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RK Slotkin, M Vaughn, F Borges, M Tanurdzic, JD Becker, JA Feijo (2009)
Epigenetic reprogramming and small RNA silencing of transposable elements in pollenCell, 136
TA Montgomery, MD Howell, JT Cuperus, DW Li, JE Hansen, AL Alexander (2008)
Specificity of ARGONAUTE7-miR390 interaction and dual functionality in TAS3 trans-acting siRNA formationCell, 133
JT Cuperus (2010)
10.1038/nsmb.1866Nature Structural and Molecular Biology, 17
R Ye (2012)
10.1016/j.molcel.2012.04.013Molecular Cell, 46
Z Xie, E Allen, N Fahlgren, A Calamar, SA Givan, JC Carrington (2005)
Expression of Arabidopsis MIRNA genesPlant Physiology, 138
C Zhang, DW Ng, J Lu, ZJ Chen (2012)
Roles of target site location and sequence complementarity in trans-acting siRNA formation in ArabidopsisThe Plant Journal, 69
C Eun, ZJ Lorkovic, U Naumann, Q Long, ER Havecker, SA Simon (2011)
AGO6 functions in RNA-mediated transcriptional gene silencing in shoot and root meristems in Arabidopsis thalianaPLoS ONE, 6
J Zhai (2015)
10.1016/j.cell.2015.09.032Cell, 163
WY Lin (2013)
10.1105/tpc.113.116012The Plant Cell, 25
BS Park (2014)
10.1105/tpc.113.120311The Plant Cell, 26
TA Golden, SE Schauer, JD Lang, S Pien, AR Mushegian, U Grossniklaus (2002)
SHORT INTEGUMENTS1/SUSPENSOR1/CARPEL FACTORY, a Dicer homolog, is a maternal effect gene required for embryo development in ArabidopsisPlant Physiology, 130
WJJ Soppe, SE Jacobsen, C Alonso-Blanco, JP Jackson, T Kakutani, M Koornneef (2000)
The late flowering phenotype of fwa mutants is caused by gain-of-function epigenetic alleles of a homeodomain geneMolecular Cell, 6
SW Chan (2004)
10.1126/science.1095989Science, 303
JR Haag (2011)
10.1038/nrm3152Nature Reviews Molecular Cell Biology, 12
B Yu (2010)
10.1093/nar/gkq348Nucleic Acids Research, 38
CY Hou (2016)
10.1105/tpc.16.00295The Plant Cell, 28
O Voinnet (2009)
10.1016/j.cell.2009.01.046Cell, 136
HM Chen (2010)
10.1073/pnas.1001738107Proceedings of the National Academy of Sciences USA, 107
D Fultz, RK Slotkin (2017)
Exogenous transposable elements circumvent identity-based silencing, permitting the dissection of expression-dependent silencingThe Plant Cell, 29
K Lynn (1999)
10.1242/dev.126.3.469Development, 126
SF Li, LE Vandivier, B Tu, L Gao, SY Won, SB Li (2015)
Detection of Pol IV/RDR2-dependent transcripts at the genomic scale in Arabidopsis reveals features and regulation of siRNA biogenesisGenome Research, 25
TA Golden (2002)
10.1104/pp.003491Plant Physiology, 130
SJ Mi, T Cai, YG Hu, Y Chen, E Hodges, FR Ni (2008)
Sorting of small RNAs into Arabidopsis argonaute complexes is directed by the 5’ terminal nucleotideCell, 133
CA Kidner, RA Martienssen (2005)
The role of ARGONAUTE1 (AGO1) in meristem formation and identityDevelopment Biology, 280
S Dukowic-Schulze (2016)
10.3389/fpls.2016.00762Front in Plant Sciences, 7
D Fultz (2017)
10.1105/tpc.16.00718The Plant Cell, 29
S Laubinger (2010)
10.1073/pnas.1012891107Proceedings of the National Academy of Sciences USA, 107
E Lanet (2009)
10.1105/tpc.108.063412The Plant Cell, 21
DM Bond (2015)
