Gordon Simpson

Principal Investigator
Cell and Molecular Sciences
E: Gordon.Simpson@hutton.ac.uk
T: +44 (0)344 928 5428 (*)

Gordon Simpson’s lab is jointly supported by the James Hutton Institute and the University of Dundee. The lab is part of the Cell and Molecular Sciences Group at the James Hutton Institute, Dundee and Gordon is a Principal Investigator and Professor within Dundee University College of Life Sciences.

Research

We are interested in how plants control the time at which they flower and the number of flowers that they make. These are fundamental aspects of plant development that underpin yield potential in crops like rice and wheat, which are critical to world food security.

Flowering time

Plants control the time at which they flower in response to environmental cues, such as day-length and temperature (some of the best biological evidence of recent climate change came from historical records of the first flowering date of diverse plant species). Flowering time control is an important part of how plants adapt to their environment and logically this is true for crop plants as well, with time to flowering being one of the most important traits determining the geographical range of crop cultivation. Flowering appears to be integrated with other plant processes, although this is currently poorly understood.

 

Flower number

The number of flowers that a plant makes is important because it limits yield potential. The impact of crop breeding on this phenomenon is most clearly evident in modern day cultivated maize, which makes many times more flowers (and hence grain) than its wild progenitor. Despite its fundamental importance to us, we know surprisingly little about what controls flower number in cereals.

RNA and genome science

While studying the mechanisms controlling flowering we have uncovered specific RNA processing events and non-coding RNAs involved in gene regulation and expression. We are using the insight derived from genome-wide RNA sequencing studies to understand how plant genomes function and how they are organised.

Scientific approaches

Our research is anchored in unbiased approaches involving molecular genetics and genome-wide analyses of gene expression using third generation true single molecule sequencing.

Much of our work involves the model plant Arabidopsis thaliana. We have studied mutants that flower either earlier or later than normal. Our experiments are designed to understand how the genes disrupted in these mutants are required for flowering in order to uncover the molecular mechanisms that mediate the precise control of flowering time.

We have identified RNA binding proteins required for flowering time control and we have shown that they control the site of mRNA cleavage and polyadenylation. This has led us to use Direct RNA Sequencing technology to investigate the impact of these RNA binding proteins on gene expression genome-wide. In order to understand the cellular assemblies that these protein function in, we have also developed simple generally applicable procedures for the identification of in vivo RNA and protein targets.

Explore, explain

Our work on flowering time and direct RNA sequencing has uncovered previously unrecognised non-coding RNAs. Although the Arabidopsis and human genomes were sequenced many years ago, we continue to discover what these genomes code for and how they are organised. We have major funding from the BBSRC to annotate and determine the function of the non-coding Arabidopsis genome and funding to determine where genes “end.” Since much of our basic understanding of plant science stems from work with Arabidopsis, these path-finding studies underpin the proper annotation of crop plant genomes essential to our future food and energy security.

Collaborate, translate

Our genome-wide RNA sequence analysis is done in partnership with Prof. Geoff Barton’s computational biology team at Dundee University. We have an important funded collaboration with Prof. Claire Halpin’s lab at Dundee University, uncovering genetic combinations optimised for second-generation biofuel production. Our discoveries in these research areas have been secured by patenting. We translate our work on flower development, RNA and gene regulation in Arabidopsis out to other species (including humans), while our work on flower number uses novel mutants of barley.

More information

If you would like to find out more about what we do, or if you’d like join the lab, please go to Gordon Simpson’s Lab Web Page.

