John W S Brown

Summary

Affiliation: University of Dundee
Country: UK

Publications

  1. pmc Plant U13 orthologues and orphan snoRNAs identified by RNomics of RNA from Arabidopsis nucleoli
    Sang Hyon Kim
    Genetics Programme, Scottish Crop Research Institute, Invergowrie, Dundee DD2 5DA, Scotland, UK
    Nucleic Acids Res 38:3054-67. 2010
  2. pmc Plant SILAC: stable-isotope labelling with amino acids of arabidopsis seedlings for quantitative proteomics
    Dominika Lewandowska
    Cell and Molecular Sciences, The James Hutton Institute, Dundee, United Kingdom
    PLoS ONE 8:e72207. 2013
  3. doi request reprint Intronic noncoding RNAs and splicing
    John W S Brown
    Plant Sciences Division, University of Dundee at the Scottish Crop Research Institute SCRI, Invergowrie, Dundee, DD2 5DA, UK
    Trends Plant Sci 13:335-42. 2008
  4. pmc Interaction of a plant virus-encoded protein with the major nucleolar protein fibrillarin is required for systemic virus infection
    Sang Hyon Kim
    Scottish Crop Research Institute, Invergowrie, Dundee DD2 5DA, United Kingdom
    Proc Natl Acad Sci U S A 104:11115-20. 2007
  5. ncbi request reprint Dual functionality of a plant U-rich intronic sequence element
    Craig G Simpson
    Gene Expression, Scottish Crop Research Institute, Invergowrie, Dundee, DD2 5DA Scotland, UK
    Plant J 37:82-91. 2004
  6. doi request reprint Alternative splicing in plants
    Craig G Simpson
    Genetics Programme, SCRI, Invergowrie, Dundee DD2 5DA, Scotland, UK
    Biochem Soc Trans 36:508-10. 2008
  7. doi request reprint Regulation of plant gene expression by alternative splicing
    Craig G Simpson
    Genetics Programme, SCRI, Invergowrie, Dundee DD2 5DA, Scotland, U K
    Biochem Soc Trans 38:667-71. 2010
  8. pmc The SERRATE protein is involved in alternative splicing in Arabidopsis thaliana
    Katarzyna Dorota Raczynska
    Department of Gene Expression, Institute of Molecular Biology and Biotechnology, Adam Mickiewicz University, Poznan, Poland, Department of Molecular and Cellular Biology, Institute of Molecular Biology and Biotechnology, Adam Mickiewicz University, Poznan, Poland, Max Planck Institute for Plant Breading Research, 50829, Germany, Biomathematics and Statistics Scotland BioSS, James Hutton Institute, Dundee DD2 5DA, Scotland, UK, Cell and Molecular Sciences, James Hutton Institute, Dundee DD2 5DA, Scotland, UK and Division of Plant Sciences, University of Dundee at the James Hutton Institute, Dundee DD2 5DA, Scotland, UK
    Nucleic Acids Res 42:1224-44. 2014
  9. pmc Aberrant mRNA transcripts and the nonsense-mediated decay proteins UPF2 and UPF3 are enriched in the Arabidopsis nucleolus
    Sang Hyon Kim
    Genetics Programme, Scottish Crop Research Institute, Invergowrie, Dundee DD2 5DA, Scotland, United Kingdom
    Plant Cell 21:2045-57. 2009
  10. doi request reprint A plant virus movement protein forms ringlike complexes with the major nucleolar protein, fibrillarin, in vitro
    Elisabetta Canetta
    BIONTHE Bio and Nano Technologies for Health and Environment Centre, School of Contemporary Sciences, University of Abertay, Dundee, Bell Street, Dundee DD1 1HG, UK
    J Mol Biol 376:932-7. 2008