10.1073/pnas.1413053112Proceedings of the National Academy of Sciences USA, 112
H Vaucheret (2008)
10.1016/j.tplants.2008.04.007Trends in Plant Science, 13
MJ Axtell (2013)
10.1146/annurev-arplant-050312-120043Annual Review of Plant Biology, 64
XM Chen (2004)
10.1126/science.1088060Science, 303
AE Martinez de Alba, AB Moreno, M Gabriel, AC Mallory, A Christ, R Bounon (2015)
In plants, decapping prevents RDR6-dependent production of small interfering RNAs from endogenous mRNAsNucleic Acids Research, 43
O Voinnet (2009)
Origin, biogenesis, and activity of plant microRNAsCell, 136
S Kant, M Peng, SJ Rothstein (2011)
Genetic regulation by NLA and microRNA827 for maintaining nitrate-dependent phosphate homeostasis in arabidopsisPLoS Genetics, 7
T Dalmay (2000)
10.1016/S0092-8674(00)80864-8Cell, 101
ZY Yang (2006)
10.1093/nar/gkj474Nucleic Acids Research, 34
Z Xie (2005)
10.1104/pp.105.062943Plant Physiology, 138
L Wu, L Mao, Y Qi (2012)
Roles of dicer-like and argonaute proteins in TAS-derived small interfering RNA-triggered DNA methylationPlant Physiology, 160
NG Bologna (2014)
10.1146/annurev-arplant-050213-035728Annual Review of Plant Biology, 65
L Arribas-Hernandez, A Marchais, C Poulsen, B Haase, J Hauptmann, V Benes (2016)
The slicer activity of ARGONAUTE1 is required specifically for the phasing, not production, of trans-acting short interfering RNAs in arabidopsisThe Plant Cell, 28
NG Bologna, O Voinnet (2014)
The diversity, biogenesis, and activities of endogenous silencing small RNAs in ArabidopsisAnnual Review of Plant Biology, 65
MJ Axtell (2006)
10.1016/j.cell.2006.09.032Cell, 127
DH Chitwood, FT Nogueira, MD Howell, TA Montgomery, JC Carrington, MC Timmermans (2009)
Pattern formation via small RNA mobilityGenes and Development, 23
A Mallory (2010)
10.1105/tpc.110.080671The Plant Cell, 22
MJ Axtell, C Jan, R Rajagopalan, DP Bartel (2006)
A two-hit trigger for siRNA biogenesis in plantsCell, 127
C Poulsen (2013)
10.1105/tpc.112.105643The Plant Cell, 25
A Takeda (2008)
10.1093/pcp/pcn043Plant and Cell Physiology, 49
CA Kidner (2005)
10.1016/j.ydbio.2005.01.031Development Biology, 280
Z Luo, Z Chen (2007)
Improperly terminated, unpolyadenylated mRNA of sense transgenes is targeted by RDR6-mediated RNA silencing in ArabidopsisThe Plant Cell, 19
KM Creasey (2014)
10.1038/nature13069Nature, 508
DM Bond, DC Baulcombe (2015)
Epigenetic transitions leading to heritable, RNA-mediated de novo silencing in Arabidopsis thalianaProceedings of the National Academy of Sciences USA, 112
A Peragine (2004)
10.1101/gad.1231804Genes and Development, 18
H Stroud, T Do, J Du, X Zhong, S Feng, L Johnson (2014)
Non-CG methylation patterns shape the epigenetic landscape in ArabidopsisNature Structural and Molecular Biology, 21
X Zheng (2007)
10.1038/sj.emboj.7601603EMBO Journal, 26
R Ye, W Wang, T Iki, C Liu, Y Wu, M Ishikawa (2012)
Cytoplasmic assembly and selective nuclear import of Arabidopsis Argonaute4/siRNA complexesMolecular Cell, 46
A Deleris, J Gallego-Bartolome, J Bao, KD Kasschau, JC Carrington, O Voinnet (2006)
