Discovery Early Career Researcher Award - Grant ID: DE200100977
Funder
Australian Research Council
Funding Amount
$419,016.00
Summary
How ecology shapes the viromes of wild birds. This project will reveal the host factors associated with the diversity, evolution and dynamics of viruses using state-of-the-art metatranscriptomics in Australian wild birds. The structure of virus communities and their associated ecological drivers in wild animal hosts remain a black-box, even though they are the largest source of viral diversity in nature. This project expects to generate key insights into host-associated drivers of viral communit ....How ecology shapes the viromes of wild birds. This project will reveal the host factors associated with the diversity, evolution and dynamics of viruses using state-of-the-art metatranscriptomics in Australian wild birds. The structure of virus communities and their associated ecological drivers in wild animal hosts remain a black-box, even though they are the largest source of viral diversity in nature. This project expects to generate key insights into host-associated drivers of viral community dynamics and the subsequent effect of anthropogenic factors such as urbanisation and poultry production. Identifying host factors that affect viral ecology in wild birds will constitute a cornerstone in understanding the emergence of virulent viruses and/or their spread to poultry or humansRead moreRead less
Peril and promise: Origins and spread of integron gene cassettes. Integrons have a major role in spreading antibiotic resistance genes among pathogens. They do so by capturing gene cassettes encoding resistance, yet how these cassettes are generated, the taxa in which they originate, and the range of traits that cassettes can encode have been outstanding questions for 30 years. This project addresses these long standing questions. The project will analyze single bacterial cells to detect newly ....Peril and promise: Origins and spread of integron gene cassettes. Integrons have a major role in spreading antibiotic resistance genes among pathogens. They do so by capturing gene cassettes encoding resistance, yet how these cassettes are generated, the taxa in which they originate, and the range of traits that cassettes can encode have been outstanding questions for 30 years. This project addresses these long standing questions. The project will analyze single bacterial cells to detect newly generated cassettes and assign them to specific taxa, using an innovative method that links cassette DNA to bacterial 16S rDNA. Understanding cassette origins is the key to controlling their activity, both to harness integrons for biotechnology, and to prevent pathogens from acquiring new, dangerous traits. Read moreRead less
The infectome of NSW dairy calves, a genomic microbial surveillance . Infectious diseases are the main cause of disease and mortality in calves. The knowledge of the diversity of infectious disease-causing agents in NSW dairy cattle is not comprehensive. Thus, the immediate goal of this proposal is to redress this knowledge gap using untargeted microbial genomic sequencing to characterise and identify known and emerging enteric and respiratory pathogens in dairy calves. We will determine the occ ....The infectome of NSW dairy calves, a genomic microbial surveillance . Infectious diseases are the main cause of disease and mortality in calves. The knowledge of the diversity of infectious disease-causing agents in NSW dairy cattle is not comprehensive. Thus, the immediate goal of this proposal is to redress this knowledge gap using untargeted microbial genomic sequencing to characterise and identify known and emerging enteric and respiratory pathogens in dairy calves. We will determine the occurrence and distribution of their microbial species across all NSW dairy regions. This will enable the Australian dairy industry to improve animal health and productivity, and diagnostic capacity, which will allow farmers to make informed management decisions about disease control strategies. Read moreRead less
A novel microbial process breaking through the nitrogen cycling. Nitrogen transformation is central to life on Earth. This project will challenge a century-old paradigm that microorganisms must cooperate in a team to convert nitrogen from organic- to inorganic forms. We will carry out the first-ever systematic investigation of a novel process, where a single organism mediates complete ammonification and ammonia oxidation, directly connecting organic- and inorganic nitrogen. By revealing metaboli ....A novel microbial process breaking through the nitrogen cycling. Nitrogen transformation is central to life on Earth. This project will challenge a century-old paradigm that microorganisms must cooperate in a team to convert nitrogen from organic- to inorganic forms. We will carry out the first-ever systematic investigation of a novel process, where a single organism mediates complete ammonification and ammonia oxidation, directly connecting organic- and inorganic nitrogen. By revealing metabolic pathways, characterising ecophysiological properties, isolating key microorganisms and exploring their application potential, this project will change our fundamental understanding of global nitrogen cycling, improve the sustainability of water management, and contribute to the circular economy transitionRead moreRead less
