PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Transcription Factor Information

Basic Information | Signature Domain | Sequence |

Basic Information? help Back to Top

TF ID

Niben101Scf06666g01011.1

Organism

Nicotiana benthamiana

Taxonomic ID

4100

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Nicotianoideae; Nicotianeae; Nicotiana

Family

MIKC_MADS

Protein Properties

Length: 1226aa MW: 138387 Da PI: 7.463

Description

MIKC_MADS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Niben101Scf06666g01011.1	genome	BTI	-

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SRF-TF	89.5	1.8e-28	1049	1099	1	51
S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS SRF-TF 1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51 krien+sn qvt+skRrngilKKA+E+SvLCda+v+viif+stgk++e+ss Niben101Scf06666g01011.1 1049 KRIENSSNMQVTYSKRRNGILKKAKEISVLCDARVSVIIFASTGKMHEFSS 1099 79***********************************************96 PP
2	K-box	33.3	2.1e-12	1109	1183	1	88
K-box 1 yqkssgksleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkk 83 y+k +g++l++ak+e+l++e++k+kk ++n+q e l+eL+ Le++Le++l++iR+k+++ + e+ ++l + Niben101Scf06666g01011.1 1109 YHKLTGRRLWDAKHENLDNEINKVKKDNDNMQIE-------------LRELMMLEDALENGLTSIRNKQTQSMEEEQDQLNCQ 1178 78999999***********************9.............89*************************9998777 PP K-box 84 ekelq 88 ++l+ Niben101Scf06666g01011.1 1179 LRQLE 1183 66665 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:2.170.260.10	4.4E-11	188	289	No hit	No description
SMART	SM00949	5.7E-5	203	357	IPR003100	PAZ domain
SuperFamily	SSF101690	6.28E-13	213	289	IPR003100	PAZ domain
Pfam	PF02170	4.4E-11	213	353	IPR003100	PAZ domain
PROSITE profile	PS50821	16.876	218	300	IPR003100	PAZ domain
SuperFamily	SSF101690	6.28E-13	321	329	IPR003100	PAZ domain
Gene3D	G3DSA:2.170.260.10	4.4E-11	321	329	No hit	No description
PROSITE profile	PS50142	24.597	358	530	IPR000999	Ribonuclease III domain
SuperFamily	SSF69065	8.55E-34	372	464	IPR000999	Ribonuclease III domain
Gene3D	G3DSA:1.10.1520.10	4.9E-34	375	452	IPR000999	Ribonuclease III domain
SMART	SM00535	1.9E-27	377	550	IPR000999	Ribonuclease III domain
CDD	cd00593	1.92E-34	377	541	IPR000999	Ribonuclease III domain
Pfam	PF00636	4.9E-24	395	528	IPR000999	Ribonuclease III domain
Gene3D	G3DSA:1.10.1520.10	4.9E-34	498	543	IPR000999	Ribonuclease III domain
SuperFamily	SSF69065	8.55E-34	510	547	IPR000999	Ribonuclease III domain
Gene3D	G3DSA:1.10.1520.10	1.6E-42	569	731	IPR000999	Ribonuclease III domain
SuperFamily	SSF69065	1.46E-34	570	732	IPR000999	Ribonuclease III domain
PROSITE profile	PS50142	31.606	571	712	IPR000999	Ribonuclease III domain
SMART	SM00535	3.8E-33	586	735	IPR000999	Ribonuclease III domain
CDD	cd00593	3.21E-37	587	733	IPR000999	Ribonuclease III domain
PROSITE pattern	PS00517	0	607	615	IPR000999	Ribonuclease III domain
Pfam	PF00636	1.3E-21	607	711	IPR000999	Ribonuclease III domain
PROSITE profile	PS50137	9.052	780	804	IPR014720	Double-stranded RNA-binding domain
SMART	SM00432	1.6E-37	1041	1100	IPR002100	Transcription factor, MADS-box
PROSITE profile	PS50066	31.244	1041	1101	IPR002100	Transcription factor, MADS-box
SuperFamily	SSF55455	1.7E-33	1042	1134	IPR002100	Transcription factor, MADS-box
CDD	cd00265	4.37E-38	1042	1118	No hit	No description
PRINTS	PR00404	1.5E-25	1043	1063	IPR002100	Transcription factor, MADS-box
Pfam	PF00319	2.9E-21	1050	1097	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	1.5E-25	1063	1078	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	1.5E-25	1078	1099	IPR002100	Transcription factor, MADS-box
PROSITE profile	PS51297	6.533	1108	1204	IPR002487	Transcription factor, K-box