Hierarchical action and inhibition of plant Dicer-like proteins in antiviral defenseScience, 313
MJ Axtell (2013)
Classification and comparison of small RNAs from plantsAnnual Review of Plant Biology, 64
X Zheng, J Zhu, A Kapoor, JK Zhu (2007)
Role of Arabidopsis AGO6 in siRNA accumulation, DNA methylation and transcriptional gene silencingEMBO Journal, 26
A Deleris (2006)
10.1126/science.1128214Science, 313
M El-Shami, D Pontier, S Lahmy, L Braun, C Picart, D Vega (2007)
Reiterated WG/GW motifs form functionally and evolutionarily conserved ARGONAUTE-binding platforms in RNAi-related componentsGenes and Development, 21
X Zhong (2012)
10.1038/nsmb.2354Nature Structural and Molecular Biology, 19
V Jouannet (2012)
10.1038/emboj.2012.20EMBO Journal, 31
KM Creasey, J Zhai, F Borges, F Ex, M Regulski, BC Meyers (2014)
miRNAs trigger widespread epigenetically activated siRNAs from transposons in ArabidopsisNature, 508
FK Teixeira, F Heredia, A Sarazin, F Roudier, M Boccara, C Ciaudo (2009)
A role for RNAi in the selective correction of DNA methylation defectsScience, 323
B Zheng (2009)
10.1101/gad.1868009Genes and Development, 23
SI Lin, C Santi, E Jobet, E Lacut, N Kholti, WM Karlowski (2010)
Complex regulation of two target genes encoding SPX-MFS proteins by rice miR827 in response to phosphate starvationPlant and Cell Physiology, 51
LC Hsieh, SI Lin, AC Shih, JW Chen, WY Lin, CY Tseng (2009)
Uncovering small RNA-mediated responses to phosphate deficiency in Arabidopsis by deep sequencingPlant Physiology, 151
KD Kasschau (2003)
10.1016/S1534-5807(03)00025-XDevelopmental Cell, 4
A Zemach, MY Kim, PH Hsieh, D Coleman-Derr, L Eshed-Williams, K Thao (2013)
The Arabidopsis nucleosome remodeler DDM1 allows DNA methyltransferases to access H1-containing heterochromatinCell, 153
TA Montgomery (2008)
10.1016/j.cell.2008.02.033Cell, 133
F Vazquez (2004)
10.1016/j.molcel.2004.09.028Molecular Cell, 16
Z Xie (2004)
10.1371/journal.pbio.0020104PLoS Biology, 2
S Li, B Le, X Ma, S Li, C You, Y Yu (2016)
Biogenesis of phased siRNAs on membrane-bound polysomes in ArabidopsisElife, 5
S Li (2013)
10.1016/j.cell.2013.04.005Cell, 153
V Gasciolli (2005)
10.1016/j.cub.2005.07.024Current Biology, 15
Y Qi (2006)
10.1038/nature05198Nature, 443
AD McCue (2015)
10.15252/embj.201489499EMBO Journal, 34
S Dukowic-Schulze, A Sundararajan, T Ramaraj, S Kianian, WP Pawlowski, J Mudge (2016)
Novel meiotic miRNAs and indications for a role of phasiRNAs in meiosisFront in Plant Sciences, 7
SE Schauer, SE Jacobsen, DW Meinke, A Ray (2002)
DICER-LIKE1: blind men and elephants in Arabidopsis developmentTrends in Plant Science, 7
V Jouannet, AB Moreno, T Elmayan, H Vaucheret, MD Crespi, A Maizel (2012)
Cytoplasmic Arabidopsis AGO7 accumulates in membrane-associated siRNA bodies and is required for ta-siRNA biogenesisEMBO Journal, 31
M Yoshikawa, A Peragine, MY Park, RS Poethig (2005)
A pathway for the biogenesis of trans-acting siRNAs in ArabidopsisGenes and Development, 19
H Stroud (2014)
10.1038/nsmb.2735Nature Structural and Molecular Biology, 21
Y Qi, X He, XJ Wang, O Kohany, J Jurka, GJ Hannon (2006)
