Transcription factor – enhancer – promoter based regulatory networks. This project aims to develop new understanding on how multicellular organisms (including humans) develop, and how mutations in distant regions of the genome can affect human traits. The way the human genome is interpreted by the cellular machinery is still a mystery. We have a reference sequence and know where the majority of coding genes are, but we are far from understanding how the genome is regulated to generate the divers ....Transcription factor – enhancer – promoter based regulatory networks. This project aims to develop new understanding on how multicellular organisms (including humans) develop, and how mutations in distant regions of the genome can affect human traits. The way the human genome is interpreted by the cellular machinery is still a mystery. We have a reference sequence and know where the majority of coding genes are, but we are far from understanding how the genome is regulated to generate the diversity of cell types in our bodies. Enhancer regions interact with proximal promoters to regulate gene expression level and tissue-specificity. This project aims to develop transcriptional regulatory network models using high throughput chromatin interaction data and expression perturbation to link promoter and enhancers genome-wide.Read moreRead less
Next generation high throughput lipidomics using adaptive modelling. This project aims to develop a unique high-throughput method to capture the lipidomic profile of human plasma suitable for large human population screening. Lipids are fundamental to every biological system, but our understanding of their regulation in humans have been largely superficial. By incorporating a new lipidomics approach, with genomic data, this project aims to expand our understanding of human biology by identifying ....Next generation high throughput lipidomics using adaptive modelling. This project aims to develop a unique high-throughput method to capture the lipidomic profile of human plasma suitable for large human population screening. Lipids are fundamental to every biological system, but our understanding of their regulation in humans have been largely superficial. By incorporating a new lipidomics approach, with genomic data, this project aims to expand our understanding of human biology by identifying regulators of lipid metabolism. The large diversity in humans necessitate sufficient sample sizes to identify true genetic regulators, but to date techniques capturing phenotypic data (lipids) have been largely limited. It is anticipated that this study will identify new regulators of lipid metabolism in humans.Read moreRead less
Who’s who in the plant gene world? As many more plant genomes are sequenced, the bottleneck is being able to interrogate and translate this data into applications for crop improvement. This project will develop and apply a population graph database, hosting genome data for the world’s major crops and their wild relatives, allowing the characterisation of gene diversity on an unparalleled scale. Analysis of this data will reveal the presence/absence and sequence diversity for classes of genes for ....Who’s who in the plant gene world? As many more plant genomes are sequenced, the bottleneck is being able to interrogate and translate this data into applications for crop improvement. This project will develop and apply a population graph database, hosting genome data for the world’s major crops and their wild relatives, allowing the characterisation of gene diversity on an unparalleled scale. Analysis of this data will reveal the presence/absence and sequence diversity for classes of genes for important agronomic traits including disease resistance, flowering time and legume nitrogen fixation which will enable plant breeders to identify and apply novel genes and allelic variants for use in breeding programmes, accelerating the production of improved crop varieties.Read moreRead less
IDENTIFYING CONTROL ELEMENTS IN CHLOROPLAST GENE EXPRESSION. Energy from sunlight is captured by photosynthesis in plants, providing the basis for the terrestrial food chain. This process takes place in chloroplasts, subcellular structures that derived from photosynthetic bacteria a billion years ago. Chloroplasts have their own DNA, containing genes encoding the most important photosynthetic proteins. This project aims to provide the world’s best resources for the study of chloroplast genes. In ....IDENTIFYING CONTROL ELEMENTS IN CHLOROPLAST GENE EXPRESSION. Energy from sunlight is captured by photosynthesis in plants, providing the basis for the terrestrial food chain. This process takes place in chloroplasts, subcellular structures that derived from photosynthetic bacteria a billion years ago. Chloroplasts have their own DNA, containing genes encoding the most important photosynthetic proteins. This project aims to provide the world’s best resources for the study of chloroplast genes. In the process, we will discover how these important genes are regulated to provide photosynthetic proteins in the right amounts, in the right cells, at the right time. The knowledge and resources gained will facilitate improvement of photosynthetic function in future agricultural crops.Read moreRead less
Synthetic regulators of gene expression. RNA plays many essential roles in cells, from information transfer and regulation of gene expression to scaffolding macromolecular structures and catalysis. Despite these realisations the current approaches to manipulate RNA are limited in many respects. This project will use synthetic biology approaches to engineer synthetic regulators of RNAs in living cells. These studies will provide new tools for use in biological research and provide insights into h ....Synthetic regulators of gene expression. RNA plays many essential roles in cells, from information transfer and regulation of gene expression to scaffolding macromolecular structures and catalysis. Despite these realisations the current approaches to manipulate RNA are limited in many respects. This project will use synthetic biology approaches to engineer synthetic regulators of RNAs in living cells. These studies will provide new tools for use in biological research and provide insights into how natural proteins control gene expression. Furthermore, this project will use these tools to understand the mechanisms of how proteins are synthesised in mammalian mitochondria.Read moreRead less