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0010216	Biological Process	maintenance of DNA methylation
GO:0010267	Biological Process	production of ta-siRNAs involved in RNA interference
GO:0051214	Biological Process	RNA virus induced gene silencing
GO:0005730	Cellular Component	nucleolus
GO:0003677	Molecular Function	DNA binding
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding
GO:0003725	Molecular Function	double-stranded RNA binding
GO:0004525	Molecular Function	ribonuclease III activity
GO:0046983	Molecular Function	protein dimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 1226 aa Download sequence Send to blast
MNLKGTTKLK ELHGTAHISA LSGTWGYDPN GEVFQAYKMN FSCNIPEVNY SSFVLLLQSE 60 LDDDVGNVEV ELFLVSKFVQ SSVSHCGKLH LDAQQVAKAK LFQELFFNGV FGKLFVKSSG 120 GRKFLLETDE SLWEPSNMYL LLPLDPLDSS CEPCRIDWGG IESSVSVVKF LKRNAWLNAE 180 QSETTRKNSL VDRTVPFMVD LDQTDLIHFA NMSVCRSKLK DMVVVAIHTG RIYSVLDAVA 240 NTSAESPFEV NSEASQSPFS SFANYFHKKY GLVLLYPGQP LLLLKQSHNA FNLLVDFQKE 300 GVSRGTNSTD SKMVVQKSLS NVHMPPELLV GIDIRIDILK SFYLLPSLMH RLESLMLASE 360 LRKEITSHSG DLHISSSLIL EALTSLRCNE SFSMERLELL GDSVLKYAVS CHLFLKYPKK 420 HEGQLSDRRS WAVCNSTLHK VGTSRHLQGY IRDGAFDPRR WTAPGQLSLH LCPCDHGVET 480 SEVPLDKKFL TEDPKVVVGK HCDRGHRWMG SKTISDCVEA LIGAYYVGGG FIAALKLMKW 540 LGVEAELEPS LVEDAIKTAS LYCYTPKAKD IEDLELKLTY KFFVKGLLLE AITHATVLEV 600 DVSYNYQRLE FLGDSVLDIL ITWYLYQKHK DIDPGELTDL RSASVNNDNF AYAAVKRELH 660 VHLQHHSGYL ESEISAFVKL VSDSCSLQGN KAPKVLGDLV ESIAGAILID TKLNLDEVWK 720 IVKPLLSPIV TPDKLELPPL RELIELCDSF GYFLKDHCMV KGDTVHAELR LQLKDELLVA 780 EGCGQTRKNA KGQAALKLLK DLEYKGISSK KKKQETILVD VPHSLGSDGD ICSQANNTCP 840 AMAPCKKQKT ILLNLETAKA QPRACNSNKD IQGMHTVAIA IGPINMKKGG PRQSLYELCK 900 KLQWPMPSLE STERKSKSLV ECGEGSDKRK VYNTFASQIS LTIPDYGLIE LTGDERADKK 960 SSQDSAALLM LYELERRGKV IIGASKFLQY SKFLFNENFF LNYGRLFRDE EGEKPKDKKV 1020 QERIKRKAST QENNNKRKEK MGRGKIEIKR IENSSNMQVT YSKRRNGILK KAKEISVLCD 1080 ARVSVIIFAS TGKMHEFSST SLVDILDQYH KLTGRRLWDA KHENLDNEIN KVKKDNDNMQ 1140 IELRELMMLE DALENGLTSI RNKQTQSMEE EQDQLNCQLR QLEIASMNRN MGEIGQVFQQ 1200 RENEYQNQMP FAFRVQPMQP NLQERF