Distinct catalytic and non-catalytic roles of ARGONAUTE4 in RNA-directed DNA methylationNature, 443
MA Matzke (2015)
10.1146/annurev-arplant-043014-114633Annual Review of Plant Biology, 66
B Zheng, Z Wang, S Li, B Yu, JY Liu, X Chen (2009)
Intergenic transcription by RNA polymerase II coordinates Pol IV and Pol V in siRNA-directed transcriptional gene silencing in ArabidopsisGenes and Development, 23
JM Wendte, JR Haag, J Singh, A McKinlay, OM Pontes, CS Pikaard (2017)
Functional dissection of the Pol V largest subunit CTD in RNA-directed DNA methylationCell Reports, 19
P Brodersen, L Sakvarelidze-Achard, M Bruun-Rasmussen, P Dunoyer, YY Yamamoto, L Sieburth (2008)
Widespread translational inhibition by plant miRNAs and siRNAsScience, 320
A Mari-Ordonez (2013)
10.1038/ng.2703Nature Genetics, 45
A Peragine, M Yoshikawa, G Wu, HL Albrecht, RS Poethig (2004)
SGS3 and SGS2/SDE1/RDR6 are required for juvenile development and the production of trans-acting siRNAs in ArabidopsisGenes and Development, 18
EA Vidal, V Araus, C Lu, G Parry, PJ Green, GM Coruzzi (2010)
Nitrate-responsive miR393/AFB3 regulatory module controls root system architecture in Arabidopsis thalianaProceedings of the National Academy of Sciences USA, 107
C Llave, Z Xie, KD Kasschau, JC Carrington (2002)
Cleavage of Scarecrow-like mRNA targets directed by a class of Arabidopsis miRNAScience, 297
F Maumus, H Quesneville (2014)
Ancestral repeats have shaped epigenome and genome composition for millions of years in Arabidopsis thalianaNature Communications, 5
XM Chen (2004)
A microRNA as a translational repressor of APETALA2 in Arabidopsis flower developmentScience, 303
JA Law, SE Jacobsen (2010)
Establishing, maintaining and modifying DNA methylation patterns in plants and animalsNature Reviews Genetics, 11
JR Haag, CS Pikaard (2011)
Multisubunit RNA polymerases IV and V: Purveyors of non-coding RNA for plant gene silencingNature Reviews Molecular Cell Biology, 12
IR Henderson, X Zhang, C Lu, L Johnson, BC Meyers, PJ Green (2006)
Dissecting Arabidopsis thaliana DICER function in small RNA processing, gene silencing and DNA methylation patterningNature Genetics, 38
LC Hsieh (2009)
10.1104/pp.109.147280Plant Physiology, 151
A Takeda, S Iwasaki, T Watanabe, M Utsumi, Y Watanabe (2008)
The mechanism selecting the guide strand from small RNA duplexes is different among argonaute proteinsPlant and Cell Physiology, 49
ZY Yang, YW Ebright, B Yu, XM Chen (2006)
HEN1 recognizes 21-24 nt small RNA duplexes and deposits a methyl group onto the 2 ‘ OH of the 3 ‘ terminal nucleotideNucleic Acids Research, 34
FF Felippes, A Marchais, A Sarazin, S Oberlin, O Voinnet (2017)
A single miR390 targeting event is sufficient for triggering TAS3-tasiRNA biogenesis in ArabidopsisNucleic Acids Research, 45
K Panda (2016)
10.1186/s13059-016-1032-yGenome Biology, 17
D Pontier, C Picart, F Roudier, D Garcia, S Lahmy, J Azevedo (2012)
NERD, a plant-specific GW protein, defines an additional RNAi-dependent chromatin-based pathway in ArabidopsisMolecular Cell, 48
DE Pyott, A Molnar (2015)
