F.3
  • 18
    • 78650586854 scopus 로고    scopus 로고
    • Virus-mediated efficient induction of epigenetic modifications of endogenous genes with phenotypic changes in plants
    • Kanazawa A., Inaba J., Shimura H., et al. Virus-mediated efficient induction of epigenetic modifications of endogenous genes with phenotypic changes in plants. Plant J. 2011, 65(1):156-168.
    • (2011) Plant J. , vol.65 , Issue.1 , pp. 156-168
    • Kanazawa, A.1    Inaba, J.2    Shimura, H.3
  • 19
    • 36448991500 scopus 로고    scopus 로고
    • Clustal W and clustal X version 2.0
    • Larkin M.A., Blackshields G., Brown N.P., et al. Clustal W and clustal X version 2.0. Bioinformatics 2007, 23(21):2947-2948.
    • (2007) Bioinformatics , vol.23 , Issue.21 , pp. 2947-2948
    • Larkin, M.A.1    Blackshields, G.2    Brown, N.P.3
  • 20
    • 77249170184 scopus 로고    scopus 로고
    • Establishing, maintaining and modifying DNA methylation patterns in plants and animals
    • Law J.A., Jacobsen S.E. Establishing, maintaining and modifying DNA methylation patterns in plants and animals. Nat. Rev. Genet. 2010, 11(3):204-220.
    • (2010) Nat. Rev. Genet. , vol.11 , Issue.3 , pp. 204-220
    • Law, J.A.1    Jacobsen, S.E.2
  • 21
    • 55249116565 scopus 로고    scopus 로고
    • A tomato HD-zip homeobox protein, LeHB-1, plays an important role in floral organogenesis and ripening
    • Lin Z., Hong Y., Yin M., et al. A tomato HD-zip homeobox protein, LeHB-1, plays an important role in floral organogenesis and ripening. Plant J. 2008, 55(2):301-310.
    • (2008) Plant J. , vol.55 , Issue.2 , pp. 301-310
    • Lin, Z.1    Hong, Y.2    Yin, M.3
  • 22
    • 9444275703 scopus 로고    scopus 로고
    • MapDraw: a Microsoft Excel macro for drawing genetic linkage maps based on given genetic linkage data
    • Liu R., Meng J. MapDraw: a Microsoft Excel macro for drawing genetic linkage maps based on given genetic linkage data. Hereditas 2003, 03:317-321.
    • (2003) Hereditas , vol.3 , pp. 317-321
    • Liu, R.1    Meng, J.2
  • 23
    • 0035710746 scopus 로고    scopus 로고
    • Analysis of relative gene expression data using real-time quantitative PCR and the 2(T)(-Delta Delta C) method
    • Livak K.J., Schmittgen T.D. Analysis of relative gene expression data using real-time quantitative PCR and the 2(T)(-Delta Delta C) method. Methods 2001, 25(4):402-408.
    • (2001) Methods , vol.25 , Issue.4 , pp. 402-408
    • Livak, K.J.1    Schmittgen, T.D.2
  • 24
    • 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., Tor M., Poole M., et al. A naturally occurring epigenetic mutation in a gene encoding an SBP-box transcription factor inhibits tomato fruit ripening. Nat. Genet. 2006, 38(8):948-952.
    • (2006) Nat. Genet. , vol.38 , Issue.8 , pp. 948-952
    • Manning, K.1    Tor, M.2    Poole, M.3
  • 25
    • 79958747794 scopus 로고    scopus 로고
    • Size and positional effects of promoter RNA segments on virus-induced RNA-directed DNA methylation and transcriptional gene silencing
    • Otagaki S., Kawai M., Masuta C., et al. Size and positional effects of promoter RNA segments on virus-induced RNA-directed DNA methylation and transcriptional gene silencing. Epigenetics 2011, 6(6):681-691.
    • (2011) Epigenetics , vol.6 , Issue.6 , pp. 681-691
    • Otagaki, S.1    Kawai, M.2    Masuta, C.3
  • 26
    • 34548629973 scopus 로고    scopus 로고
    • Plant cytosine-5 DNA methyltransferases: structure, function, and molecular evolution
    • Pavlopoulou A., Kossida S. Plant cytosine-5 DNA methyltransferases: structure, function, and molecular evolution. Genomics 2007, 90(4):530-541.