Sequence ? help Back to Top

Protein Sequence Length: 1226 aa Download sequence Send to blast

MNLKGTTKLK ELHGTAHISA LSGTWGYDPN GEVFQAYKMN FSCNIPEVNY SSFVLLLQSE  60
LDDDVGNVEV ELFLVSKFVQ SSVSHCGKLH LDAQQVAKAK LFQELFFNGV FGKLFVKSSG  120
GRKFLLETDE SLWEPSNMYL LLPLDPLDSS CEPCRIDWGG IESSVSVVKF LKRNAWLNAE  180
QSETTRKNSL VDRTVPFMVD LDQTDLIHFA NMSVCRSKLK DMVVVAIHTG RIYSVLDAVA  240
NTSAESPFEV NSEASQSPFS SFANYFHKKY GLVLLYPGQP LLLLKQSHNA FNLLVDFQKE  300
GVSRGTNSTD SKMVVQKSLS NVHMPPELLV GIDIRIDILK SFYLLPSLMH RLESLMLASE  360
LRKEITSHSG DLHISSSLIL EALTSLRCNE SFSMERLELL GDSVLKYAVS CHLFLKYPKK  420
HEGQLSDRRS WAVCNSTLHK VGTSRHLQGY IRDGAFDPRR WTAPGQLSLH LCPCDHGVET  480
SEVPLDKKFL TEDPKVVVGK HCDRGHRWMG SKTISDCVEA LIGAYYVGGG FIAALKLMKW  540
LGVEAELEPS LVEDAIKTAS LYCYTPKAKD IEDLELKLTY KFFVKGLLLE AITHATVLEV  600
DVSYNYQRLE FLGDSVLDIL ITWYLYQKHK DIDPGELTDL RSASVNNDNF AYAAVKRELH  660
VHLQHHSGYL ESEISAFVKL VSDSCSLQGN KAPKVLGDLV ESIAGAILID TKLNLDEVWK  720
IVKPLLSPIV TPDKLELPPL RELIELCDSF GYFLKDHCMV KGDTVHAELR LQLKDELLVA  780
EGCGQTRKNA KGQAALKLLK DLEYKGISSK KKKQETILVD VPHSLGSDGD ICSQANNTCP  840
AMAPCKKQKT ILLNLETAKA QPRACNSNKD IQGMHTVAIA IGPINMKKGG PRQSLYELCK  900
KLQWPMPSLE STERKSKSLV ECGEGSDKRK VYNTFASQIS LTIPDYGLIE LTGDERADKK  960
SSQDSAALLM LYELERRGKV IIGASKFLQY SKFLFNENFF LNYGRLFRDE EGEKPKDKKV  1020
QERIKRKAST QENNNKRKEK MGRGKIEIKR IENSSNMQVT YSKRRNGILK KAKEISVLCD  1080
ARVSVIIFAS TGKMHEFSST SLVDILDQYH KLTGRRLWDA KHENLDNEIN KVKKDNDNMQ  1140
IELRELMMLE DALENGLTSI RNKQTQSMEE EQDQLNCQLR QLEIASMNRN MGEIGQVFQQ  1200
RENEYQNQMP FAFRVQPMQP NLQERF