Going mobile: non-cell-autonomous small RNAs shape the genetic landscape of plantsPlant Biotechnology Journal, 13
M Yoshikawa (2005)
10.1101/gad.1352605Genes and Development, 19
N Bao (2004)
10.1016/j.devcel.2004.10.003Developmental Cell, 7
HM Chen (2007)
10.1073/pnas.0611119104Proceedings of the National Academy of Sciences USA, 104
C Llave (2002)
10.1126/science.1076311Science, 297
C Zhang (2012)
10.1111/j.1365-313X.2011.04783.xThe Plant Journal, 69
R Sunkar (2007)
10.1016/j.tplants.2007.05.001Trends in Plant Science, 12
C Poulsen, H Vaucheret, P Brodersen (2013)
Lessons on RNA silencing mechanisms in plants from eukaryotic argonaute structuresThe Plant Cell, 25
MJ Aukerman (2003)
10.1105/tpc.016238The Plant Cell, 15
CW Melnyk (2011)
10.1038/emboj.2011.274EMBO Journal, 30
KD Kasschau, Z Xie, E Allen, C Llave, EJ Chapman, KA Krizan (2003)
P1/HC-Pro, a viral suppressor of RNA silencing, interferes with Arabidopsis development and miRNA FunctionDevelopmental Cell, 4
L Arribas-Hernandez (2016)
10.1105/tpc.16.00121The Plant Cell, 28
MD Howell (2007)
10.1105/tpc.107.050062The Plant Cell, 19
WY Lin, TK Huang, TJ Chiou (2013)
Nitrogen limitation adaptation, a target of microRNA827, mediates degradation of plasma membrane-localized phosphate transporters to maintain phosphate homeostasis in ArabidopsisThe Plant Cell, 25
MW Jones-Rhoades, DP Bartel, B Bartel (2006)
MicroRNAs and their regulatory roles in plantsAnnual Review of Plant Biology, 57
F Wang, MJ Axtell (2017)
AGO4 is specifically required for heterochromatic siRNA accumulation at Pol V-dependent loci in Arabidopsis thalianaThe Plant Journal, 90
EA Vidal (2010)
10.1073/pnas.0909571107Proceedings of the National Academy of Sciences USA, 107
SF Li (2015)
10.1101/gr.182238.114Genome Research, 25
V Gasciolli, AC Mallory, DP Bartel, H Vaucheret (2005)
Partially redundant functions of Arabidopsis DICER-like enzymes and a role for DCL4 in producing trans-acting siRNAsCurrent Biology, 15
JT Cuperus, A Carbonell, N Fahlgren, H Garcia-Ruiz, RT Burke, A Takeda (2010)
Unique functionality of 22-nt miRNAs in triggering RDR6-dependent siRNA biogenesis from target transcripts in ArabidopsisNature Structural and Molecular Biology, 17
A Vongs, T Kakutani, RA Martienssen, EJ Richards (1993)
Arabidopsis thaliana DNA methylation mutantsScience, 260
AE Martinez de Alba (2015)
10.1093/nar/gkv119Nucleic Acids Research, 43
RK Slotkin (2009)
10.1016/j.cell.2008.12.038Cell, 136
M El-Shami (2007)
10.1101/gad.451207Genes and Development, 21
X Zhong, CJ Hale, JA Law, LM Johnson, S Feng, A Tu (2012)
DDR complex facilitates global association of RNA polymerase V to promoters and evolutionarily young transposonsNature Structural and Molecular Biology, 19
SI Lin (2010)
10.1093/pcp/pcq170Plant and Cell Physiology, 51
B Yu, ZY Yang, JJ Li, S Minakhina, MC Yang, RW Padgett (2005)
Methylation as a crucial step in plant microRNA biogenesisScience, 307
DH Chitwood (2009)
10.1101/gad.1770009Genes and Development, 23
FF Felippes de (2017)
10.1093/nar/gkx119Nucleic Acids Research, 45
H Vaucheret (2008)
Plant ARGONAUTESTrends in Plant Science, 13
Q Fei (2013)
10.1105/tpc.113.114652The Plant Cell, 25