Collaborators

Detail Information

Publications18

  1. pmc Plant U13 orthologues and orphan snoRNAs identified by RNomics of RNA from Arabidopsis nucleoli
    Sang Hyon Kim
    Genetics Programme, Scottish Crop Research Institute, Invergowrie, Dundee DD2 5DA, Scotland, UK
    Nucleic Acids Res 38:3054-67. 2010
    ..The majority of the novel snoRNA genes were found in new gene clusters or as part of previously described clusters. These results expand the repertoire of Arabidopsis snoRNAs to 188 snoRNA genes with 294 gene variants...
  2. pmc Plant SILAC: stable-isotope labelling with amino acids of arabidopsis seedlings for quantitative proteomics
    Dominika Lewandowska
    Cell and Molecular Sciences, The James Hutton Institute, Dundee, United Kingdom
    PLoS ONE 8:e72207. 2013
    ..Efficient labelling of whole Arabidopsis seedlings by this modified SILAC method opens new opportunities to exploit the genetic resources of Arabidopsis and analyse the impact of mutations on quantitative protein dynamics in vivo. ..
  3. doi request reprint Intronic noncoding RNAs and splicing
    John W S Brown
    Plant Sciences Division, University of Dundee at the Scottish Crop Research Institute SCRI, Invergowrie, Dundee, DD2 5DA, UK
    Trends Plant Sci 13:335-42. 2008
    ..The processing of snoRNAs - both intronic and non-intronic - is well characterised in yeast, plants and animals and provides a basis for examining how intronic plant miRNAs are processed...
  4. pmc Interaction of a plant virus-encoded protein with the major nucleolar protein fibrillarin is required for systemic virus infection
    Sang Hyon Kim
    Scottish Crop Research Institute, Invergowrie, Dundee DD2 5DA, United Kingdom
    Proc Natl Acad Sci U S A 104:11115-20. 2007
    ..These results demonstrate previously undescribed functions for fibrillarin as an essential component of translocatable viral RNPs and may have implications for other plant and animal viruses that interact with the nucleolus...
  5. ncbi request reprint Dual functionality of a plant U-rich intronic sequence element
    Craig G Simpson
    Gene Expression, Scottish Crop Research Institute, Invergowrie, Dundee, DD2 5DA Scotland, UK
    Plant J 37:82-91. 2004
    ....
  6. doi request reprint Alternative splicing in plants
    Craig G Simpson
    Genetics Programme, SCRI, Invergowrie, Dundee DD2 5DA, Scotland, UK
    Biochem Soc Trans 36:508-10. 2008
    ..Initial studies have identified new AS events confirming that current values for the frequency of AS in plants are likely to be underestimates...
  7. doi request reprint Regulation of plant gene expression by alternative splicing
    Craig G Simpson
    Genetics Programme, SCRI, Invergowrie, Dundee DD2 5DA, Scotland, U K
    Biochem Soc Trans 38:667-71. 2010
    ....
  8. pmc The SERRATE protein is involved in alternative splicing in Arabidopsis thaliana
    Katarzyna Dorota Raczynska
    Department of Gene Expression, Institute of Molecular Biology and Biotechnology, Adam Mickiewicz University, Poznan, Poland, Department of Molecular and Cellular Biology, Institute of Molecular Biology and Biotechnology, Adam Mickiewicz University, Poznan, Poland, Max Planck Institute for Plant Breading Research, 50829, Germany, Biomathematics and Statistics Scotland BioSS, James Hutton Institute, Dundee DD2 5DA, Scotland, UK, Cell and Molecular Sciences, James Hutton Institute, Dundee DD2 5DA, Scotland, UK and Division of Plant Sciences, University of Dundee at the James Hutton Institute, Dundee DD2 5DA, Scotland, UK
    Nucleic Acids Res 42:1224-44. 2014
    ..Thus, the role of SERRATE in AS regulation is distinct from that of HYL1 and DCL1, and is similar to the regulation of AS in which CBC is involved. ..
  9. pmc Aberrant mRNA transcripts and the nonsense-mediated decay proteins UPF2 and UPF3 are enriched in the Arabidopsis nucleolus
    Sang Hyon Kim
