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The Jaschke Lab bridges the fields of Synthetic Biology, Microbiology, Virology, and Systems Biology to address fundamental problems of:
(1) how do we discover all the components necessary to make a functional genome? (2) how do we reconfigure these components to make engineered genetic systems more reliable, more predictable, and more useful? (3) how do we engineer biology to benefit human health and reduce impacts on our environment? |
We aim to answer important questions by pioneering the science and engineering of synthetic genomes by designing, building, testing, and learning from our designs.
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NewsMarch 2023
• Lots of MOLS8902 (Research Project) students joining the lab. Should be a busy semester of work in the lab! • New paper published! Trofimova, E, Asgharzadeh Kangachar, S, Weynberg, KD, Willows, RD, Jaschke, PR. A bacterial genome assembly and annotation laboratory using a virtual machine. Biochem Mol Biol Educ. 2023. https://doi.org/10.1002/bmb.21720 January 2023 • Sanila has joined the lab to do an MRes. Welcome! • Book Chapter published! Logel, D.Y., Jaschke, P.R. (2023). Creating De Novo Overlapped Genes. In: Selvarajoo, K. (eds) Computational Biology and Machine Learning for Metabolic Engineering and Synthetic Biology. Methods in Molecular Biology, vol 2553. Humana, New York, NY. https://doi.org/10.1007/978-1-0716-2617-7_6 October 2022 • Pre-print posted on bioRxiv! IbpAB small heat shock proteins are not host factors for bacteriophage φX174 replication. (2022). Hannah X Zhu, Bradley W Wright, Dominic Y Logel, Mark P Molloy, Paul R Jaschke bioRxiv 2022.10.13.511849; doi: https://doi.org/10.1101/2022.10.13.511849 • Book Chapter on creating new overlapping genes published! Dominic Y. Logel and Paul R. Jaschke. (2023). Creating De Novo Overlapped Genes. Kumar Selvarajoo (ed.), Computational Biology and Machine Learning for Metabolic Engineering and Synthetic Biology, Methods in Molecular Biology, vol. 2553, https://doi.org/10.1007/978-1-0716-2617-7_6, • Kein Huynh receives a very nice final examination mark for his MRes thesis entitled "A new phage display system using bacteriophage phi6" February 2022 • Ellina Trofimova has joined the lab for her PhD studying phage-host interactions. Welcome back Ellina! • Published! Logel DY and Jaschke PR. (2022). Creating De Novo Overlapped Genes. bioRxiv. DOI: https://doi.org/10.1101/2022.02.15.480625 January 2022 • ACS Syn. Bio. paper 'Codon-Restrained Method for Both Eliminating and Creating Intragenic Bacterial Promoters' published. Congratulations Dominic L. and Ellina! • Submitted book chapter titled 'Creating De Novo Overlapped Genes' for Methods in Molecular Biology book: Computational Biology and Machine Learning for Metabolic Engineering and Synthetic Biology December 2021 • Ellina completed her MRes with flying colours, congratulations! • Russel's PhD examination is complete and we can call him Dr. Vincent now. Congratulations! October 2021 • After over 13 weeks away during lockdown, our lab is opening up again! I think I speak for the whole lab when I say that I can't wait to get back. • Pamela Tsoumbris is joining the lab to start here PhD project on engineering phage to address UPEC infections. Welcome back Pamela! • Ellina Trofimova has submitted her MRes thesis for examination. Good luck Ellina! • Russel Vincent has submitted his PhD thesis for examination! Good luck Russel! • Dominic Logel has won a COVID Recovery Postdoctoral Fellowship. Congratulations Dominic and happy to have you back in the lab! August 2021 • Check out our new bioRxiv pre-print from the lab featuring work by Dominic Logel and Ellina Trofimova's work creating A Codon Constrained Method for Both Eliminating and Creating Intragenic Bacterial Promoters July 2021 • The lab is in lockdown due to SARS-CoV-2 outbreak in Sydney! Lots of writing happening but not much else.... June 2021 • Pamela Tsoumbris has successfully completed her MRes with flying colours! Congratulations! • Plaque Size Tool paper published in Virology. Congratulations Ellina! May 2021 • Hannah Zhu has started her PhD in the lab engineering phage to address Uropathogenic E. coli (UPEC) infections in collaboration with Dr. Karen Weynberg at the University of Queensland. Welcome Hannah! • Pamela Tsoumbris has handed in her MRes thesis entitled "Engineering φX174 to create a biocontained phage therapy model". Good luck Pamela! • New bioRxiv pre-print from the lab featuring Andy Hutvagner and Dominic Scopelliti's work on engineering new initiator tRNAs. In collaboration with Fiona Whelan at The University of Adelaide: Orthogonal translation initiation using the non-canonical initiator tRNA(AAC) alters protein sequence and stability in vivo. April 2021 • Wright and Logel et al. accepted at mSystems! • New bioRxiv pre-print from the lab featuring Ellina's Plaque Size Tool Dec 2020 • Dominic Logel's PhD has been awarded. Congratulations Dr. Logel!! Nov 2020 • Paul is giving a talk at PHAVES #10 ! • New bioRxiv pre-print from the lab featuring Bradley Wright and Dominic Logel's work from their PhD theses: Proteomic and transcriptomic analysis of Microviridae φXI74 infection reveals broad up-regulation of