S Nuthikattu, AD McCue, K Panda, D Fultz, C DeFraia, EN Thomas (2013)
The Initiation of Epigenetic silencing of active transposable elements is triggered by RDR6 and 21-22 nucleotide small interfering RNAsPlant Physiology, 162
R Sunkar, V Chinnusamy, JH Zhu, JK Zhu (2007)
Small RNAs as big players in plant abiotic stress responses and nutrient deprivationTrends in Plant Science, 12
M Gandikota, RP Birkenbihl, S Hohmann, GH Cardon, H Saedler, P Huijser (2007)
The miRNA156/157 recognition element in the 3′ UTR of the Arabidopsis SBP box gene SPL3 prevents early flowering by translational inhibition in seedlingsThe Plant Journal, 49
P Brodersen (2008)
10.1126/science.1159151Science, 320
J Zhai, S Bischof, H Wang, S Feng, TF Lee, C Teng (2015)
A one precursor one siRNA Model for Pol IV-dependent siRNA biogenesisCell, 163
S Nuthikattu (2013)
10.1104/pp.113.216481Plant Physiology, 162
Z Luo (2007)
10.1105/tpc.106.045724The Plant Cell, 19
MW Jones-Rhoades (2006)
10.1146/annurev.arplant.57.032905.105218Annual Review of Plant Biology, 57
AD McCue, K Panda, S Nuthikattu, SG Choudury, EN Thomas, RK Slotkin (2015)
ARGONAUTE 6 bridges transposable element mRNA-derived siRNAs to the establishment of DNA methylationEMBO Journal, 34
WJJ Soppe (2000)
10.1016/S1097-2765(05)00090-0Molecular Cell, 6
SJ Mi (2008)
10.1016/j.cell.2008.02.034Cell, 133
MD Howell, N Fahlgren, EJ Chapman, JS Cumbie, CM Sullivan, SA Givan (2007)
Genome-wide analysis of the RNA-DEPENDENT RNA POLYMERASE6/DICER-LIKE4 pathway in Arabidopsis reveals dependency on miRNA- and tasiRNA-directed targetingThe Plant Cell, 19
P Mourrain, C Beclin, T Elmayan, F Feuerbach, C Godon, JB Morel (2000)
Arabidopsis SGS2 and SGS3 genes are required for posttranscriptional gene silencing and natural virus resistanceCell, 101
HM Chen, YH Li, SH Wu (2007)
Bioinformatic prediction and experimental validation of a microRNA-directed tandem trans-acting siRNA cascade in ArabidopsisProceedings of the National Academy of Sciences USA, 104
H Yamasaki (2007)
10.1074/jbc.M700138200Journal of Biological Chemistry, 282
IR Henderson (2006)
10.1038/ng1804Nature Genetics, 38
S Li, L Liu, X Zhuang, Y Yu, X Liu, X Cui (2013)
MicroRNAs inhibit the translation of target mRNAs on the endoplasmic reticulum in ArabidopsisCell, 153
P Mourrain (2000)
10.1016/S0092-8674(00)80863-6Cell, 101
DE Pyott (2015)
10.1111/pbi.12353Plant Biotechnology Journal, 13
FK Teixeira (2009)
10.1126/science.1165313Science, 323
D Pontier (2012)
10.1016/j.molcel.2012.07.027Molecular Cell, 48
T Kanno, M Yoshikawa, Y Habu (2013)
Locus-Specific Requirements of DDR Complexes for Gene-Body Methylation of TAS Genes in Arabidopsis thalianaPlant Molecular Biology Reporter, 31
N Bao, KW Lye, MK Barton (2004)
MicroRNA binding sites in Arabidopsis class III HD-ZIP mRNAs are required for methylation of the template chromosomeDevelopmental Cell, 7
MJ Aukerman, H Sakai (2003)
Regulation of flowering time and floral organ identity by a MicroRNA and its APETALA2-like target genesThe Plant Cell, 15
SE Schauer (2002)
10.1016/S1360-1385(02)02355-5Trends in Plant Science, 7
