Researcher

Dr Jai Tree

Field of Research (FoR)

Biography

Research program

The lab is interested in how bacteria regulate gene expression with a focus on understanding the contribution of non-coding RNAs. It is now apparent that the genomes of all organisms are transcribed into an array of regulatory non-coding RNAs (ncRNAs) and bacterial pathogens have not escaped the ncRNA revolution. Our major challenge now is to understand the functions of these RNA species and high throughput sequencing...view more

Research program

The lab is interested in how bacteria regulate gene expression with a focus on understanding the contribution of non-coding RNAs. It is now apparent that the genomes of all organisms are transcribed into an array of regulatory non-coding RNAs (ncRNAs) and bacterial pathogens have not escaped the ncRNA revolution. Our major challenge now is to understand the functions of these RNA species and high throughput sequencing technologies and bioinformatics are providing the tools that will allow us to address these questions.

Our model system is the human pathogen, enterohaemorrhagic E. coli O157 (EHEC), that causes disease ranging from gastroenteritis to life treating haemolytic uremic syndrome. The later is caused by release of Shiga toxins that are expressed from bacteriophage (bacterial viruses) that have inserted into the bacterial genome. We have recently identified large numbers of non-coding RNAs that are encoded in EHEC and are seeking to identify those that regulate virulence. We anticipate that by understanding how bacteria employ ncRNAs to control gene expression and respond to stress we will be able to design interventions that limit bacterial pathogenesis and dissemination.

More information on the lab's research can be found on the Tree Lab website.

Selected recent publications

  1. Small RNA interactome of pathogenic E. coli revealed through crosslinking of RNase E. Waters SA, McAteer SP, Kudla G, Pang I, Deshpande NP, Amos TG, Leong KW, Wilkins MR, Strugnell R, Gally DL, Tollervey D, Tree JJ. 2017 Feb 1;36(3):374-387. EMBO Journal. link
  2. Identification of bacteriophage-encoded anti-sRNAs in pathogenic Escherichia coli Tree JJ, Granneman S, McAteer SP, Tollervey D, Gally DL. 2014. 55(2):199-213. Molecular Celllink
  3. An RNA-dependent mechanism for transient expression of bacterial translocation filaments. Wang D, McAteer SP, Wawszczyk AB, Russell CD, Tahoun A, Elmi A, Cockroft SL, Tollervey D, Granneman S, Tree JJ*, Gally DL*. 2018. Nucleic Acids Research. *co-corresponding authors link
  4. Ribosome maturation by the endoribonuclease YbeY stabilises a type III secretion system transcript required for virulence of enterohemorrhagic Escherichia coli. McAteer SP, Sy BM, Wong JL, Tollervey D, Gally DL*, Tree JJ*Journal of Biological Chemistry. 2018. *co-corresponding authors link
  5. Hfq CLASH uncovers sRNA-target interaction networks linked to nutrient availability adaptation. Iosub IA, van Nues RW, McKellar SW, et al., Tree JJ, Viero G, Granneman S. eLife. 2020. 9:e54655. link

Grants

NHMRC funding

  • 2019-2021 NHMRC Project grant CIA $550,524 New pathways for controlling Shiga toxin expression and virulence in Enterohaemorrhagic E. coli
  • 2018-2020 NHMRC Project grant CIA $521,559 Antibiotic tolerance and sRNA networks in MRSA
  • 2014-2016 NHMRC Project grant CIA $376,481 RNA-based regulation in pathogenic bacteria

University funding

  • 2018 UNSW Faculty of Science Gold Star $40,000
  • 2018 UNSW Faculty of Science Tin Star $8,000
  • 2018 UNSW School of Biotech. & BioSci equipment grant $26,397.50
  • 2017 UNSW Faculty of Science Gold Star $40,000

Professional Experience

  • 2015-current Senior Lecturer, School of Biotech & Biomolecular Sciences, UNSW
  • 2014-2015 Post Doctoral Researcher, Peter Doherty Institute, University of Melbourne
  • 2011-2014 Post-doctoral Researcher, Wellcome Centre for Cell Biology & The Roslin Institute, University of Edinburgh, UK
  • 2007-2011 Post-doctoral Researcher, Royal (Dick) School of Veterinary Medicine & The Roslin Institute, University of Edinburgh, UK
  • 2007 PhD Microbiology, University of Queensland
  • 2001 BScApp (Biotech) Hons I, University of Queensland

Teaching

Coordinator: 

  • Microbiology 1 MICR2011

Lecturer:

  • Microbiology 1 MICR2011
  • Bacteria and Disease BABS 3081
  • Microbial Genetics BABS3021
  • Medicine Foundations MFAC1501
  • Molecular Frontiers BABS3281

Supervision

PhD, Honours, and 3rd year Undergraduate projects in Molecular Biology and Microbiology are available in the lab. 

Current Lab members:

  • Dr Daniel Mediati (Post-doctoral researcher)
  • Dr Brandon Sy (Post-docotral researcher)
  • Dr Ignatius Pang (Post-doctoral researcher)
  • Winton Wu (PhD student)
  • Sylvania Wu (PhD student)
  • Daniel Neville (Honours student)
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Location

Office: Rm 3113, Biosciences South Building E26
Lab: Rm 3005, Biosciences South Building E26

Contact

+612 9385-9142
+612 9385-1485