Deciphering the regulatory principles of metazoan development. This proposal aims to elucidate how regulatory elements in the genome, known as enhancers, determine the identity and function of animal tissues. Currently, it is believed that enhancers cannot be traced across evolutionarily distant animals. The project uses novel concepts, computational and molecular approaches to identify deeply conserved enhancers. It further dissects the mechanism of function by proteomics and high-throughput ge ....Deciphering the regulatory principles of metazoan development. This proposal aims to elucidate how regulatory elements in the genome, known as enhancers, determine the identity and function of animal tissues. Currently, it is believed that enhancers cannot be traced across evolutionarily distant animals. The project uses novel concepts, computational and molecular approaches to identify deeply conserved enhancers. It further dissects the mechanism of function by proteomics and high-throughput genomics. The expected outcomes will overturn our current view on enhancer evolution and reposition our understanding of how enhancers are functionally encoded in the genome. The work is an important contribution to understanding cellular complexity and species evolution with wide-ranging impact in genetics.Read moreRead less
The Epigenetics of Sex in the Dragon. Genetic codes do not directly translate to phenotypes -- environment acts through epigenetics to modify development. We use advanced molecular techniques to examine how epigenetics responds to temperature to reverse sex in our novel animal model, the dragon lizard. How does the cell sense temperature? Once the extrinsic signal is captured, how does it influence chromatin modification to release or suppress key genes in the sex differentiation pathway? Which ....The Epigenetics of Sex in the Dragon. Genetic codes do not directly translate to phenotypes -- environment acts through epigenetics to modify development. We use advanced molecular techniques to examine how epigenetics responds to temperature to reverse sex in our novel animal model, the dragon lizard. How does the cell sense temperature? Once the extrinsic signal is captured, how does it influence chromatin modification to release or suppress key genes in the sex differentiation pathway? Which sex genes are targets? Epigenetic enzymes are astonishingly conserved, providing exciting opportunities to draw from human systems to unravel novel signatures of temperature-induced sex switching in reptiles. This project will advance knowledge of developmental programming generally.Read moreRead less
Characterising inheritance patterns of whole genome DNA methylation. This project aims to characterise epigenetic diversity and inheritance patterns in whole genome sequencing data from a unique human population. The project will employ the well-characterised Norfolk Island genetic isolate, cost-effective whole genome bisulphite sequencing technologies and advanced bioinformatics pipelines and statistical models. It will involve cross-discipline collaboration between human geneticists, epigeneti ....Characterising inheritance patterns of whole genome DNA methylation. This project aims to characterise epigenetic diversity and inheritance patterns in whole genome sequencing data from a unique human population. The project will employ the well-characterised Norfolk Island genetic isolate, cost-effective whole genome bisulphite sequencing technologies and advanced bioinformatics pipelines and statistical models. It will involve cross-discipline collaboration between human geneticists, epigeneticists, statistical geneticists and bioinformaticians. This project will advance our understanding of the interaction of genetics and epigenetics and their relationship to diversity and inheritance in humans.Read moreRead less
Nanotechnology in nature: the evolutionary significance of iridescent ultraviolet colouration in butterflies. Nanostructural colour is a novel and interesting biological phenomenon that has potential application in textile and paint industries. This research has the potential to uncover knowledge relevant to future genetic manipulation and/or artificial synthesis of this trait for industry. Fundamental benefits will include a contribution to our understanding of evolution and biological diversit ....Nanotechnology in nature: the evolutionary significance of iridescent ultraviolet colouration in butterflies. Nanostructural colour is a novel and interesting biological phenomenon that has potential application in textile and paint industries. This research has the potential to uncover knowledge relevant to future genetic manipulation and/or artificial synthesis of this trait for industry. Fundamental benefits will include a contribution to our understanding of evolution and biological diversity, enhancement of Australia's research profile, and the cultivation of new scientific expertise. This proposal also promises to benefit the Australian scientific community through the establishment of collaborative links with universities in the USA and UK, and to increase mainstream awareness of Australia's stunning natural resources.Read moreRead less
Discovery and characterization of new classes of small regulatory RNAs in mammals. The project will reaffirm and enhance Australian leadership in the most rapidly developing area of molecular biological and genetic research, by the application of ultra high-throughput sequencing technologies to discovery of regulatory RNAs, thereby to identify the characteristics of important regulatory pathways that underpin mammalian development, brain function and species diversity. The results of this resear ....Discovery and characterization of new classes of small regulatory RNAs in mammals. The project will reaffirm and enhance Australian leadership in the most rapidly developing area of molecular biological and genetic research, by the application of ultra high-throughput sequencing technologies to discovery of regulatory RNAs, thereby to identify the characteristics of important regulatory pathways that underpin mammalian development, brain function and species diversity. The results of this research will have wide implications and applications in biotechnology, genetic engineering, animal breeding, medical science and advanced informatics.Read moreRead less