K Lynn, A Fernandez, M Aida, J Sedbrook, M Tasaka, P Masson (1999)
The PINHEAD/ZWILLE gene acts pleiotropically in Arabidopsis development and has overlapping functions with the ARGONAUTE1 geneDevelopment, 126
Z Xie, LK Johansen, AM Gustafson, KD Kasschau, AD Lellis, D Zilberman (2004)
Genetic and functional diversification of small RNA pathways in plantsPLoS Biology, 2
V Jauvion (2012)
10.1371/journal.pone.0029785PLoS ONE, 7
A Vongs (1993)
10.1126/science.8316832Science, 260
V Jauvion, M Rivard, N Bouteiller, T Elmayan, H Vaucheret (2012)
RDR2 partially antagonizes the production of RDR6-dependent siRNA in sense transgene-mediated PTGSPLoS ONE, 7
S Kant (2011)
10.1371/journal.pgen.1002021PLoS Genetics, 7
F Maumus (2014)
10.1038/ncomms5104Nature Communications, 5
N Bouche (2006)
10.1038/sj.emboj.7601217EMBO Journal, 25
T Dalmay, A Hamilton, S Rudd, S Angell, DC Baulcombe (2000)
An RNA-Dependent RNA polymerase gene in Arabidopsis is required for posttranscriptional gene silencing mediated by a transgene but not by a virusCell, 101
MA Matzke, T Kanno, AJM Matzke (2015)
RNA-directed DNA methylation: The evolution of a complex epigenetic pathway in flowering plantsAnnual Review of Plant Biology, 66
CY Hou, WC Lee, HC Chou, AP Chen, SJ Chou, HM Chen (2016)
Global analysis of truncated RNA ends reveals new insights into ribosome stalling in plantsThe Plant Cell, 28
JM Wendte (2017)
10.1016/j.celrep.2017.05.091Cell Reports, 19
T Kanno (2013)
10.1007/s11105-012-0554-zPlant Molecular Biology Reporter, 31
L Wu (2012)
10.1104/pp.112.200279Plant Physiology, 160
N Bouche, D Lauressergues, V Gasciolli, H Vaucheret (2006)
An antagonistic function for Arabidopsis DCL2 in development and a new function for DCL4 in generating viral siRNAsEMBO Journal, 25
HM Chen, LT Chen, K Patel, YH Li, DC Baulcombe, SH Wu (2010)
22-Nucleotide RNAs trigger secondary siRNA biogenesis in plantsProceedings of the National Academy of Sciences USA, 107
ER Havecker, LM Wallbridge, TJ Hardcastle, MS Bush, KA Kelly, RM Dunn (2010)
The Arabidopsis RNA-directed DNA methylation argonautes functionally diverge based on their expression and interaction with target lociThe Plant Cell, 22
F Wang (2017)
10.1111/tpj.13463The Plant Journal, 90
A Mallory, H Vaucheret (2010)
Form, function, and regulation of ARGONAUTE proteinsThe Plant Cell, 22
BS Park, JS Seo, NH Chua (2014)
NITROGEN LIMITATION ADAPTATION recruits PHOSPHATE2 to target the phosphate transporter PT2 for degradation during the regulation of Arabidopsis phosphate homeostasisThe Plant Cell, 26
B Yu (2005)
10.1126/science.1107130Science, 307
JA Law (2010)
10.1038/nrg2719Nature Reviews Genetics, 11
S Li (2016)
10.7554/eLife.22750Elife, 5
ER Havecker (2010)
10.1105/tpc.109.072199The Plant Cell, 22
K Panda, L Ji, DA Neumann, J Daron, RJ Schmitz, RK Slotkin (2016)
Full-length autonomous transposable elements are preferentially targeted by expression-dependent forms of RNA-directed DNA methylationGenome Biology, 17
C Eun (2011)
10.1371/journal.pone.0025730PLoS ONE, 6
Q Fei, R Xia, BC Meyers (2013)