Complexities of the mitochondrial transcriptome. This project aims to understand mitochondrial gene expression and energy production. Energy production is important for living things to grow and develop. In mammals, the mitochondria, the energy producing “powerhouses of the cell”, contain their own genetic assembly instructions. This project aims to understand these genetic instructions, revealing how genes control energy production. This project will characterise the genetic instructions, the m ....Complexities of the mitochondrial transcriptome. This project aims to understand mitochondrial gene expression and energy production. Energy production is important for living things to grow and develop. In mammals, the mitochondria, the energy producing “powerhouses of the cell”, contain their own genetic assembly instructions. This project aims to understand these genetic instructions, revealing how genes control energy production. This project will characterise the genetic instructions, the mitochondrial transcriptome and the proteins that control them. These advances are expected to provide a mechanistic understanding of how gene expression responds to changes in cellular energy demands. This knowledge will generate new biotechnological tools for Australian science and will have important long-term implications for improving agriculture and medicineRead moreRead less
Chemical signalling in the sea. This project aims to understand how eggs attract and select sperm, and how the environment influences these interactions. Differential sperm chemotaxis, a form of mate choice involving chemical signalling between eggs and sperm, has only been described in mussels, but may be a widespread form of gamete-level sexual selection. The project will study the biochemical and molecular basis of differential sperm chemotaxis in mussels, and the stability of gamete-level in ....Chemical signalling in the sea. This project aims to understand how eggs attract and select sperm, and how the environment influences these interactions. Differential sperm chemotaxis, a form of mate choice involving chemical signalling between eggs and sperm, has only been described in mussels, but may be a widespread form of gamete-level sexual selection. The project will study the biochemical and molecular basis of differential sperm chemotaxis in mussels, and the stability of gamete-level interactions under different environmental conditions. Improved fundamental knowledge of reproduction in a commercially important marine species may yield future commercial benefits for Australia’s marine food production sectorRead moreRead less
Engineering improved and multifunctional gene editing systems. Advances in genome editing have enabled the targeted modulation of gene expression in cells and provided new tools for biotechnology. This project will combine computational design and genetic selection to deliver the next generation of precision gene editing tools. These new technologies can be used for modification of genes in any cellular compartment and will be useful for understanding and improving energy metabolism. Increased c ....Engineering improved and multifunctional gene editing systems. Advances in genome editing have enabled the targeted modulation of gene expression in cells and provided new tools for biotechnology. This project will combine computational design and genetic selection to deliver the next generation of precision gene editing tools. These new technologies can be used for modification of genes in any cellular compartment and will be useful for understanding and improving energy metabolism. Increased cellular energy production can be harnessed to make valuable biological products, with unprecedented efficiency.Read moreRead less
eGenomics - Next generation biomonitoring of threatened species. DNA is the molecule of life and exists everywhere in the environment as a largely untapped source of information on evolution, biodiversity, and ecosystem health. Our overriding aim is to start mining that information to benefit threatened species. Based on optimized ancient DNA methods, powerful sequencing technology, whole genome analyses, and RNA profiling, we present a novel and holistic framework for genetic biomonitoring. In ....eGenomics - Next generation biomonitoring of threatened species. DNA is the molecule of life and exists everywhere in the environment as a largely untapped source of information on evolution, biodiversity, and ecosystem health. Our overriding aim is to start mining that information to benefit threatened species. Based on optimized ancient DNA methods, powerful sequencing technology, whole genome analyses, and RNA profiling, we present a novel and holistic framework for genetic biomonitoring. In two parallel model systems we will study corals and reptiles to improve environmental detection while simultaneously obtaining information on their population health. This will foster more efficient conservation of endangered species that are of tremendous importance to our marine and terrestrial ecosystems.Read moreRead less
Resolving the steps in the evolution of C4 photosynthesis. This project aims to identify the molecular mechanisms responsible for the evolution of grasses using the C4 biochemical pathway that enables plants to survive in hot, dry, high-light environments. The endemic Australian subtribe Neurachninae is the only known grass group that contains C4 species, species using the ancestral C3 pathway, as well as species using pathways intermediate to C3 and C4. Through a comparative approach employing ....Resolving the steps in the evolution of C4 photosynthesis. This project aims to identify the molecular mechanisms responsible for the evolution of grasses using the C4 biochemical pathway that enables plants to survive in hot, dry, high-light environments. The endemic Australian subtribe Neurachninae is the only known grass group that contains C4 species, species using the ancestral C3 pathway, as well as species using pathways intermediate to C3 and C4. Through a comparative approach employing high-throughput sequencing technologies, it is expected that the molecular changes underlying the transition from C3 to C4 will be identified. These results should define what is required to engineer plant varieties with increased yield and the ability to withstand climate change effects.Read moreRead less