    • (2007) Genomics , vol.90 , Issue.4 , pp. 530-541
    • Pavlopoulou, A.1    Kossida, S.2
  • 29
    • 59449110909 scopus 로고    scopus 로고
    • DOG 1.0: illustrator of protein domain structures
    • Ren J., Wen L., Gao X., et al. DOG 1.0: illustrator of protein domain structures. Cell Res. 2009, 19(2):271-273.
    • (2009) Cell Res. , vol.19 , Issue.2 , pp. 271-273
    • Ren, J.1    Wen, L.2    Gao, X.3
  • 30
    • 84863693752 scopus 로고    scopus 로고
    • The tomato genome sequence provides insights into fleshy fruit evolution
    • Sato S., Tabata S., Hirakawa H., et al. The tomato genome sequence provides insights into fleshy fruit evolution. Nature 2012, 485(7400):635-641.
    • (2012) Nature , vol.485 , Issue.7400 , pp. 635-641
    • Sato, S.1    Tabata, S.2    Hirakawa, H.3
  • 31
    • 0342770492 scopus 로고
    • TRIzol: A new reagent for optimal single-step isolation of RNA
    • Simms D., Cizdziel P.E., Chomczynski P. TRIzol: A new reagent for optimal single-step isolation of RNA. Focus 1993, 15(4):532-535.
    • (1993) Focus , vol.15 , Issue.4 , pp. 532-535
    • Simms, D.1    Cizdziel, P.E.2    Chomczynski, P.3
  • 32
    • 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., et al. A MADS-box gene necessary for fruit ripening at the tomato ripening-inhibitor (rin) locus. Science 2002, 296(5566):343-346.
    • (2002) Science , vol.296 , Issue.5566 , pp. 343-346
    • Vrebalov, J.1    Ruezinsky, D.2    Padmanabhan, V.3
  • 33
    • 51149203927 scopus 로고
    • Canalization of development and the inheritance of acquired characters
    • Waddington C.H. Canalization of development and the inheritance of acquired characters. Nature 1942, 150:563-565.
    • (1942) Nature , vol.150 , pp. 563-565
    • Waddington, C.H.1
  • 34
    • 0028031830 scopus 로고
    • RNA-directed de novo methylation of genomic sequences in plants
    • Wassenegger M., Heimes S., Riedel L., et al. RNA-directed de novo methylation of genomic sequences in plants. Cell 1994, 76(3):567-576.
    • (1994) Cell , vol.76 , Issue.3 , pp. 567-576
    • Wassenegger, M.1    Heimes, S.2    Riedel, L.3
  • 35
    • 55249089475 scopus 로고    scopus 로고
    • ROS3 is an RNA-binding protein required for DNA demethylation in Arabidopsis
    • Zheng X., Pontes O., Zhu J., et al. ROS3 is an RNA-binding protein required for DNA demethylation in Arabidopsis. Nature 2008, 455(7217):1259-1270.
    • (2008) Nature , vol.455 , Issue.7217 , pp. 1259-1270
    • Zheng, X.1    Pontes, O.2    Zhu, J.3
  • 36
    • 84873587727 scopus 로고    scopus 로고
    • Single-base resolution methylomes of tomato fruit development reveal epigenome modifications associated with ripening
    • Zhong S.L., Fei Z.J., Chen Y.R., et al. Single-base resolution methylomes of tomato fruit development reveal epigenome modifications associated with ripening. Nat. Biotechnol. 2013, 31(2):154-159.
    • (2013) Nat. Biotechnol. , vol.31 , Issue.2 , pp. 154-159
    • Zhong, S.L.1    Fei, Z.J.2    Chen, Y.R.3
  • 37
    • 73349104113 scopus 로고    scopus 로고
    • Active DNA, demethylation mediated by DNA glycosylases
    • Zhu J. Active DNA, demethylation mediated by DNA glycosylases. Annu. Rev. Genet. 2009, 43:143-166.
    • (2009) Annu. Rev. Genet. , vol.43 , pp. 143-166
    • Zhu, J.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.