SEARCH

SEARCH BY CITATION

References

  • Ausin, I., Mockler, T.C., Chory, J. and Jacobsen, S.E. (2009) IDN1 and IDN2 are required for de novo DNA methylation in Arabidopsis thaliana. Nat. Struct. Mol. Biol.16, 13251327.
  • Ausin, I., Greenberg, M.V., Simanshu, D.K. et al. (2012) INVOLVED IN DE NOVO 2-containing complex involved in RNA-directed DNA methylation in Arabidopsis. Proc. Natl Acad. Sci. USA, 109, 83748381.
  • Bateman, A. (2002) The SGS3 protein involved in PTGS finds a family. BMC Bioinformatics, 3, 21.
  • Bies-Etheve, N., Pontier, D., Lahmy, S., Picart, C., Vega, D., Cooke, R. and Lagrange, T. (2009) RNA-directed DNA methylation requires an AGO4-interacting member of the SPT5 elongation factor family. EMBO Rep.10, 649654.
  • Cao, X. and Jacobsen, S.E. (2002) Locus-specific control of asymmetric and CpNpG methylation by the DRM and CMT3 methyltransferase genes. Proc. Natl Acad. Sci. USA, 99, 1649116498.
  • Cao, X., Aufsatz, W., Zilberman, D., Mette, M.F., Huang, M.S., Matzke, M. and Jacobsen, S.E. (2003) Role of the DRM and CMT3 methyltransferases in RNA-directed DNA methylation. Curr. Biol.13, 22122217.
  • Curtis, M.D. and Grossniklaus, U. (2003) A GATEWAY cloning vector set for high-throughput functional analysis of genes in planta. Plant Physiol.133, 462469.
  • El-Shami, M., Pontier, D., Lahmy, S., Braun, L., Picart, C., Vega, D., Hakimi, M.A., Jacobsen, S.E., Cooke, R. and Lagrange, T. (2007) Reiterated WG/GW motifs form functionally and evolutionarily conserved ARGONAUTE-binding platforms in RNAi-related components. Genes Dev.21, 25392544.
  • Feng, S., Jacobsen, S.E. and Reik, W. (2010) Epigenetic reprogramming in plant and animal development. Science, 330, 622627.
  • Gao, Z., Liu, H.L., Daxinger, L. et al. (2010) An RNA polymerase II- and AGO4-associated protein acts in RNA-directed DNA methylation. Nature, 465, 106109.
  • Havecker, E.R., Wallbridge, L.M., Hardcastle, T.J., Bush, M.S., Kelly, K.A., Dunn, R.M., Schwach, F., Doonan, J.H. and Baulcombe, D.C. (2010) The Arabidopsis RNA-directed DNA methylation argonautes functionally diverge based on their expression and interaction with target loci. Plant Cell, 22, 321334.
  • He, X.J., Hsu, Y.F., Zhu, S., Wierzbicki, A.T., Pontes, O., Pikaard, C.S., Liu, H.L., Wang, C.S., Jin, H. and Zhu, J.K. (2009) An effector of RNA-directed DNA methylation in Arabidopsis is an ARGONAUTE 4- and RNA-binding protein. Cell, 137, 498508.
  • Herr, A.J., Jensen, M.B., Dalmay, T. and Baulcombe, D.C. (2005) RNA polymerase IV directs silencing of endogenous DNA. Science, 308, 118120.
  • Ito, M., Koike, A., Koizumi, N. and Sano, H. (2003) Methylated DNA-binding proteins from Arabidopsis. Plant Physiol.133, 17471754.
  • Jiao, X., Trifillis, P. and Kiledjian, M. (2002) Identification of target messenger RNA substrates for the murine deleted in azoospermia-like RNA-binding protein. Biol. Reprod.66, 475485.
  • Kanno, T., Mette, M.F., Kreil, D.P., Aufsatz, W., Matzke, M. and Matzke, A.J. (2004) Involvement of putative SNF2 chromatin remodeling protein DRD1 in RNA-directed DNA methylation. Curr. Biol.14, 801805.
  • Kanno, T., Huettel, B., Mette, M.F., Aufsatz, W., Jaligot, E., Daxinger, L., Kreil, D.P., Matzke, M. and Matzke, A.J. (2005) Atypical RNA polymerase subunits required for RNA-directed DNA methylation. Nat. Genet.37, 761765.
  • Kanno, T., Bucher, E., Daxinger, L., Huettel, B., Bohmdorfer, G., Gregor, W., Kreil, D.P., Matzke, M. and Matzke, A.J. (2008) A structural-maintenance-of-chromosomes hinge domain-containing protein is required for RNA-directed DNA methylation. Nat. Genet.40, 670675.
  • Law, J.A., Ausin, I., Johnson, L.M., Vashisht, A.A., Zhu, J.K., Wohlschlegel, J.A. and Jacobsen, S.E. (2010) A protein complex required for polymerase V transcripts and RNA-directed DNA methylation in Arabidopsis. Curr. Biol.20, 951956.
  • Law, J.A., Vashisht, A.A., Wohlschlegel, J.A. and Jacobsen, S.E. (2011) SHH1, a homeodomain protein required for DNA methylation, as well as RDR2, RDM4, and chromatin remodeling factors, associate with RNA polymerase IV. PLoS Genet.7, e1002195.