Governance of Agile Software Development Projects. The aim of the project is to generate theoretical knowledge on how to govern agile teams effectively. Effective governance of software development projects is essential for companies to protect their information technology investments. Nowadays, companies have migrated to agile software development where requirements and solutions evolve iteratively and change frequently; yet formal approaches to governance (eg steering committee and detailed pl ....Governance of Agile Software Development Projects. The aim of the project is to generate theoretical knowledge on how to govern agile teams effectively. Effective governance of software development projects is essential for companies to protect their information technology investments. Nowadays, companies have migrated to agile software development where requirements and solutions evolve iteratively and change frequently; yet formal approaches to governance (eg steering committee and detailed plans) are ineffective and impede flexibility, agility and creativity. This project aims to identify informal governance approaches for agile projects based on team embeddedness and network theory. With this knowledge, management could ensure projects deliver value at an acceptable cost, quality and timescale.Read moreRead less
The Genetic Basis of Differences Between the Sexes. Improved medical interventions against genetic disorders like cancer are made possible by advances in fundamental understanding of gene function and, especially, genetic mechanisms (like genomic imprinting) that are directly implicated in these disorders. Furthermore, an understanding of environmental effects within and across generations is vital in an age of global climate change. Recent theory and evidence suggest that research on sexually d ....The Genetic Basis of Differences Between the Sexes. Improved medical interventions against genetic disorders like cancer are made possible by advances in fundamental understanding of gene function and, especially, genetic mechanisms (like genomic imprinting) that are directly implicated in these disorders. Furthermore, an understanding of environmental effects within and across generations is vital in an age of global climate change. Recent theory and evidence suggest that research on sexually dimorphic traits may hold a key to a better understanding of these phenomena. The proposed research will strengthen Australia's position as leader in evolutionary genetics, enhance knowledge of native fauna, and improve our understanding of biological phenomena that affect human health. Read moreRead less
Fine-scale resolution of genomes in natural microbial communities. This project aims to develop advanced molecular and statistical techniques to precisely resolve the genomes of microbes in the environment. Microbes inhabit every niche on the planet and are fundamental to human and animal health, agriculture, and the environment. The proposed technology will advance our understanding of environmental microbes, leading to advances in areas like climate science and biosecurity where microbes play ....Fine-scale resolution of genomes in natural microbial communities. This project aims to develop advanced molecular and statistical techniques to precisely resolve the genomes of microbes in the environment. Microbes inhabit every niche on the planet and are fundamental to human and animal health, agriculture, and the environment. The proposed technology will advance our understanding of environmental microbes, leading to advances in areas like climate science and biosecurity where microbes play a key role. It will also support the development of billion dollar industries focused on the use of beneficial microbes in agriculture, plant, animal, and human health.Read moreRead less
Sequencing and assembling microbial community metagenomes in real-time. This project aims to assemble metagenomes directly from environmental samples using nanopore sequencing. Short-read approaches to metagenomics cannot assemble mixed genomes from an environmental sample, so focus on describing which species and genes are present. Long-read nanopore sequencing enables the assembly of full genomes of multiple species in a sample. Assembling complete genomes in important resources such as water ....Sequencing and assembling microbial community metagenomes in real-time. This project aims to assemble metagenomes directly from environmental samples using nanopore sequencing. Short-read approaches to metagenomics cannot assemble mixed genomes from an environmental sample, so focus on describing which species and genes are present. Long-read nanopore sequencing enables the assembly of full genomes of multiple species in a sample. Assembling complete genomes in important resources such as water and soil should lead to deeper understanding of the dynamics, variation and transfer of genetic material within these resources’ microbial communities, strategies to manage microbial diversity, and improved productivity and long-term sustainability for these resources.Read moreRead less
Does developmental noise have an epigenetic basis? One's ultimate phenotype is the result of a combination of genotype and environment, and includes a poorly understood component termed ?developmental noise?. The molecular basis of developmental noise remains unknown, but it appears to be established in early development and to be retained for the life of the organism. We propose that the molecular basis of developmental noise is the epigenetic state of the genome. The stochastic nature of th ....Does developmental noise have an epigenetic basis? One's ultimate phenotype is the result of a combination of genotype and environment, and includes a poorly understood component termed ?developmental noise?. The molecular basis of developmental noise remains unknown, but it appears to be established in early development and to be retained for the life of the organism. We propose that the molecular basis of developmental noise is the epigenetic state of the genome. The stochastic nature of the establishment of epigenetic state, combined with its heritability during mitosis, provides all the essential components for developmental noise. If our hypothesis proves correct, our work will have a major impact on the understanding of one of the most basic concepts in genetics.Read moreRead less