Revolutionising real-time genomic epidemiology in urban wastewater systems. This project aims to develop a real-time and high-resolution genomic tool to monitor and track pathogens in urban wastewater systems based on the portable third-generation sequencing platform. Pathogens sicken hundreds of millions of people, cost the global economy tens of billions of dollars annually, and are one of the leading causes of death worldwide. The current epidemiology approach, and data, are retrospective and ....Revolutionising real-time genomic epidemiology in urban wastewater systems. This project aims to develop a real-time and high-resolution genomic tool to monitor and track pathogens in urban wastewater systems based on the portable third-generation sequencing platform. Pathogens sicken hundreds of millions of people, cost the global economy tens of billions of dollars annually, and are one of the leading causes of death worldwide. The current epidemiology approach, and data, are retrospective and thus insufficient for timely intervention. Integrated with wastewater analysis for pharmaceuticals targeting pathogens, the sewer-based epidemiology approach of this project will greatly enhance public health by achieving early detection and informed control of infectious diseases.Read moreRead less
Can cyanobacteria use organic nutrients to thrive in future oceans? Marine cyanobacteria are central to regulating the global climate and underpin entire marine food webs. Though they possess genes necessary to uptake diverse organic nutrients, we know very little about whether and how organic nutrients shape the physiology and ecology of cyanobacteria. Using our innovative high-throughput approach, this project aims to systematically characterise organic nutrient uptake in picocyanobacteria. O ....Can cyanobacteria use organic nutrients to thrive in future oceans? Marine cyanobacteria are central to regulating the global climate and underpin entire marine food webs. Though they possess genes necessary to uptake diverse organic nutrients, we know very little about whether and how organic nutrients shape the physiology and ecology of cyanobacteria. Using our innovative high-throughput approach, this project aims to systematically characterise organic nutrient uptake in picocyanobacteria. Our molecules-to-ecosystems approach expects to transform our understanding of alternate nutrient acquisition in cyanobacteria and how it may shape populations of these important photosynthetic organisms in a rapidly-changing ocean landscape. Read moreRead less
Do binding proteins allow cyanobacteria to scavenge diverse nutrients? Marine cyanobacteria are abundant primary producers that underlie the entire marine food web. They encode a diverse range of predicted nutrient uptake systems that are highly conserved, suggesting these transporters play critical roles in their success in diverse marine ecosystems. However, there is very limited data regarding their function, specificity and ecological importance. Using our pioneering combinatorial approach, ....Do binding proteins allow cyanobacteria to scavenge diverse nutrients? Marine cyanobacteria are abundant primary producers that underlie the entire marine food web. They encode a diverse range of predicted nutrient uptake systems that are highly conserved, suggesting these transporters play critical roles in their success in diverse marine ecosystems. However, there is very limited data regarding their function, specificity and ecological importance. Using our pioneering combinatorial approach, we will undertake systematic functional characterisation of these nutrient uptake systems and determine their physiological and ecological importance. Our integrative science will provide a molecules-to-ecosystems understanding of cyanobacterial nutrient acquisition.Read moreRead less
Microbial community stability dynamics to environmental triggers. This project aims to advance our knowledge of the structural/functional dynamics of complex microbial communities by defining stability in response to environmental influences such as nutrient stress, pathogen invasion and antibiotics/chemicals. Using innovative microbial consortia modelling, to identify communities at risk of homeostatic disruption, we will develop and test pre-emptive microbial manipulation strategies for restor ....Microbial community stability dynamics to environmental triggers. This project aims to advance our knowledge of the structural/functional dynamics of complex microbial communities by defining stability in response to environmental influences such as nutrient stress, pathogen invasion and antibiotics/chemicals. Using innovative microbial consortia modelling, to identify communities at risk of homeostatic disruption, we will develop and test pre-emptive microbial manipulation strategies for restoring community stability. This project will yield significant global impact and economic/health benefit for humans and animals.Read moreRead less