Charting the human epi-transcriptome. This project aims to use Oxford nanopore technologies and phage display technologies, to obtain quantitative, single-nucleotide resolution maps for any RNA modification of choice. This will allow systematic mapping of RNA modifications for which we currently lack transcriptome-wide maps, as well as investigate the roles, regulation and impact of RNA modifications in proper cellular functioning and cell differentiation. The project will provide significant be ....Charting the human epi-transcriptome. This project aims to use Oxford nanopore technologies and phage display technologies, to obtain quantitative, single-nucleotide resolution maps for any RNA modification of choice. This will allow systematic mapping of RNA modifications for which we currently lack transcriptome-wide maps, as well as investigate the roles, regulation and impact of RNA modifications in proper cellular functioning and cell differentiation. The project will provide significant benefits, such as to the economy by offering a cost-effective alternative to sequencing methods currently used to map DNA and RNA modifications.Read moreRead less
Discovery Early Career Researcher Award - Grant ID: DE150100091
Funder
Australian Research Council
Funding Amount
$341,000.00
Summary
Traffic on DNA: interplay between RNA polymerases and DNA-bound proteins. The DNA inside the cell is not just a repository of information, but is an active player in how that information is used. Proteins bind to defined locations on the DNA to control which genes are active, and genes are expressed by RNA polymerases that track along the DNA. Collisions between RNA polymerases and DNA-bound proteins can remove the proteins or block the polymerase. How can these essential processes safely coexis ....Traffic on DNA: interplay between RNA polymerases and DNA-bound proteins. The DNA inside the cell is not just a repository of information, but is an active player in how that information is used. Proteins bind to defined locations on the DNA to control which genes are active, and genes are expressed by RNA polymerases that track along the DNA. Collisions between RNA polymerases and DNA-bound proteins can remove the proteins or block the polymerase. How can these essential processes safely coexist on the DNA? The project aims to integrate systematic experiments using well-defined genetic components and mathematical modelling to understand the 'design' features of DNA and proteins that minimise these traffic problems. A better understanding could inform new strategies for manipulation of gene expression.Read moreRead less
Structural domains of beta-tubulin and their role in microtubule dynamics and transport. This study aims to obtain a fundamental understanding of how the structural domains of the cytoskeletal protein beta-tubulin are involved in microtubule structures during cell division and vesicular transport. Using gene-editing technology and coupling this with cell biological approaches and high-resolution cell imaging will enable detailed analysis of the role of beta-tubulin domains in these important cel ....Structural domains of beta-tubulin and their role in microtubule dynamics and transport. This study aims to obtain a fundamental understanding of how the structural domains of the cytoskeletal protein beta-tubulin are involved in microtubule structures during cell division and vesicular transport. Using gene-editing technology and coupling this with cell biological approaches and high-resolution cell imaging will enable detailed analysis of the role of beta-tubulin domains in these important cellular processes. The outcomes will include fundamental new knowledge in cell biology and lead to the development of unique biological models that can be used to understand disease.Read moreRead less
Comprehensive characterisation of DNA demethylation pathways in vivo. This project aims to provide a better understanding of the roles that DNA methylation plays during embryonic development. DNA methylation is a major regulatory mark present in vertebrate genomes. It is well established that the genomic patterns of DNA methylation are being actively remodelled during vertebrate embryogenesis. Nevertheless, it remains unclear how these events impact gene regulation and embryonic development itse ....Comprehensive characterisation of DNA demethylation pathways in vivo. This project aims to provide a better understanding of the roles that DNA methylation plays during embryonic development. DNA methylation is a major regulatory mark present in vertebrate genomes. It is well established that the genomic patterns of DNA methylation are being actively remodelled during vertebrate embryogenesis. Nevertheless, it remains unclear how these events impact gene regulation and embryonic development itself. This project expects to unravel the functional contributions of DNA methylation to vertebrate embryogenesis by using latest cutting-edge genomics techniques. The project will be carried out on the highly tractable zebrafish model system which allows for easy genetic manipulation of the desired sequences. This project aims to provide a better understanding of embryonic development of vertebrates, including humans.Read moreRead less
3'UTR switching in eukaryotic cells. The project aims to uncover conserved features fundamental to the mechanism and function of post-transcriptional gene-expression control. RNA systems interface the executive functions of DNA and the worker functions of proteins. mRNA often dictates the level, timing and location of protein synthesis. This project will use RNA-sequencing and bespoke bioinformatics to probe global RNA-dynamics. Mixing yeast-genetics with RNA-technologies, it focuses on 3’ untra ....3'UTR switching in eukaryotic cells. The project aims to uncover conserved features fundamental to the mechanism and function of post-transcriptional gene-expression control. RNA systems interface the executive functions of DNA and the worker functions of proteins. mRNA often dictates the level, timing and location of protein synthesis. This project will use RNA-sequencing and bespoke bioinformatics to probe global RNA-dynamics. Mixing yeast-genetics with RNA-technologies, it focuses on 3’ untranslated region (UTR) dynamics in eukaryotic cell biology. This project expects to significantly advance the understanding of eukaryotic gene function and gene regulation, critical in an age of personalised genomic medicine.Read moreRead less