host membrane damage and heat shock responses. Oct 2020 • Bradley Wright's first-author paper published in ACS Syn Bio! Genome Modularization Reveals Overlapped Gene Topology Is Necessary for Efficient Viral Reproduction. • Wright et al. (2020) wrote up in Niko McCarty's 'This Week in Synthetic Biology' in Medium. July 2020 • Dominic Logel has submitted his PhD thesis. Good luck! • Bradley Wright has passed his PhD examination. Congratulations Dr. Wright! • Pamela Tsoumbris has joined the lab to do her MRes on Biocontained Phage for Therapeutics. June 2020 • Bradley Wright's pre-print posted to bioRxiv: Genome modularization reveals overlapped gene topology is necessary for efficient viral reproduction • Dominic's paper is accepted in Virology! A high-resolution map of øX174 transcription March 2020 • New pre-print posted to bioRxiv: A high-resolution map of øX174 transcription. Congrats Dominic Logel! February 2020 • Dominic Scopelliti is starting his PhD on engineering and understanding the identity code of bacterial initiator tRNAs this month. Welcome back to the lab Dominic! • Won an NHMRC Ideas Grant with Karen Weynberg at the University of Queensland to engineer phage to address multidrug resistant uropathogenic E. coli. Starting work in May! January 2020 • Start of a new year with many exciting projects and papers coming to maturity soon. Watch this space! • Ellina Trofimova joins the lab to work on phage for her masters of research (MRes) thesis project. Welcome Ellina! December 2019 • Dominic Scopelliti passes his masters of research (MRes) thesis entitled "Characterising N-terminal amino acid incorporation and protein stability using a mutant i-tRNA(AAC)" with flying colours. Congrats Dominic! November 2019 • New Jaschke lab perspective piece out in PHAGE: Therapy, Applications, and Research: Building Better Bacteriophage with Biofoundries to Combat Antibiotic-Resistant Bacteria • New Jaschke lab paper out in PNAS! Definitive demonstration by synthesis of genome annotation completeness. October 2019 • Dominic Logel wins best poster prize at Synthetic Biology Australasia Brisbane 2019 meeting! • Dominic Scopelliti submits his masters of research (MRes) thesis for marking. Good luck Dominic! September 2019 New Jaschke lab paper published in Biochemistry and Molecular Biology Education: Simulated sandwich enzyme‐linked immunosorbent assay for a cost‐effective investigation of natural and engineered cellular signaling pathways March 2019 New Jaschke Lab paper accepted in ACS Synthetic Biology: Measuring Amber Initiator tRNA Orthogonality in a Genomically Recoded Organism. January 2019 Andy Hutvagner joins the lab to start his PhD project! His work will be partially funded through CSIRO's Future Sciences Platform PhD TopUp Award. Dominic Scopelliti joins the lab to start his MRes project engineering initiator tRNAs. Good luck Dominic! New 100% Jaschke lab pre-print posted to bioRxiv: Russel M. Vincent, Bradley W. Wright, Paul R Jaschke. (2019). Measuring amber initiator tRNA orthogonality in a genomically recoded organism. bioRxiv. 524249. https://doi.org/10.1101/524249 November 2018 Congratulations Andy! You passed your MRes thesis with flying colours. See you in 2019 for your Ph.D. October 2018 New pre-print posted to bioRxiv: Paul R Jaschke, Gabrielle A Dotson, Kay Hung, Diane Liu, Drew Endy. (2018). Definitive demonstration by synthesis of genome annotation completeness. bioRxiv. 455428. https://doi.org/10.1101/455428 Andy Hutvagner has submitted his MRes thesis titled "Engineered semi-orthogonal initiator tRNAs initiate translation at non-canonical start codons" good luck! September 2018 Russel Vincent receives an MQ Postgraduate Research Fund Award to travel to 2019 SEED conference and visit the Liu lab to learn PACE! April 2018 Paul's Hyperdrive Science CSIRO ON Accelerate team received the People’s Choice ‘Innovation IMPACT’ Award as voted by the audience. https://www.csiro.au/en/News/News-releases/2018/ON-demo-night-winners 12 Feb 2018 Announcing a new postdoc fellowship opportunity in my group engineering a new phage display method to address one of the major blind spots in current drug target identification pipelines. Jan 2018 Andy Hutvagner joins the lab this year to do a MRes project engineering tRNA to create new start codons. 20 December 2017 Dominic gets awarded CSIRO Synthetic Biology Future Science Platform PhD Scholarship. We are going to be engineering a new phage in the new year! 11 December 2017 Team Hyperdrive accepted into ON Accelerate4. We are using phage and smart chemistry to reduce time, cost, & risk of drug development and re-development. 15 November 2017 Masters of Research student Russel Vincent passes thesis defence! Congrats, looking forward to you starting your PhD in January 2018 18 August 2017 MQSIS Microbial Culturing Platform Grant Approved! We will be getting some awesome fluorescence-guided robotics with UV-VIS capabilities in the MQ Synthetic Biology lab soon, stay tuned. 20 April 2017 Recent paper granted honour of NAR BREAKTHROUGH ARTICLE! Hecht A, Glasgow J, Jaschke PR, Bawazar LA, Munson MS, Cochran JR, Endy D, Salit M. (2017). Nucleic Acids Res (2017) 45 (7): 3615-3626. • less than 1% of Nucleic Acids Research papers designated Breakthrough Status |