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
3c4b_A	9e-35	571	803	15	262	Endoribonuclease Dicer
3c4t_A	9e-35	571	803	15	262	Endoribonuclease Dicer
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Ribonuclease (RNase) III involved in RNA-mediated post-transcriptional gene silencing (PTGS). Involved in the processing of repeat-associated small interfering RNAs (ra-siRNAs, derived from heterochromatin and DNA repeats such as transposons) by cleaving small dsRNAs into 24 nucleotide ra-siRNAs. Plays a role in antiviral RNA silencing. Involved in the production of viral siRNAs derived from the cabbage leaf curl virus (CaLCuV) and tobacco rattle virus (TRV). Targeted by the viral silencing suppressor (VSR) protein 2b of the cucumber mosaic virus (CMV) that inactivates DCL3 function in RNA silencing. Acts redundantly with DICER-LIKE 1 (DCL1) to promote flowering via repression of FLOWERING LOCUS C (FLC). Does not seem to be involved in microRNAs (miRNAs) processing. {ECO:0000269\|PubMed:16040244, ECO:0000269\|PubMed:16810317, ECO:0000269\|PubMed:17579240, ECO:0000269\|PubMed:17586651, ECO:0000269\|PubMed:18353962}.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009777737.1	0.0	PREDICTED: endoribonuclease Dicer homolog 3a
Swissprot	Q9LXW7	0.0	DCL3_ARATH; Endoribonuclease Dicer homolog 3
TrEMBL	A0A1U7WCM4	0.0	A0A1U7WCM4_NICSY; endoribonuclease Dicer homolog 3a
STRING	XP_009777737.1	0.0	(Nicotiana sylvestris)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G20240.1	3e-55	MIKC_MADS family protein

