Katsutomo Okamura

Summary

Affiliation: Temasek Life Sciences Laboratory
Country: Singapore

Publications

  1. pmc Functional small RNAs are generated from select miRNA hairpin loops in flies and mammals
    Katsutomo Okamura
    Department of Developmental Biology, Sloan Kettering Institute, New York, New York 10065, USA
    Genes Dev 27:778-92. 2013
  2. doi request reprint Argonaute reformatting
    Katsutomo Okamura
    Temasek Life Sciences Laboratory, 1 Research Link National University of Singapore, Singapore 117604, Singapore
    Mol Cell 50:305-6. 2013
  3. pmc Two distinct mechanisms generate endogenous siRNAs from bidirectional transcription in Drosophila melanogaster
    Katsutomo Okamura
    Sloan Kettering Institute, Department of Developmental Biology, 521 Rockefeller Research Laboratories, 1275 York Avenue, Box 252, New York, New York 10065, USA
    Nat Struct Mol Biol 15:581-90. 2008
  4. pmc Endogenous RNA interference provides a somatic defense against Drosophila transposons
    Wei Jen Chung
    Department of Developmental Biology, Sloan Kettering Institute, 521 Rockefeller Research Laboratories, 1275 York Ave, Box 252, New York, New York 10065, USA
    Curr Biol 18:795-802. 2008
  5. pmc Distinct mechanisms for microRNA strand selection by Drosophila Argonautes
    Katsutomo Okamura
    Department of Developmental Biology, Sloan Kettering Institute, New York, NY 10065, USA
    Mol Cell 36:431-44. 2009
  6. pmc R2D2 organizes small regulatory RNA pathways in Drosophila
    Katsutomo Okamura
    Sloan Kettering Institute, Department of Developmental Biology, New York, NY 10065, USA
    Mol Cell Biol 31:884-96. 2011
  7. pmc The Drosophila hairpin RNA pathway generates endogenous short interfering RNAs
    Katsutomo Okamura
    Sloan Kettering Institute, Department of Developmental Biology, 521 Rockefeller Research Laboratories, 1275 York Avenue, Box 252, New York, New York 10065, USA
    Nature 453:803-6. 2008
  8. pmc Common and distinct patterns of terminal modifications to mirtrons and canonical microRNAs
    Jakub O Westholm
    Department of Developmental Biology, Sloan Kettering Institute, New York, NY 10065, USA
    RNA 18:177-92. 2012
  9. pmc The evolution and functional diversification of animal microRNA genes
    Na Liu
    Department of Developmental Biology, Sloan Kettering Institute, 521 Rockefeller Research Laboratories, New York, NY 10065, USA
    Cell Res 18:985-96. 2008
  10. pmc A broadly conserved pathway generates 3'UTR-directed primary piRNAs
    Nicolas Robine
    Department of Developmental Biology, Sloan Kettering Institute, New York, NY 10065, USA
    Curr Biol 19:2066-76. 2009