  • Liu, J., Bai, G., Zhang, C., Chen, W., Zhou, J., Zhang, S., Chen, Q., Deng, X., He, X.J. and Zhu, J.K. (2011) An atypical component of RNA-directed DNA methylation machinery has both DNA methylation-dependent and -independent roles in locus-specific transcriptional gene silencing. Cell Res.21, 16911700.
  • Moazed, D. (2009) Small RNAs in transcriptional gene silencing and genome defence. Nature, 457, 413420.
  • Mourrain, P., Beclin, C., Elmayan, T. et al. (2000) Arabidopsis SGS2 and SGS3 genes are required for posttranscriptional gene silencing and natural virus resistance. Cell, 101, 533542.
  • Onodera, Y., Haag, J.R., Ream, T., Costa Nunes, P., Pontes, O. and Pikaard, C.S. (2005) Plant nuclear RNA polymerase IV mediates siRNA and DNA methylation-dependent heterochromatin formation. Cell, 120, 613622.
  • Peragine, A., Yoshikawa, M., Wu, G., Albrecht, H.L. and Poethig, R.S. (2004) SGS3 and SGS2/SDE1/RDR6 are required for juvenile development and the production of trans-acting siRNAs in Arabidopsis. Genes Dev.18, 23682379.
  • Pontier, D., Yahubyan, G., Vega, D., Bulski, A., Saez-Vasquez, J., Hakimi, M.A., Lerbs-Mache, S., Colot, V. and Lagrange, T. (2005) Reinforcement of silencing at transposons and highly repeated sequences requires the concerted action of two distinct RNA polymerases IV in Arabidopsis. Genes Dev.19, 20302040.
  • Rowley, M.J., Avrutsky, M.I., Sifuentes, C.J., Pereira, L. and Wierzbicki, A.T. (2011) Independent chromatin binding of ARGONAUTE4 and SPT5L/KTF1 mediates transcriptional gene silencing. PLoS Genet.7, e1002120.
  • Smith, L.M., Pontes, O., Searle, I., Yelina, N., Yousafzai, F.K., Herr, A.J., Pikaard, C.S. and Baulcombe, D.C. (2007) An SNF2 protein associated with nuclear RNA silencing and the spread of a silencing signal between cells in Arabidopsis. Plant Cell, 19, 15071521.
  • Wierzbicki, A.T., Haag, J.R. and Pikaard, C.S. (2008) Noncoding transcription by RNA polymerase Pol IVb/Pol V mediates transcriptional silencing of overlapping and adjacent genes. Cell, 135, 635648.
  • Wierzbicki, A.T., Ream, T.S., Haag, J.R. and Pikaard, C.S. (2009) RNA polymerase V transcription guides ARGONAUTE4 to chromatin. Nat. Genet.41, 630634.
  • Xie, Z., Johansen, L.K., Gustafson, A.M., Kasschau, K.D., Lellis, A.D., Zilberman, D., Jacobsen, S.E. and Carrington, J.C. (2004) Genetic and functional diversification of small RNA pathways in plants. PLoS Biol.2, E104.
  • Xie, M., Ren, G., Costa-Nunes, P., Pontes, O. and Yu, B. (2012) A subgroup of SGS3-like proteins act redundantly in RNA-directed DNA methylation. Nucleic Acids Res.40, 44224431.
  • Yu, B., Bi, L., Zheng, B. et al. (2008) The FHA domain proteins DAWDLE in Arabidopsis and SNIP1 in humans act in small RNA biogenesis. Proc. Natl Acad. Sci. USA, 105, 1007310078.
  • Zhang, H. and Zhu, J.K. (2011) RNA-directed DNA methylation. Curr. Opin. Plant Biol.14, 142147.
  • Zhang, C.J., Ning, Y.Q., Zhang, S.W., Chen, Q., Shao, C.R., Guo, Y.W., Zhou, J.X., Li, L., Chen, S. and He, X.J. (2012) IDN2 and its paralogs form a complex required for RNA-directed DNA methylation. PLoS Genet.8, e1002693.
  • Zheng, X., Zhu, J., Kapoor, A. and Zhu, J.K. (2007) Role of Arabidopsis AGO6 in siRNA accumulation, DNA methylation and transcriptional gene silencing. EMBO J.26, 16911701.
  • Zheng, B., Wang, Z., Li, S., Yu, B., Liu, J.Y. and Chen, X. (2009) Intergenic transcription by RNA polymerase II coordinates Pol IV and Pol V in siRNA-directed transcriptional gene silencing in Arabidopsis. Genes Dev.23, 28502860.
  • Zheng, Z., Xing, Y., He, X.J., Li, W., Hu, Y., Yadav, S.K., Oh, J. and Zhu, J.K. (2010) An SGS3-like protein functions in RNA-directed DNA methylation and transcriptional gene silencing in Arabidopsis. Plant J.62, 9299.
  • Zilberman, D., Cao, X. and Jacobsen, S.E. (2003) ARGONAUTE4 control of locus-specific siRNA accumulation and DNA and histone methylation. Science, 299, 716719.