Publications ? help Back to Top
Xie Z, et al. Genetic and functional diversification of small RNA pathways in plants. PLoS Biol., 2004. 2(5): p. E104 [PMID:15024409] Herr AJ,Jensen MB,Dalmay T,Baulcombe DC RNA polymerase IV directs silencing of endogenous DNA. Science, 2005. 308(5718): p. 118-20 [PMID:15692015] Hiraguri A, et al. Specific interactions between Dicer-like proteins and HYL1/DRB-family dsRNA-binding proteins in Arabidopsis thaliana. Plant Mol. Biol., 2005. 57(2): p. 173-88 [PMID:15821876] Allen E,Xie Z,Gustafson AM,Carrington JC microRNA-directed phasing during trans-acting siRNA biogenesis in plants. Cell, 2005. 121(2): p. 207-21 [PMID:15851028] Gasciolli V,Mallory AC,Bartel DP,Vaucheret H Partially redundant functions of Arabidopsis DICER-like enzymes and a role for DCL4 in producing trans-acting siRNAs. Curr. Biol., 2005. 15(16): p. 1494-500 [PMID:16040244] Vaughn MW,Martienssen R It's a small RNA world, after all. Science, 2005. 309(5740): p. 1525-6 [PMID:16141062] Akbergenov R, et al. Molecular characterization of geminivirus-derived small RNAs in different plant species. Nucleic Acids Res., 2006. 34(2): p. 462-71 [PMID:16421273] Margis R, et al. The evolution and diversification of Dicers in plants. FEBS Lett., 2006. 580(10): p. 2442-50 [PMID:16638569] Henderson IR, et al. Dissecting Arabidopsis thaliana DICER function in small RNA processing, gene silencing and DNA methylation patterning. Nat. Genet., 2006. 38(6): p. 721-5 [PMID:16699516] Bouché N,Lauressergues D,Gasciolli V,Vaucheret H An antagonistic function for Arabidopsis DCL2 in development and a new function for DCL4 in generating viral siRNAs. EMBO J., 2006. 25(14): p. 3347-56 [PMID:16810317] Pontes O, et al. The Arabidopsis chromatin-modifying nuclear siRNA pathway involves a nucleolar RNA processing center. Cell, 2006. 126(1): p. 79-92 [PMID:16839878] Fusaro AF, et al. RNA interference-inducing hairpin RNAs in plants act through the viral defence pathway. EMBO Rep., 2006. 7(11): p. 1168-75 [PMID:17039251] Blevins T, et al. Four plant Dicers mediate viral small RNA biogenesis and DNA virus induced silencing. Nucleic Acids Res., 2006. 34(21): p. 6233-46 [PMID:17090584] Moissiard G,Voinnet O RNA silencing of host transcripts by cauliflower mosaic virus requires coordinated action of the four Arabidopsis Dicer-like proteins. Proc. Natl. Acad. Sci. U.S.A., 2006. 103(51): p. 19593-8 [PMID:17164336] Kasschau KD, et al. Genome-wide profiling and analysis of Arabidopsis siRNAs. PLoS Biol., 2007. 5(3): p. e57 [PMID:17298187] Zhang X,Henderson IR,Lu C,Green PJ,Jacobsen SE Role of RNA polymerase IV in plant small RNA metabolism. Proc. Natl. Acad. Sci. U.S.A., 2007. 104(11): p. 4536-41 [PMID:17360559] Pikaard CS Cell biology of the Arabidopsis nuclear siRNA pathway for RNA-directed chromatin modification. Cold Spring Harb. Symp. Quant. Biol., 2006. 71: p. 473-80 [PMID:17381329] Hernandez-Pinzon I, et al. SDE5, the putative homologue of a human mRNA export factor, is required for transgene silencing and accumulation of trans-acting endogenous siRNA. Plant J., 2007. 50(1): p. 140-8 [PMID:17397509] Smith LM, et al. An SNF2 protein associated with nuclear RNA silencing and the spread of a silencing signal between cells in Arabidopsis. Plant Cell, 2007. 19(5): p. 1507-21 [PMID:17526749] Dunoyer P,Himber C,Ruiz-Ferrer V,Alioua A,Voinnet O Intra- and intercellular RNA interference in Arabidopsis thaliana requires components of the microRNA and heterochromatic silencing pathways. Nat. Genet., 2007. 39(7): p. 848-56 [PMID:17558406] Diaz-Pendon JA,Li F,Li WX,Ding SW Suppression of antiviral silencing by cucumber mosaic virus 2b protein in Arabidopsis is associated with drastically reduced accumulation of three classes of viral small interfering RNAs. Plant Cell, 2007. 19(6): p. 2053-63 [PMID:17586651] Brosnan CA, et al. Nuclear gene silencing directs reception of long-distance mRNA silencing in Arabidopsis. Proc. Natl. Acad. Sci. U.S.A., 2007. 104(37): p. 14741-6 [PMID:17785412] Jordan ND,West JP,Bottley A,Sheikh M,Furner I Transcript profiling of the hypomethylated hog1 mutant of Arabidopsis. Plant Mol. Biol., 2007. 