Publications

Journals

Books / chapters

  • Terzi, L.C.; Simpson, G.G. (2008) Regulation of flowering time by RNA processing., In: Reddy, A.S.N. & Golovkin, M. (eds.). Nuclear Pre-mRNA Processing in Plants. Springer, New York, pp201-208.
  • Gendall, A.R.; Simpson, G.G. (2006) Vernalization., CABI Publishing. Wallingford, Oxon

Conference papers

  • Terzi, L.C.; Marshall, J.; Hornyik, C.; Simpson, G.G. (2008) RNA processing in flowering time control., UK RNA Processing Meeting, Lake District, 18-20 January 2008.
  • Terzi, L.C.; Marshall, J.; Simpson, G.G. (2007) Arabidopsis RNA binding proteins controlling development., 6th Post-Transcriptional Regulation of Plant Gene Expression, Carry-le-Rouet, France, 10 May 2007.
  • Simpson, G.G. (2007) RNA processing in flowering time control., EURASNET 2nd Annual Meeting, Ile de Bendor, France, 14-18 April 2007.

Conference posters / abstracts

  • Hornyik, C.; Terzi, L.C.; Simpson, G.G. (2010) Regulation of flowering – The Spen family protein FPA controls 3′ end formation of antisense RNAs., College of Life Sciences Symposium, University of Dundee, Crieff, 19-21 March 2010 (Poster).
  • Terzi, L.C.; Simpson, G.G. (2009) In vivo targets of FPA, an RNA binding protein controlling Arabidopsis flower development., 20th International Conference on Arabidopsis Research, Edinburgh, 30 June – 4 July 2009 (Poster).
  • Hornyik, C.; Terzi, L.C.; Rataj, K.; Marshall, J.; Simpson, G.G. (2009) FPA controls pre-mRNA 3′ end site selection., 20th International Conference on Arabidopsis Research, Edinburgh, 30 June – 4 July 2009 (Poster).
  • Hornyik, C.; Terzi, L.C.; Marshall, L.; Simpson, G.G. (2008) Ambient temperature and alternative splicing in flowering time control., Scottish Plant Biology – One Day meeting, SCRI, Dundee, 11 January 2008 (Poster).
  • Hornyik, C.; Terzi, L.C.; Rataj, K.; Marshall, J.; Simpson, G.G. (2008) Regulation of Arabidopsis flowering time by RNA processing., College of Life Sciences Symposium, University of Dundee, Crieff, 14-16 March 2008 (Poster).
  • Waugh, R.; Simpson, C.G.; Simpson, G.G.; Brown, J.W.S. (1992) Naturally occurring stem loop IIb deletion mutants of potato are expressed in vivo., RNA Processing Meetin, Keystone, Colorado, May 1992. (Poster).
  • Simpson, G.G.; Clark, G.; Vaux, P.; Waugh, R.; Beggs, J.; Brown, J.W.S. (1992) Characterisation of the spliceosomal protein U2B’ from plants., Abstracts of RNA Processing Meeting, Keystone, Colorado (Poster).
  • Simpson, G.G.; Kulesza, H.; Leader, D.; Waugh, R.; Beggs, J.D.; Brown, J.W.S. (1991) Plant UsnRNP proteins., CSHL RNA Processing Meeting, CSH, New York, USA (Poster).
  • Simpson, G.G.; Kulesza, H.; Leader, D.; Waugh, R.; Beegs, J.D.; Brown, J.W.S. (1991) UsnRNP proteins from plants., Molecular Biology of the Potato, St Andrews, August 1991, 27 (Poster).
  • Simpson, G.G.; Kulesza, H.; Leader, D.; Waugh, R.; Beggs, J.D.; Brown, J.W.S. (1991) Plant UsnRNP proteins., Scottish Biotechnology Forum, Glasgow (Poster).
  • Simpson, G.G.; Kulesza, H.; Beggs, J.D.; Waugh, R.; Brown, J.W.S. (1991) Detection of a plant protein analagous to the yeast spliceosomal protein PRP8., Journal of Experimental Botany, 42.
  • Simpson, G.G.; Kulesza, H.; Beggs, J.D.; Waugh, R.; Brown, J.W.S. (1990) Detection of a plant spliceosomal protein analagous to the yeast splicing component, PRP8., NATO/FEBS. Schloss Ellmau, Germany, May 1990, 33 (Poster).