title: Noncoding RNAs and DNA Methylation in Plants.
abstract: Cytosine DNA methylation is an epigenetic modification in eukaryotes that maintains genome integrity and regulates gene expression. The DNA methylation patterns in plants are more complex than those in animals, and plants and animals have common as well as distinct pathways in regulating DNA methylation. Recent studies involving genetic, molecular, biochemical and genomic approaches have greatly expanded our knowledge of DNA methylation in plants. The roles of many proteins as well as non-coding RNAs in DNA methylation have been uncovered.
authors: Department of Botany and Plant Sciences, Institute of Integrative Genome Biology, University of California, Riverside, CA 92521.
authors: Yuanyuan
authors: Y
authors: Zhao
authors: Department of Botany and Plant Sciences, Institute of Integrative Genome Biology, University of California, Riverside, CA 92521 ; Howard Hughes Medical Institute, University of California, Riverside, CA 92521.
authors: Xuemei
authors: X
authors: Chen
keywords: DNA methylation; Pol IV; Pol V; argonaute; non-coding RNA; siRNA
references: Science. 2011 Oct 21;334(6054):369-73
references: 21921155
references: Cell. 2002 Dec 13;111(6):803-14
references: 12526807
references: Nat Genet. 2005 Jul;37(7):761-5
references: 15924141
references: Mol Cell. 2008 Sep 26;31(6):785-99
references: 18922463
references: J Biol Chem. 2013 Feb 22;288(8):5496-505
references: 23316050
references: Protein Expr Purif. 2012 May;83(1):104-11
references: 22459921
references: Science. 2011 May 13;332(6031):848-52
references: 21566194
references: Science. 2008 Jan 25;319(5862):462-5
references: 18218897
references: Nature. 2014 Mar 6;507(7490):124-8
references: 24463519
references: Cell. 2006 Jul 14;126(1):79-92
references: 16839878
references: PLoS Genet. 2008 Aug 15;4(8):e1000156
references: 18704160
references: Genetics. 2003 Mar;163(3):1109-22
references: 12663548
references: Science. 2001 Jun 15;292(5524):2077-80
references: 11349138
references: Science. 2013 Aug 9;341(6146):1237905
references: 23828890
references: Nature. 2013 Nov 21;503(7476):371-6
references: 24107992
references: PLoS Genet. 2008 Nov;4(11):e1000280
references: 19043555
references: BMC Genomics. 2012 Jul 02;13:300
references: 22747568
references: Nucleic Acids Res. 2013 Oct;41(18):8489-502
references: 23877244
references: PLoS Biol. 2008 Aug 12;6(8):e194
references: 18700816
references: Curr Biol. 2004 May 4;14(9):801-5
references: 15120073
references: EMBO J. 2009 Apr 22;28(8):1078-86
references: 19262562
references: Cell. 2006 Feb 10;124(3):495-506
references: 16469697
references: PLoS Genet. 2011 Oct;7(10):e1002350
references: 22046144
references: Nat Rev Genet. 2010 Mar;11(3):204-20
references: 20142834
references: PLoS Genet. 2011 Jun;7(6):e1002120
references: 21738482
references: Plant Cell. 2006 May;18(5):1166-76
references: 16582009
references: Cell. 2013 Mar 28;153(1):193-205
references: 23540698
references: Mol Cell. 2012 Jun 29;46(6):859-70
references: 22608924
references: Nature. 2008 Mar 13;452(7184):215-9
references: 18278030
references: Curr Biol. 2002 Jul 9;12(13):1138-44
references: 12121623
references: Proc Natl Acad Sci U S A. 2007 Mar 13;104(11):4536-41
references: 17360559
references: Plant Mol Biol. 2000 Jun;43(2-3):189-201
references: 10999404
references: Cell. 2008 May 2;133(3):523-36
references: 18423832
references: Nat Biotechnol. 2011 Jun 01;29(7):607-14
references: 21633356
references: Genes Dev. 2002 Aug 1;16(15):1906-18
references: 12154122
references: Genes Dev. 2007 Feb 1;21(3):267-77
references: 17242155
references: Science. 2012 Jun 15;336(6087):1445-8
references: 22700931
references: EMBO Rep. 2010 Jan;11(1):65-71
references: 20010803
references: Nat Genet. 2009 May;41(5):630-4
references: 19377477
references: Proc Natl Acad Sci U S A. 2012 May 29;109(22):8374-81