65(5): p. 571-86 [PMID:17786563] Agorio A,Vera P ARGONAUTE4 is required for resistance to Pseudomonas syringae in Arabidopsis. Plant Cell, 2007. 19(11): p. 3778-90 [PMID:17993621] Donaire L, et al. Structural and genetic requirements for the biogenesis of tobacco rattle virus-derived small interfering RNAs. J. Virol., 2008. 82(11): p. 5167-77 [PMID:18353962] Curtin SJ, et al. The roles of plant dsRNA-binding proteins in RNAi-like pathways. FEBS Lett., 2008. 582(18): p. 2753-60 [PMID:18625233] Qu F,Ye X,Morris TJ Arabidopsis DRB4, AGO1, AGO7, and RDR6 participate in a DCL4-initiated antiviral RNA silencing pathway negatively regulated by DCL1. Proc. Natl. Acad. Sci. U.S.A., 2008. 105(38): p. 14732-7 [PMID:18799732] Vazquez F,Blevins T,Ailhas J,Boller T,Meins F Evolution of Arabidopsis MIR genes generates novel microRNA classes. Nucleic Acids Res., 2008. 36(20): p. 6429-38 [PMID:18842626] Kuang H, et al. Identification of miniature inverted-repeat transposable elements (MITEs) and biogenesis of their siRNAs in the Solanaceae: new functional implications for MITEs. Genome Res., 2009. 19(1): p. 42-56 [PMID:19037014] Preuss SB, et al. Multimegabase silencing in nucleolar dominance involves siRNA-directed DNA methylation and specific methylcytosine-binding proteins. Mol. Cell, 2008. 32(5): p. 673-84 [PMID:19061642] Daxinger L, et al. A stepwise pathway for biogenesis of 24-nt secondary siRNAs and spreading of DNA methylation. EMBO J., 2009. 28(1): p. 48-57 [PMID:19078964] Cho SH, et al. Physcomitrella patens DCL3 is required for 22-24 nt siRNA accumulation, suppression of retrotransposon-derived transcripts, and normal development. PLoS Genet., 2008. 4(12): p. e1000314 [PMID:19096705] Liu Q,Feng Y,Zhu Z Dicer-like (DCL) proteins in plants. Funct. Integr. Genomics, 2009. 9(3): p. 277-86 [PMID:19221817] Fahlgren N, et al. Computational and analytical framework for small RNA profiling by high-throughput sequencing. RNA, 2009. 15(5): p. 992-1002 [PMID:19307293] Mallory AC,Vaucheret H ARGONAUTE 1 homeostasis invokes the coordinate action of the microRNA and siRNA pathways. EMBO Rep., 2009. 10(5): p. 521-6 [PMID:19343050] Ziebell H,Carr JP Effects of dicer-like endoribonucleases 2 and 4 on infection of Arabidopsis thaliana by cucumber mosaic virus and a mutant virus lacking the 2b counter-defence protein gene. J. Gen. Virol., 2009. 90(Pt 9): p. 2288-92 [PMID:19474248] Lewsey MG,Carr JP Effects of DICER-like proteins 2, 3 and 4 on cucumber mosaic virus and tobacco mosaic virus infections in salicylic acid-treated plants. J. Gen. Virol., 2009. 90(Pt 12): p. 3010-4 [PMID:19710258] Pontes O,Costa-Nunes P,Vithayathil P,Pikaard CS RNA polymerase V functions in Arabidopsis interphase heterochromatin organization independently of the 24-nt siRNA-directed DNA methylation pathway. Mol Plant, 2009. 2(4): p. 700-710 [PMID:19825650] Douet J,Tutois S,Tourmente S A Pol V-mediated silencing, independent of RNA-directed DNA methylation, applies to 5S rDNA. PLoS Genet., 2009. 5(10): p. e1000690 [PMID:19834541] Boyko A, et al. Transgenerational adaptation of Arabidopsis to stress requires DNA methylation and the function of Dicer-like proteins. PLoS ONE, 2010. 5(3): p. e9514 [PMID:20209086] Azevedo J, et al. Argonaute quenching and global changes in Dicer homeostasis caused by a pathogen-encoded GW repeat protein. Genes Dev., 2010. 24(9): p. 904-15 [PMID:20439431] Cao M, et al. The capsid protein of Turnip crinkle virus overcomes two separate defense barriers to facilitate systemic movement of the virus in Arabidopsis. J. Virol., 2010. 84(15): p. 7793-802 [PMID:20504923] Chellappan P, et al. siRNAs from miRNA sites mediate DNA methylation of target genes. Nucleic Acids Res., 2010. 38(20): p. 6883-94 [PMID:20621980] Boyko A,Kovalchuk I Transgenerational response to stress in Arabidopsis thaliana. Plant Signal Behav, 2010. 5(8): p. 995-8 [PMID:20724818] Laubinger S, et al. Global effects of the small RNA biogenesis machinery on the Arabidopsis thaliana transcriptome. Proc. Natl. Acad. Sci. U.S.A., 2010. 107(41): p. 17466-73 [PMID:20870966] Yao Y,Bilichak A,Golubov A,Blevins T,Kovalchuk I Differential sensitivity of Arabidopsis siRNA biogenesis mutants to genotoxic stress. Plant Cell Rep., 2010. 