Discovery Early Career Researcher Award - Grant ID: DE180100219
Funder
Australian Research Council
Funding Amount
$343,551.00
Summary
Molecular mechanism for the regulation of Polycomb repressive complex 2. This project aims to determine how the histone methyltransferase Polycomb repressive complex 2 (PRC2) is regulated. The project expects to generate new knowledge in transcription regulation and epigenetics. The intended outcome is to enhance the national capabilities in two important fields, Polycomb biology and cryo-electron microscopy (cryo-EM). This should provide significant benefits, including strengthening of the epig ....Molecular mechanism for the regulation of Polycomb repressive complex 2. This project aims to determine how the histone methyltransferase Polycomb repressive complex 2 (PRC2) is regulated. The project expects to generate new knowledge in transcription regulation and epigenetics. The intended outcome is to enhance the national capabilities in two important fields, Polycomb biology and cryo-electron microscopy (cryo-EM). This should provide significant benefits, including strengthening of the epigenetic community through the development of innovative research program in Polycomb biology and the establishment of a national world-class cryo-EM community.Read moreRead less
Discovery Early Career Researcher Award - Grant ID: DE160100620
Funder
Australian Research Council
Funding Amount
$378,000.00
Summary
Mechanisms of controlled gene expression in cells and organisms. The goal of this project is to reveal the nature of a cellular mechanism that has a major influence on gene expression in all eukaryotic cells. How gene expression is controlled is of fundamental importance to all life forms. The project plans to develop molecular tools that enable the visualisation and interrogation of this gene regulatory mechanism in live cells, tissues and whole organisms. The outcomes are anticipated to lead t ....Mechanisms of controlled gene expression in cells and organisms. The goal of this project is to reveal the nature of a cellular mechanism that has a major influence on gene expression in all eukaryotic cells. How gene expression is controlled is of fundamental importance to all life forms. The project plans to develop molecular tools that enable the visualisation and interrogation of this gene regulatory mechanism in live cells, tissues and whole organisms. The outcomes are anticipated to lead to an essential understanding of how cells respond to physiological and environmental cues by coordinating changes in gene expression, and to provide potential avenues towards manipulation for pharmaceutical, agricultural and biotechnology purposes.Read moreRead less
Towards a new understanding of the reproductive system. The proposed analysis of the reproductive system will provide important new knowledge of gene regulation driving organ development. The insights and technologies developed in this program will be widely applicable in biotechnological and pharmacogenomic research in Australia and worldwide, and assert Australia's leadership in this area of research.
Discovery Early Career Researcher Award - Grant ID: DE140101728
Funder
Australian Research Council
Funding Amount
$395,220.00
Summary
The regulation and evolution of posttranscriptional gene networks. The ability of cells to regulate gene expression is key for organism development, adaptation to new environments and evolutionary changes that shape the diversity of life on Earth. This project studies the RNA binding proteins called PUFs which are central for gene expression in diverse organisms. Using cutting-edge new generation systems biology approaches, this project will study how PUF proteins regulate genes to enable metabo ....The regulation and evolution of posttranscriptional gene networks. The ability of cells to regulate gene expression is key for organism development, adaptation to new environments and evolutionary changes that shape the diversity of life on Earth. This project studies the RNA binding proteins called PUFs which are central for gene expression in diverse organisms. Using cutting-edge new generation systems biology approaches, this project will study how PUF proteins regulate genes to enable metabolic adaptation, differentiation of cell types and the evolution of new gene expression outputs in distinct biological species. The outcomes will include new insights into the regulation and evolution of posttranscriptional gene networks. Read moreRead less
DNA exhibits new self-assembled structures due to clustered DNA methylation. This project aims to develop a technology to investigate detailed epigenetic patterns in DNA by directly interrogating the physical properties of DNA polymers in their native state. Epigenetics controls whether genes and genetic programs are turned on or off in living systems. The project will build on a recent discovery that key physical properties of native DNA polymers are strongly influenced by epigenetic patterns c ....DNA exhibits new self-assembled structures due to clustered DNA methylation. This project aims to develop a technology to investigate detailed epigenetic patterns in DNA by directly interrogating the physical properties of DNA polymers in their native state. Epigenetics controls whether genes and genetic programs are turned on or off in living systems. The project will build on a recent discovery that key physical properties of native DNA polymers are strongly influenced by epigenetic patterns created by living organisms. By fully understanding this phenomenon, this project aims to provide new tools for the study of epigenetics with broad potential applications in the life sciences, biotechnology and nanotechnology.Read moreRead less