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EASTBIO Mechanisms and functions of RNA interference in Cryptococcus neoformans

  • Full or part time
    Dr E Bayne
    Dr E Wallace
  • Application Deadline
    Sunday, January 05, 2020
  • Competition Funded PhD Project (Students Worldwide)
    Competition Funded PhD Project (Students Worldwide)

Project Description

RNA interference is a fundamental mechanism of genome regulation mediated by small RNAs and conserved across eukaryotes. It can operate at both transcriptional and post-transcriptional levels, and plays important roles in controlling gene expression and genome stability. Recent studies suggest that RNAi can also play significant roles in host-pathogen interactions.

Our lab has recently begun to investigate RNAi pathways in Cryptococcus neoformans, an opportunistic fungal pathogen that is responsible for ~1 million cases of meningitis per year in immunocompromised people. The C. neoformans genome encodes two of each of the core RNAi pathway components, Dicer and Argonaute, and our preliminary analyses of deletion mutants suggest that these proteins are involved in regulation of distinct sets of genomic loci. However, the mechanisms of regulation and their biological significance remain poorly understood.

The aim of this project is to further investigate RNAi function in Cryptococcus. We will examine the nature of the loci regulated by RNAi, and the regulatory mechanisms involved, determining whether regulation occurs at transcriptional and/or post-transcriptional levels, and identifying and characterising additional factors required for the process. We will also assess the phenotypic consequences of disrupting RNAi-mediated regulation, including testing whether RNAi is involved in changes in gene expression associated with pathogenicity. We may also look for any evidence of cross-kingdom RNAi, i.e. transfer of functional small RNAs between Cryptococcus and host cells.

The project will provide training in a broad range of molecular biology techniques including CRISPR-Cas9 genome editing, DNA, RNA and protein analyses, chromatin-IP, proteomics, and next-generation sequencing approaches such as RNA-seq and ChIP-seq. Communication, presentation and critical thinking skills will be developed through regular participation in lab meetings, journal clubs and seminars.

Funding Notes

The “Visit Website” button will take you to our Online Application checklist. Complete each step and download the checklist which will provide a list of funding options and guide you through the application process. Follow the instructions on the EASTBIO website (you will be directed here from our application checklist), ensuring you upload an EASTBIO application form and transcripts to your application, and ticking the box to request references. Your referees should upload their references using the EASTBIO reference form, in time for the 5th January deadline so please give them plenty of time to do this by applying early.

How good is research at University of Edinburgh in Biological Sciences?

FTE Category A staff submitted: 109.70

Research output data provided by the Research Excellence Framework (REF)

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