Collaborators

Detail Information

Publications20

  1. pmc Functional small RNAs are generated from select miRNA hairpin loops in flies and mammals
    Katsutomo Okamura
    Department of Developmental Biology, Sloan Kettering Institute, New York, New York 10065, USA
    Genes Dev 27:778-92. 2013
    ..Altogether, we reveal a conserved mechanism that yields functional RNAs from miRNA loop regions, broadening the repertoire of Argonaute-dependent regulatory RNAs and providing evidence for functionality of endogenous ssRNA species...
  2. doi request reprint Argonaute reformatting
    Katsutomo Okamura
    Temasek Life Sciences Laboratory, 1 Research Link National University of Singapore, Singapore 117604, Singapore
    Mol Cell 50:305-6. 2013
    ..2013) report that highly complementary targets promote release of small RNAs from effector Argonaute complexes, thus providing mechanistic insights into regulation of small RNA stability and implications for siRNA design...
  3. pmc Two distinct mechanisms generate endogenous siRNAs from bidirectional transcription in Drosophila melanogaster
    Katsutomo Okamura
    Sloan Kettering Institute, Department of Developmental Biology, 521 Rockefeller Research Laboratories, 1275 York Avenue, Box 252, New York, New York 10065, USA
    Nat Struct Mol Biol 15:581-90. 2008
    ..These newly recognized siRNA pathways broaden the scope of regulatory networks mediated by small RNAs...
  4. pmc Endogenous RNA interference provides a somatic defense against Drosophila transposons
    Wei Jen Chung
    Department of Developmental Biology, Sloan Kettering Institute, 521 Rockefeller Research Laboratories, 1275 York Ave, Box 252, New York, New York 10065, USA
    Curr Biol 18:795-802. 2008
    ..The piRNA system is thought to provide primarily a germline defense against TE activity...
  5. pmc Distinct mechanisms for microRNA strand selection by Drosophila Argonautes
    Katsutomo Okamura
    Department of Developmental Biology, Sloan Kettering Institute, New York, NY 10065, USA
    Mol Cell 36:431-44. 2009
    ....
  6. pmc R2D2 organizes small regulatory RNA pathways in Drosophila
    Katsutomo Okamura
    Sloan Kettering Institute, Department of Developmental Biology, New York, NY 10065, USA
    Mol Cell Biol 31:884-96. 2011
    ..Finally, we demonstrated a direct role for the R2D2/Dcr-2 heterodimer in sensing central mismatch positions that direct miRNA* strands to AGO2. Together, these data reveal new roles of R2D2 in organizing small RNA networks in Drosophila...
  7. pmc The Drosophila hairpin RNA pathway generates endogenous short interfering RNAs
    Katsutomo Okamura
    Sloan Kettering Institute, Department of Developmental Biology, 521 Rockefeller Research Laboratories, 1275 York Avenue, Box 252, New York, New York 10065, USA
    Nature 453:803-6. 2008
    ..These novel regulatory RNAs reveal unexpected complexity in the sorting of small RNAs, and open a window onto the biological usage of endogenous RNA interference in Drosophila...
  8. pmc Common and distinct patterns of terminal modifications to mirtrons and canonical microRNAs
    Jakub O Westholm
    Department of Developmental Biology, Sloan Kettering Institute, New York, NY 10065, USA
    RNA 18:177-92. 2012
    ..Finally, we found that 3' resection occurs broadly across AGO1-loaded canonical miRNA and star species. Altogether, these findings substantially broaden the complexity of terminal modification pathways acting upon small regulatory RNAs...
  9. pmc The evolution and functional diversification of animal microRNA genes
    Na Liu
    Department of Developmental Biology, Sloan Kettering Institute, 521 Rockefeller Research Laboratories, New York, NY 10065, USA
    Cell Res 18:985-96. 2008
    ..The facility and versatility of miRNAs to evolve and change likely underlies how they have become dominant constituents of higher genomes...
  10. pmc A broadly conserved pathway generates 3'UTR-directed primary piRNAs
    Nicolas Robine
    Department of Developmental Biology, Sloan Kettering Institute, New York, NY 10065, USA
    Curr Biol 19:2066-76. 2009
    ..Certain stages of mammalian testis also accumulate abundant piRNAs of unknown function, which derive from noncoding RNAs that are depleted in transposable element content and do not engage in ping-pong...
  11. pmc The regulatory activity of microRNA* species has substantial influence on microRNA and 3' UTR evolution
    Katsutomo Okamura
    Sloan Kettering Institute, Department of Developmental Biology, 521 Rockefeller Research Laboratories, 1275 York Ave, Box 252, New York, New York 10065, USA
    Nat Struct Mol Biol 15:354-63. 2008
    ..These data broaden the reach of the miRNA regulatory network and suggest an important mechanism that diversifies miRNA function during evolution...
  12. pmc Discovery of hundreds of mirtrons in mouse and human small RNA data
    Erik Ladewig
    Department of Developmental Biology, Sloan Kettering Institute, New York, New York 10065, USA
    Genome Res 22:1634-45. 2012
    ..The recognition of hundreds of mammalian mirtrons provides a new foundation for understanding the scope and evolutionary dynamics of Dicer substrates in mammals...
  13. pmc Computational and experimental identification of mirtrons in Drosophila melanogaster and Caenorhabditis elegans
    Wei Jen Chung
    Department of Developmental Biology, Sloan Kettering Institute, 1017 Rockefeller Research Laboratories, New York, New York 10065, USA
    Genome Res 21:286-300. 2011
    ..elegans harboring eight distinct mirtrons. Altogether, we demonstrate that discovery of functional mirtrons, unlike canonical miRNAs, is amenable to computational methods independent of evolutionary constraint...
  14. pmc The long and short of inverted repeat genes in animals: microRNAs, mirtrons and hairpin RNAs
    Katsutomo Okamura
    Sloan Kettering Institute, Department of Developmental Biology, New York, New York 10065, USA
    Cell Cycle 7:2840-5. 2008
    ..We compare and contrast the miRNA and hpRNA pathways in this review, and describe some of the key questions that the recognition of this novel pathway raises...
  15. pmc Functionally distinct regulatory RNAs generated by bidirectional transcription and processing of microRNA loci
    David M Tyler
    Department of Developmental Biology, Sloan Kettering Institute, New York, New York 10021, USA
    Genes Dev 22:26-36. 2008
    ..These findings demonstrate that antisense transcription and processing contributes to the functional diversification of miRNA genes...
  16. pmc The mirtron pathway generates microRNA-class regulatory RNAs in Drosophila
    Katsutomo Okamura
    Memorial Sloan Kettering Cancer Center, Department of Developmental Biology, 1275 York Ave, Box 252, New York, NY 10021, USA
    Cell 130:89-100. 2007
    ..These findings reveal that mirtrons are an alternate source of miRNA-type regulatory RNAs...
  17. ncbi request reprint Diversity of miRNAs, siRNAs, and piRNAs across 25 Drosophila cell lines
    Jiayu Wen
    Department of Developmental Biology, Sloan Kettering Institute, New York, New York 10065, USA
    Genome Res 24:1236-50. 2014
    ..These data should encourage broader usage of fly cell lines, beyond the few that are presently in common usage. ..
  18. doi request reprint Diversity of animal small RNA pathways and their biological utility
    Katsutomo Okamura
    Department of Developmental Biology, Sloan Kettering Institute, New York, NY, USA
    Wiley Interdiscip Rev RNA 3:351-68. 2012
    ..This review highlights recent studies that revealed novel small RNA biogenesis pathways, and discusses their relevance to gene regulatory networks...
  19. pmc Endogenous small interfering RNAs in animals
    Katsutomo Okamura
    Department of Developmental Biology, Sloan Kettering Institute, 521 Rockefeller Research Laboratories, New York, New York 10065, USA
    Nat Rev Mol Cell Biol 9:673-8. 2008
    ..They also raise many questions regarding the biogenesis and function of small regulatory RNAs in animals...
  20. ncbi request reprint A deathly DNase activity for dicer
    Katsutomo Okamura
    Sloan Kettering Institute, Department of Developmental Biology, 1275 York Ave, Box 252, New York, NY 10065, USA
    Dev Cell 18:692-4. 2010
    ..elegans. They find that cleavage of DCR-1 by the caspase CED-3 redirects its regulatory activity, by destroying its dsRNase activity while activating an intrinsic DNase activity...