references: 22592791
references: Proc Natl Acad Sci U S A. 2006 Aug 1;103(31):11796-801
references: 16864782
references: Proc Natl Acad Sci U S A. 1959 Jun;45(6):828-32
references: 16590451
references: Nature. 2013 Jun 20;498(7454):385-9
references: 23636332
references: PLoS Biol. 2004 May;2(5):E104
references: 15024409
references: Curr Biol. 2007 Feb 20;17(4):379-84
references: 17239600
references: Mol Cell. 2012 Feb 10;45(3):357-70
references: 22325353
references: Mol Cell. 2012 Dec 14;48(5):811-8
references: 23142082
references: PLoS One. 2008 Sep 08;3(9):e3156
references: 18776934
references: Nature. 2010 May 6;465(7294):106-9
references: 20410883
references: Plant J. 2010 Aug;63(3):366-78
references: 20444233
references: Science. 2003 Jan 31;299(5607):716-9
references: 12522258
references: Cell. 2013 Jan 17;152(1-2):352-64
references: 23313553
references: Plant Cell. 2010 Feb;22(2):321-34
references: 20173091
references: PLoS Genet. 2014 Jan;10(1):e1003948
references: 24465213
references: Proc Natl Acad Sci U S A. 2007 Apr 17;104(16):6752-7
references: 17409185
references: Genome Res. 2013 Oct;23(10):1663-74
references: 23739894
references: PLoS Biol. 2007 Mar;5(3):e57
references: 17298187
references: Genes Dev. 2011 Jan 15;25(2):137-52
references: 21245167
references: Mol Cell. 2010 Dec 22;40(6):939-53
references: 21172659
references: Nature. 2004 Jun 24;429(6994):900-3
references: 15215868
references: Nature. 2011 Sep 20;480(7376):245-9
references: 22057020
references: Cell. 2009 May 1;137(3):498-508
references: 19410546
references: Cell. 1994 Feb 11;76(3):567-76
references: 8313476
references: Cell. 2009 Feb 6;136(3):461-72
references: 19203581
references: Genes Dev. 2009 Dec 15;23(24):2850-60
references: 19948763
references: Nature. 2007 May 24;447(7143):425-32
references: 17522676
references: Science. 2005 Apr 1;308(5718):118-20
references: 15692015
references: Plant Cell. 2007 May;19(5):1507-21
references: 17526749
references: Genes Dev. 2005 Sep 1;19(17):2030-40
references: 16140984
references: Nature. 2008 Oct 30;455(7217):1259-62
references: 18815596
references: Trends Genet. 2009 Feb;25(2):82-90
references: 19144439
references: Mol Cell. 2013 Jan 24;49(2):298-309
references: 23246435
references: Nature. 2009 Nov 19;462(7271):315-22
references: 19829295
references: Cell. 2008 Nov 14;135(4):635-48
references: 19013275
references: PLoS Genet. 2011 Jul;7(7):e1002195
references: 21811420
references: Curr Biol. 2010 May 25;20(10):951-6
references: 20409711
references: EMBO J. 2010 Oct 20;29(20):3496-506
references: 20834229
references: Nat Genet. 2008 May;40(5):670-5
references: 18425128
references: Cell. 2005 Mar 11;120(5):613-22
references: 15766525
references: Nature. 2002 Apr 4;416(6880):556-60
references: 11898023
references: Nat Struct Mol Biol. 2009 Dec;16(12):1325-7
references: 19915591
references: Plant Mol Biol. 2008 Aug;67(6):671-81
references: 18493721
references: Plant Cell. 1999 Dec;11(12):2291-301
references: 10590159
references: Cell. 2002 Jul 12;110(1):33-42
references: 12150995
references: Genome Res. 2013 Oct;23(10):1651-62
references: 23739895
references: Nature. 2006 Jul 20;442(7100):295-8
references: 16855589
references: Genes Dev. 2009 Dec 1;23(23):2717-22
references: 19903758
references: Nature. 2009 Jul 9;460(7252):283-6
references: 19494814
references: Trends Plant Sci. 2010 Apr;15(4):204-10
references: 20129810
references: Cell. 2012 Sep 28;151(1):167-80
references: 23021223
references: Nature. 2013 Mar 14;495(7440):193-8
references: 23467092
references: Nature. 2006 Oct 26;443(7114):1008-12
references: 16998468
references: Curr Biol. 2005 Aug 23;15(16):1501-7
references: 16111943
references: Science. 2002 Sep 13;297(5588):1871-3
references: 12077425
references: Nat Struct Mol Biol. 2012 Sep;19(9):870-5
references: 22864289
references: Science. 2012 Sep 14;337(6100):1360-4
references: 22984074