Using phylogenomics to record the impacts of climate change, extinction and population fragmentation. This project will use ancient DNA from permafrost-preserved Steppe bison bones and bovid exome capture systems to build a detailed record of the genomic impacts of rapid climate and environmental change at the end of the Pleistocene (30 to 11 kyr). The project will analyse how ancestral genetic diversity is distributed amongst surviving bison populations, and the role of nuclear loci under selec ....Using phylogenomics to record the impacts of climate change, extinction and population fragmentation. This project will use ancient DNA from permafrost-preserved Steppe bison bones and bovid exome capture systems to build a detailed record of the genomic impacts of rapid climate and environmental change at the end of the Pleistocene (30 to 11 kyr). The project will analyse how ancestral genetic diversity is distributed amongst surviving bison populations, and the role of nuclear loci under selection and drift. It will create a novel temporal dataset of genomic adaptation and evolution, and will generate critical data for studies of evolutionary processes such as extinctions, speciation and conservation biology and management.Read moreRead less
Genetics of species differentiation and hybridisation in Eucalyptus. This project aims to use state-of-the-art genomic technologies to characterise genes and genomic regions important for speciation and adaptation in Australia’s iconic eucalypts, and study the importance of hybridisation between species, especially during range expansion and contraction. A major international effort has seen a eucalypt become the second forest tree genome sequenced. This project aims to link the expanding intern ....Genetics of species differentiation and hybridisation in Eucalyptus. This project aims to use state-of-the-art genomic technologies to characterise genes and genomic regions important for speciation and adaptation in Australia’s iconic eucalypts, and study the importance of hybridisation between species, especially during range expansion and contraction. A major international effort has seen a eucalypt become the second forest tree genome sequenced. This project aims to link the expanding international knowledge on the eucalypt genome to the evolutionary dynamics of wild populations in Australia to provide unprecedented insights into the nature of species and processes which have shaped their evolution. These insights may inform their breeding as well as their conservation and management in Australia.Read moreRead less
Understanding adaptation to improve conservation of Australian flora. Using the Australian flora as our model, this project aims to tackle a central issue of evolution and conservation - what drives species adaptation? Since dispersal should override selection in populations, we predict that plants that are good dispersers will display weak signals of adaptation, but a higher capacity to adapt, than poorer dispersers. From these expectations we plan to develop a new adaptation guild classificati ....Understanding adaptation to improve conservation of Australian flora. Using the Australian flora as our model, this project aims to tackle a central issue of evolution and conservation - what drives species adaptation? Since dispersal should override selection in populations, we predict that plants that are good dispersers will display weak signals of adaptation, but a higher capacity to adapt, than poorer dispersers. From these expectations we plan to develop a new adaptation guild classification, and test predictions using ecological genomics and functional genetics at a continental and multi-species scale. In addition to progressing a central tenet of evolutionary biology, this project aims to improve seed sourcing and biodiversity management, readily applicable to plants that can be quickly classified by life history traits.Read moreRead less
Predicting the evolutionary dynamics of adaptation. This project aims to address the question of how we can predict adaptive evolution. The project aims to probe the limits of evolutionary predictions by using a model system of bacterial populations that adapt to the presence of multiple stressors. This will be combined with high-throughput fitness measurements, whole genome sequencing and computer simulations. Anticipated outcomes include novel insights into deep questions regarding the structu ....Predicting the evolutionary dynamics of adaptation. This project aims to address the question of how we can predict adaptive evolution. The project aims to probe the limits of evolutionary predictions by using a model system of bacterial populations that adapt to the presence of multiple stressors. This will be combined with high-throughput fitness measurements, whole genome sequencing and computer simulations. Anticipated outcomes include novel insights into deep questions regarding the structure of fitness landscapes and the repeatability, predictability and contingency of adaptive evolution. The project is expected to provide significant benefits, informing the development of improved strategies for managing pathogen resistance to antimicrobial drugs.Read moreRead less
The evolution of phenotypic plasticity during a biological invasion. The project seeks to unravel the mechanisms by which a species responds to challenges such as pollution, invasive species and climate change. Organisms can deal with challenges by changing their phenotypes in response to environmental cues (plasticity) and/or by longer-term changes in gene frequencies within a population (adaptation). Plasticity itself can be adaptive; so how does it evolve? Invasive species offer a unique oppo ....The evolution of phenotypic plasticity during a biological invasion. The project seeks to unravel the mechanisms by which a species responds to challenges such as pollution, invasive species and climate change. Organisms can deal with challenges by changing their phenotypes in response to environmental cues (plasticity) and/or by longer-term changes in gene frequencies within a population (adaptation). Plasticity itself can be adaptive; so how does it evolve? Invasive species offer a unique opportunity to answer that question, because a founding population (with modest genetic variation) must deal with myriad challenges in its new home. Using Australia’s cane toad invasion as the model system, the project aims to tease apart the roles of epigenetic and genetic modifications, and the interplay between them, as drivers for the toads’ success and rapid evolution in Australia.Read moreRead less
