Endogenous RNA interference of chalcone synthase genes in soybean: Formation of double-stranded RNA of GmIRCHS transcripts and structure of the 5' and 3' ends of short interfering RNAs

Journal of Plant Physiology

Volumn 168, Issue 11, 2011, Pages 1264-1270

  Kurauchi, Tasuku ^a   Kasai, Atsushi ^a   Tougou, Makoto ^b,c   Senda, Mineo ^a  

^a HIROSAKI UNIVERSITY   (Japan)

^b NATIONAL AGRICULTURAL RESEARCH CENTER FOR TOHOKU REGION   (Japan)

^c NATIONAL INSTITUTE OF CROP SCIENCE   (Japan)

Author keywords

CHS genes; DsRNA; RNAi; SiRNA; Soybean

Indexed keywords

ACYLTRANSFERASE; CHALCONE SYNTHASE; DOUBLE STRANDED RNA; SMALL INTERFERING RNA;

ARTICLE; CONFORMATION; DOMINANT GENE; ENZYMOLOGY; GENETIC TRANSCRIPTION; GENETICS; METABOLISM; PHOSPHORYLATION; PLANT GENE; PLANT SEED; PSEUDOGENE; RNA INTERFERENCE; SOYBEAN; UNTRANSLATED REGION;

ACYLTRANSFERASES; GENES, DOMINANT; GENES, PLANT; NUCLEIC ACID CONFORMATION; PHOSPHORYLATION; PSEUDOGENES; RNA INTERFERENCE; RNA, DOUBLE-STRANDED; RNA, SMALL INTERFERING; SEEDS; SOYBEANS; TRANSCRIPTION, GENETIC; UNTRANSLATED REGIONS;

GLYCINE MAX;

EID: 79956351352     PISSN: 01761617     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.jplph.2011.01.003     Document Type: Article

References (26)

1. Akbergenov R., Si-Ammour A., Blevins T., Amin I., Kutter C., Vanderschuren H., et al. Molecular characterization of geminivirus-derived small RNAs in different plant species. Nucleic Acids Res 2006, 34:462-471.
2. Dalmay T., Hamilton A., Mueller E., Baulcombe D.C. Potato virus X amplicons in Arabidopsis mediate genetic and epigenetic gene silencing. Plant Cell 2000, 12:369-379.
3. Dunoyer P., Brosnan C.A., Schott G., Wang Y., Jay F., Alioua A., et al. An endogenous, systemic RNAi pathway in plants. EMBO J 2010, 29:1699-1712.
4. Ebhardt H.A., Thi E.P., Wang M.-B., Unrau P.J. Extensive 3' modification of plant small RNAs is modulated by helper component-proteinase expression. Proc Natl Acad Sci USA 2005, 102:13398-13403.
5. Elbashir S.M., Lendeckel W., Tuschl T. RNA interference is mediated by 21- and 22-nucleotide RNAs. Genes Dev 2001, 15:188-200.
6. Fire A., Xu S., Montgomery M.K., Kostas S.A., Driver S.E., Mello C.C. Potent and specific genetic interference by double-stranded RNA in Caenorhabditis elegans. Nature 1998, 391:806-811.
7. Frizzi A., Huang S. Tapping RNA silencing pathways for plant biotechnology. Plant Biotechnol J 2010, 8:655-677.
8. Kasai A., Kasai K., Yumoto S., Senda M. Structural features of GmIRCHS, candidate of the I gene inhibiting seed coat pigmentation in soybean: implications for inducing endogenous RNA silencing of chalcone synthase genes. Plant Mol Biol 2007, 64:467-479.
9. Kasai A., Watarai M., Yumoto S., Akada S., Ishikawa R., Harada T., et al. Influence of PTGS on chalcone synthase gene family in yellow soybean seed coat. Breed Sci 2004, 54:355-360.
10. Kurauchi T., Matsumoto T., Taneda A., Sano T., Senda M. Endogenous short interfering RNAs of chalcone synthase genes associated with inhibition of seed coat pigmentation in soybean. Breed Sci 2009, 59:419-426.
11. Li J., Yang Z., Yu B., Liu J., Chen X. Methylation protects miRNAs and siRNAs from a 3'-end uridylation activity in Arabidopsis. Curr Biol 2005, 15:1501-1507.
12. Lózsa R., Csorba T., Lakatos L., Burgyán J. Inhibition of 3' modification of small RNAs in virus-infected plants require spatial and temporal co-expression of small RNAs and viral silencing-suppressor proteins. Nucleic Acids Res 2008, 36:4099-4107.
13. Pak J., Fire A. Distinct populations of primary and secondary effectors during RNAi in C. elegans. Science 2007, 315:241-244.
14. Sambrook J., Russell D.W. Molecular cloning: a laboratory manual 2001, Cold Spring Harbor Laboratory Press, Cold Spring Harbor.
15. Senda M., Masuta C., Ohnishi S., Goto K., Kasai A., Sano T., et al. Patterning of virus-infected Glycine max seed coat is associated with suppression of endogenous silencing of chalcone synthase genes. Plant Cell 2004, 16:807-818.
16. Sewall A., Natarajan P., Fox D.K. Effect of sequence and base composition of oligonucleotides on electrophoretic mobility and ethidium bromide staining. Focus 1999, 21:2-3.
17. Sijen T., Steiner F.A., Thijssen K.L., Plasterk R.H.A. Secondary siRNAs result from unprimed RNA synthesis and form a distinct class. Science 2007, 315:244-247.
18. Sijen T., Vijn I., Rebocho A., van Blokland R., Roelofs D., Mol J.N.M., et al. Transcriptional and posttranscriptional gene silencing are mechanistically related. Curr Biol 2001, 11:436-440.
19. Tang G., Reinhart B.J., Bartel D.P., Zamore P.D. A biochemical framework for RNA silencing in plants. Genes Dev 2003, 17:49-63.
20. Todd J.J., Vodkin L.O. Pigmented soybean (Glycine max) seed coats accumulate proanthocyanidins during development. Plant Physiol 1993, 102:663-670.
21. Tuteja J.H., Clough S.J., Chan W.-C., Vodkin L.O. Tissue-specific gene silencing mediated by a naturally occurring chalcone synthase gene cluster in Glycine max. Plant Cell 2004, 16:819-835.
22. Tuteja J.H., Zabala G., Varala K., Hudson M., Vodkin L.O. Endogenous, tissue-specific short interfering RNAs silence the chalcone synthase gene family in Glycine max seed coats. Plant Cell 2009, 21:3063-3077.
23. Vagin V.V., Sigova A., Li C., Seitz H., Gvozdev V., Zamore P.D. A distinct small RNA pathway silences selfish genetic elements in the germline. Science 2006, 313:320-324.
24. Wang C.S., Todd J.J., Vodkin L.O. Chalcone synthase mRNA and activity are reduced in yellow soybean seed coats with dominant I alleles. Plant Physiol 1994, 105:739-748.
25. Yang Z., Ebright Y.W., Yu B., Chen X. HEN1 recognizes 21-24nt small RNA duplexes and deposits a methyl group onto the 2' OH of the 3' terminal nucleotide. Nucleic Acids Res 2006, 34:667-675.
26. Yu B., Yang Z., Li J., Minakhina S., Yang M., Padgett R.W., et al. Methylation as a crucial step in plant microRNA biogenesis. Science 2005, 307:932-935.