    Genetics Programme, Scottish Crop Research Institute, Invergowrie, Dundee DD2 5DA, Scotland, United Kingdom
    Plant Cell 21:2045-57. 2009
    ..In addition, the NMD factors UPF3 and UPF2 localize to the nucleolus, suggesting that the Arabidopsis nucleolus is therefore involved in identifying aberrant mRNAs and NMD...
  10. doi request reprint A plant virus movement protein forms ringlike complexes with the major nucleolar protein, fibrillarin, in vitro
    Elisabetta Canetta
    BIONTHE Bio and Nano Technologies for Health and Environment Centre, School of Contemporary Sciences, University of Abertay, Dundee, Bell Street, Dundee DD1 1HG, UK
    J Mol Biol 376:932-7. 2008
    ..Based on these data, we propose a model of the structural organization of fibrillarin-ORF3 protein complexes and discuss potential mechanistic and functional implications that may also apply to other viruses...
  11. ncbi request reprint Arabidopsis PTB1 and PTB2 proteins negatively regulate splicing of a mini-exon splicing reporter and affect alternative splicing of endogenous genes differentially
    Craig G Simpson
    Cell and Molecular Sciences, The James Hutton Institute, Invergowrie, Dundee, DD2 5DA, UK
    New Phytol 203:424-36. 2014
    ..AtPTB1 and AtPTB2 are splicing factors that influence alternative splicing. This occurs in the potato invertase mini-exon via the polypyrimidine tract and associated pyrimidine-rich sequence. ..
  12. pmc Plant snoRNA database
    John W S Brown
    Gene Expression Programme, Scottish Crop Research Institute, Invergowrie, Dundee DD2 5DA, UK
    Nucleic Acids Res 31:432-5. 2003
    ..Plant snoRNA genes have been given a standard nomenclature, designed wherever possible, to provide a consistent identity with yeast and human orthologues...
  13. pmc Arabidopsis nucleolar protein database (AtNoPDB)
    John W S Brown
    Gene Expression Programme, Scottish Crop Research Institute, Invergowrie, Dundee DD2 5DA, Scotland, UK
    Nucleic Acids Res 33:D633-6. 2005
    ..For each protein, the most likely human and yeast orthologues, where identifiable through BLASTX analysis, are given with links to relevant information sources...
  14. pmc Alternative splicing in plants--coming of age
    Naeem H Syed
    Division of Plant Sciences, University of Dundee at the James Hutton Institute, Invergowrie, Dundee DD2 5DA, Scotland, UK
    Trends Plant Sci 17:616-23. 2012
    ....
  15. ncbi request reprint Monitoring changes in alternative precursor messenger RNA splicing in multiple gene transcripts
    Craig G Simpson
    Genetics Programme, SCRI, Invergowrie, Dundee DD2 5DA, UK
    Plant J 53:1035-48. 2008
    ..It can readily be applied to much larger or targeted sets of gene transcripts to generate information on the significance and regulation of AS in plant growth and development, specific processes and responses to external stimuli...
  16. ncbi request reprint Plant snoRNAs: functional evolution and new modes of gene expression
    John W S Brown
    Gene Expression Programme, Scottish Crop Research Institute, Invergowrie, Dundee DD2 5DA, UK
    Trends Plant Sci 8:42-9. 2003
    ..The large snoRNA family in plants is an ideal model for investigation of mechanisms of evolution of gene families in plants...
  17. pmc Cajal bodies and the nucleolus are required for a plant virus systemic infection
    Sang Hyon Kim
    Scottish Crop Research Institute, Invergowrie, Dundee, UK
    EMBO J 26:2169-79. 2007
    ..We provide a model whereby the ORF3 protein utilizes trafficking pathways involving CBs to enter the nucleolus and, along with fibrillarin, exit the nucleus to form viral 'transport-competent' RNP particles in the cytoplasm...
  18. pmc Mutational analysis of a plant branchpoint and polypyrimidine tract required for constitutive splicing of a mini-exon
    Craig G Simpson
    Unit of Gene Expression, Scottish Crop Research Institute, Invergowrie, Dundee, United Kingdom
    RNA 8:47-56. 2002
    ....