29(12): p. 1401-10 [PMID:20953786] Mlotshwa S, et al. Transcriptional silencing induced by Arabidopsis T-DNA mutants is associated with 35S promoter siRNAs and requires genes involved in siRNA-mediated chromatin silencing. Plant J., 2010. 64(4): p. 699-704 [PMID:21070421] Ito H, et al. An siRNA pathway prevents transgenerational retrotransposition in plants subjected to stress. Nature, 2011. 472(7341): p. 115-9 [PMID:21399627] Dzianott A,Sztuba-Solińska J,Bujarski JJ Mutations in the antiviral RNAi defense pathway modify Brome mosaic virus RNA recombinant profiles. Mol. Plant Microbe Interact., 2012. 25(1): p. 97-106 [PMID:21936664] Matsunaga W,Kobayashi A,Kato A,Ito H The effects of heat induction and the siRNA biogenesis pathway on the transgenerational transposition of ONSEN, a copia-like retrotransposon in Arabidopsis thaliana. Plant Cell Physiol., 2012. 53(5): p. 824-33 [PMID:22173101] Rasmann S, et al. Herbivory in the previous generation primes plants for enhanced insect resistance. Plant Physiol., 2012. 158(2): p. 854-63 [PMID:22209873] Ausin I,Greenberg MV,Li CF,Jacobsen SE The splicing factor SR45 affects the RNA-directed DNA methylation pathway in Arabidopsis. Epigenetics, 2012. 7(1): p. 29-33 [PMID:22274613] Zhang X, et al. Genome-wide analysis of plant nat-siRNAs reveals insights into their distribution, biogenesis and function. Genome Biol., 2012. 13(3): p. R20 [PMID:22439910] Fan D, et al. IBM1, a JmjC domain-containing histone demethylase, is involved in the regulation of RNA-directed DNA methylation through the epigenetic control of RDR2 and DCL3 expression in Arabidopsis. Nucleic Acids Res., 2012. 40(18): p. 8905-16 [PMID:22772985] Wu L DICER-LIKE1 processed trans-acting siRNAs mediate DNA methylation: case study of complex small RNA biogenesis and action pathways in plants. Plant Signal Behav, 2013. 8(1): p. e22476 [PMID:23104109] Zhan S,Lukens L Protein-coding cis-natural antisense transcripts have high and broad expression in Arabidopsis. Plant Physiol., 2013. 161(4): p. 2171-80 [PMID:23457227] Nagano H,Fukudome A,Hiraguri A,Moriyama H,Fukuhara T Distinct substrate specificities of Arabidopsis DCL3 and DCL4. Nucleic Acids Res., 2014. 42(3): p. 1845-56 [PMID:24214956] Xu R,Zhang S,Huang J,Zheng C Genome-wide comparative in silico analysis of the RNA helicase gene family in Zea mays and Glycine max: a comparison with Arabidopsis and Oryza sativa. PLoS ONE, 2013. 8(11): p. e78982 [PMID:24265739] Raja P,Jackel JN,Li S,Heard IM,Bisaro DM Arabidopsis double-stranded RNA binding protein DRB3 participates in methylation-mediated defense against geminiviruses. J. Virol., 2014. 88(5): p. 2611-22 [PMID:24352449] Migicovsky Z,Yao Y,Kovalchuk I Transgenerational phenotypic and epigenetic changes in response to heat stress in Arabidopsis thaliana. Plant Signal Behav, 2014. 9(2): p. e27971 [PMID:24513700] Ma X, et al. Different roles for RNA silencing and RNA processing components in virus recovery and virus-induced gene silencing in plants. J. Exp. Bot., 2015. 66(3): p. 919-32 [PMID:25385769] Migicovsky Z,Kovalchuk I Transgenerational changes in plant physiology and in transposon expression in response to UV-C stress in Arabidopsis thaliana. Plant Signal Behav, 2014. 9(11): p. e976490 [PMID:25482751] Bulgakov VP,Veremeichik GN,Shkryl YN The rolB gene activates the expression of genes encoding microRNA processing machinery. Biotechnol. Lett., 2015. 37(4): p. 921-5 [PMID:25491479] Rossi M, et al. The Importance of the KR-Rich Region of the Coat Protein of Ourmia melon virus for Host Specificity, Tissue Tropism, and Interference With Antiviral Defense. Mol. Plant Microbe Interact., 2015. 28(1): p. 30-41 [PMID:25494356] Fang X,Shi Y,Lu X,Chen Z,Qi Y CMA33/XCT Regulates Small RNA Production through Modulating the Transcription of Dicer-Like Genes in Arabidopsis. Mol Plant, 2015. 8(8): p. 1227-36 [PMID:25770820] Brosseau C,Moffett P Functional and Genetic Analysis Identify a Role for Arabidopsis ARGONAUTE5 in Antiviral RNA Silencing. 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