Diet, gut microbiota and the evolution of lifespan and reproduction. Nutrition has pronounced effects on lifespan and reproduction across animal species, yet how these effects are mediated is poorly understood. This project aims to determine if the gut microbiota regulates these nutritional effects. This project expects to deliver key insights on the complex interplay between nutrition and the gut microbiota, as well as the potential to manipulate this relationship to extend lifespan and alter r ....Diet, gut microbiota and the evolution of lifespan and reproduction. Nutrition has pronounced effects on lifespan and reproduction across animal species, yet how these effects are mediated is poorly understood. This project aims to determine if the gut microbiota regulates these nutritional effects. This project expects to deliver key insights on the complex interplay between nutrition and the gut microbiota, as well as the potential to manipulate this relationship to extend lifespan and alter reproduction. The expected outcomes of this project include generating new knowledge, building multidisciplinary collaborations and the development of novel experimental approaches. This should provide significant benefits, fore-most in bolstering Australia’s high international standing in evolutionary research. Read moreRead less
Adaptation to life in the dark: genomic analyses of blind beetles. This project aims to utilise a unique Australian model system based on multiple, independently-evolved subterranean water beetles to explore the adaptive and regressive changes in the genome that occur when surface species colonise subterranean habitats. This project focuses on the evolution of Heat Shock protein (Hsp) genes that play critical roles in adaptation to environmental stress and the process of de-canalisation, the rel ....Adaptation to life in the dark: genomic analyses of blind beetles. This project aims to utilise a unique Australian model system based on multiple, independently-evolved subterranean water beetles to explore the adaptive and regressive changes in the genome that occur when surface species colonise subterranean habitats. This project focuses on the evolution of Heat Shock protein (Hsp) genes that play critical roles in adaptation to environmental stress and the process of de-canalisation, the release of cryptic genetic variation that can allow novel morphologies to evolve in new environments. The project expects to provide further understanding of how species may potentially adapt to environmental stresses in the future, including climate change.Read moreRead less
Is regressive evolution associated with loss of gene function in subterranean animals? This project aims to investigate a fundamental biological process: the evolutionary basis for how non-functional characters, such as eyes in subterranean animals, are lost. It will use a unique model system based on eyeless water beetles, and utilise novel new genomic tools to test whether loss of characters results from gene inactivation.
How evolution is constrained by trade-offs between the multiplication and survival of organisms. The negative correlation between reproduction (production of large numbers of progeny) and survival (resistance to external challenges) is a crucial trade-off that limits the evolution of perfect organisms. Such trade-offs are extremely difficult to study in closely controlled experiments because of the complexities in biological organisation and life-cycles. This project will explore trade-offs usin ....How evolution is constrained by trade-offs between the multiplication and survival of organisms. The negative correlation between reproduction (production of large numbers of progeny) and survival (resistance to external challenges) is a crucial trade-off that limits the evolution of perfect organisms. Such trade-offs are extremely difficult to study in closely controlled experiments because of the complexities in biological organisation and life-cycles. This project will explore trade-offs using a novel synthetic biology strategy. Genes in bacteria will be engineered to produce strains with a range of fixed but different trade-off settings. The strain sets will allow unprecedented analysis of reproduction-survival trade-offs and testing of important models of how trade-offs control fitness and evolutionary outcomes.Read moreRead less
Defining the Molecular Targets of Evolution. With significant advances in next-generation sequencing technologies we now have the genomes of hundreds vertebrate species, but understanding how the differences and similarities within these genomes control species diversity is largely unknown. The similarity in skull shape between the thylacine and dogs coupled with their deep ancestry, having last shared a common ancestor over 160 million years ago, provides an unprecedented opportunity to examine ....Defining the Molecular Targets of Evolution. With significant advances in next-generation sequencing technologies we now have the genomes of hundreds vertebrate species, but understanding how the differences and similarities within these genomes control species diversity is largely unknown. The similarity in skull shape between the thylacine and dogs coupled with their deep ancestry, having last shared a common ancestor over 160 million years ago, provides an unprecedented opportunity to examine how evolution works at the DNA level. This proposal will determine if animals that develop identical skull shapes, also show identical changes in their DNA. The findings will define new developmental genes and explain how selection, adaptation and evolution works at the DNA level. Read moreRead less