MSc Projects for 2018

There are several potential projects for students considering starting an MSc project in the Haydon lab in 2018. These are exciting projects that cover a range of research interests in the lab and will all offer training in molecular biology and genetics. Please get in touch with Mike Haydon if you wish to discuss these further.

For more information about the Master of Science (BioSciences), click here.

 

Extracellular signals from the cell wall in light sensing

The irreversible transition from etiolated growth in darkness to establishment of photoautotrophy (termed photomorphogenesis) is a critical stage in early seedling development. This transition is triggered by light and promoted by sugars and involves major transcriptional reprogramming. We have recently identified a role for small, cell wall-derived oligosaccharides that repress photomorphogenesis (Sinclair et al, Current Biology in review). This represents a novel extracellular signal involved in light signalling, but we do not yet know precisely how they are generated or how they are sensed. Towards this, we have performed a genetic suppressor screen of a mutant, called dez, which is deficient in producing this extracellular signal. By mapping and characterizing these suppressor mutants, we hope to identify downstream components of this signalling pathway.

This project aims to:

  • Finalise mapping of one suppressor mutant and confirm the causal mutation
  • Perform detailed phenotypic characterisation of the mutant
  • Measure transcript levels of light-regulated genes in the mutant
  • Generate transgenic reporter lines (GFP, GUS, LUC) to characterise gene regulation and protein function

 

 

Ethylene signalling in the circadian clock

The circadian clock is a 24-h time-keeping mechanism that allows organisms to anticipate predictable daily events, such as dawn, and synchronise physiology to the environment. Ethylene is a plant hormone that regulates a wide range of plant processes, including fruit ripening and senescence. We have recently discovered that ethylene signalling regulates the circadian clock in Arabidopsis via a pathway that intersects with sugar signalling and converges on the co-chaperon protein, GIGANTEA (Haydon et al Plant Physiology, 2017). We wish to further investigate the role of ethylene signalling components on regulation of the circadian clock and better understand the role of GIGANTEA in this process.

This project aims to:

  • Measure effects of sucrose on transcript levels of ethylene-regulated genes
  • Generate transgenic luciferase reporter lines for ethylene regulated genes
  • Test effects of ethylene and ethylene signalling mutants on circadian clock phenotypes using luciferase reporters and transcript profiling.
  • Test effects of ethylene and ethylene signalling mutants on GIGANTEA protein levels

 

 

Post-transcriptional control by sugars in the circadian clock

Circadian clocks evolved in all kingdoms of life to synchronise cellular processes to the predictable daily oscillations of the environment. These rhythms are driven by a regulatory network with multiple layers of transcriptional, translational and post-translational control of gene expression. Sugars play an important role in adjusting the phase and amplitude of the circadian clock in plants (Haydon et all Nature 2013; Dalchau et al. PNAS 2011). We have recently discovered that sucrose stabilises a nuclear clock protein, GIGANTEA, by a mechanism that requires an interacting F-box protein, ZEITLUPE to modulate amplitude of the circadian clock (Haydon et al. Plant Physiology 2017). We wish to further investigate the role of sugars in the interaction between these two proteins in order to expand our understanding of the effects of sugars on the circadian network.

This project aims to:

  • Measure effects of photosynthetic sugars on GIGANTEA protein levels
  • Determine effects of sugars on nuclear localisation of GIGANTEA
  • Generate split-luciferase reporter lines to detect dynamic protein-protein interactions

 

 

Metabolic control of post-translational modifications in embryo development.

(with John Golz)

Post-translational modifications of proteins, such as phosphorylation, actelytation or glycosylation, have important roles in modulating protein function in cells. O-linked N-acteylglucosomanine (O-GlcNAc) is emerging as a critical link between metabolic state and protein activity. Unlike the hundreds of kinases and phosphatases participating in protein phosphorylation, there are only two O-GlcNAc transferases (OGTs) encoded by SPINDLY (SPY) and SECRET AGENT (SEC) in Arabidopsis. A spy sec double mutant is embryo lethal, suggesting a critical role for protein O-GlcNAcylation in embryo development. A recent study reported a genome-wide survey of O-GlcNAcylated proteins and prominently identified components of the LEUNIG repressor complex (Xu et al PNAS 2017). Similar to spy sec, double mutants between LEUNIG and LEUNIG_HOMOLOG are also embryo lethal. Since O-GlcNAcylation represents a regulatory input for metabolism on gene regulation, which is known to be important for embryo development, we wish to investigate the role of O-GlcNAcylation on the LEUNIG repressor complex in developing embryos.

 

This project aims to:

  • Use chemical and genetic tools to test effects of modified metabolism in embryo development
  • Detect O-GlcNAcylation state of LEUNIG repressor complex by western blot
  • Test functional role of OGT target sites in LEUNIG repressor complex proteins by mutating O-GlcNAcylated residues
  • Perform in situ hybridisations for LEUNIG complex gene targets in developing embyos of OGT mutants
  • Generate mutant combinations between OGTs and LEUNIG proteins to test epistasis

New labs

The new labs are just about complete. Unfortunately, we need to wait for OGTR certification before we can use them. But we are excited about moving into Building 184 soon!

We will have some fantastic plant growth facilities, a dark room to house our luminescence imaging equipment and clean labs with a nice view of Royal Parade.      


Melbourne – Potsdam Joint PhD Program

Now in it’s second year, the Melbourne – Potsdam PhD Program in an exciting opportunity for talented young scientists to undertake a cross-national PhD. The projects are spent partly at the University of Melbourne, and partly at the Max Planck Institute for Molecular Plant Physiology in Golm (near Berlin), Germany. There are nine potential projects to choose from, with up to 4 being fully funded.

Two exciting projects are available in my lab:

1. Defining small molecule-protein interactions to reveal novel components of sugar signalling in plant growth and metabolism

A multi-disciplinary project with Dr Aleksandra Skirycz and Prof Lothar Willmitzer that will combine newly developed biochemical approaches for chemical biology with transcriptional regulation and cell signalling to identify new players in key sugar responses in plants. More details here.

2. Circadian-regulated dynamics of translation in plants

An exciting joint project with Dr Reimo Zoschke in a rapidly moving field of translational regulation that will apply the powerful, new(ish) technique of ribosome profiling. More details here.

Full details on how to apply can be found here.

 


More than News.

This is where you’ll find longer format news and comments in the future. Perhaps some pre-pub reporting of data, thoughts on the field, or some discussion of interesting publications. Who knows what exciting things you might find here…

Stay tuned!