Phased, secondary, small interfering RNAs in posttranscriptional regulatory networksThe Plant Cell, 25
A Mari-Ordonez, A Marchais, M Etcheverry, A Martin, V Colot, O Voinnet (2013)
Reconstructing de novo silencing of an active plant retrotransposonNature Genetics, 45
S Laubinger, G Zeller, SR Henz, S Buechel, T Sachsenberg, JW Wang (2010)
Global effects of the small RNA biogenesis machinery on the Arabidopsis thaliana transcriptomeProceedings of the National Academy of Sciences USA, 107
M Yoshikawa (2016)
10.1104/pp.16.00148Plant Physiology, 171
B Yu, L Bi, J Zhai, M Agarwal, S Li, Q Wu (2010)
siRNAs compete with miRNAs for methylation by HEN1 in ArabidopsisNucleic Acids Research, 38
F Vazquez, H Vaucheret, R Rajagopalan, C Lepers, V Gasciolli, AC Mallory (2004)
Endogenous trans-acting siRNAs regulate the accumulation of Arabidopsis mRNAsMolecular Cell, 16
E Lanet, E Delannoy, R Sormani, M Floris, P Brodersen, P Crete (2009)
Biochemical evidence for translational repression by Arabidopsis microRNAsThe Plant Cell, 21
CW Melnyk, A Molnar, DC Baulcombe (2011)
Intercellular and systemic movement of RNA silencing signalsEMBO Journal, 30
H Yamasaki, SE Abdel-Ghany, CM Cohu, Y Kobayashi, T Shikanai, M Pilon (2007)
Regulation of copper homeostasis by micro-RNA in ArabidopsisJournal of Biological Chemistry, 282
M Yoshikawa, T Iki, H Numa, K Miyashita, T Meshi, M Ishikawa (2016)
A short open reading frame encompassing the MicroRNA173 Target site plays a role in trans-acting small interfering RNA biogenesisPlant Physiology, 171
M Gandikota (2007)
10.1111/j.1365-313X.2006.02983.xThe Plant Journal, 49
SW Chan, D Zilberman, Z Xie, LK Johansen, JC Carrington, SE Jacobsen (2004)
RNA silencing genes control de novo DNA methylationScience, 303
A Zemach (2013)
10.1016/j.cell.2013.02.033Cell, 153
RNA silencing refers to small RNA (sRNA)-directed, sequence-specific regulatory mechanisms operating in diverse eukaryotic organisms. Plants possess several genetically distinct sRNA-directed regulatory pathways that are known to operate either posttranscriptionally or transcriptionally. Over the years, the sRNA-directed posttranscriptional gene silencing (PTGS) and sRNA-directed DNA methylation (RdDM), which can lead to epigenetic transcriptional gene silencing (TGS), were considered distinct pathways with little or no interactions. Recent studies have uncovered an expression-dependent pathway termed RDR6-RdDM which involves the nuclear RNA polymerase II (Pol II), RNA-dependent RNA polymerase 6 (RDR6), and Pol V, but not Pol IV and RDR2, key components of the canonical Pol IV-, RDR2-, and DCL3-dependent RdDM (Pol IV-RdDM). The RDR6-RdDM pathway provides a mechanistic link between sRNA-directed PTGS and TGS, revealing previously unappreciated dynamic features of sRNA-directed regulation in plants. This 21- and 22-nucleotide (nt) sRNA-directed RdDM may represent a general transition step during de novo establishment of TGS through the canonical Pol IV-RdDM in plants.
Indian Journal of Plant Physiology – Springer Journals
Published: Dec 22, 2017
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