A5043315317- Genomics and Phylogenetic Studies
- Genetics, Bioinformatics, and Biomedical Research
- Research Data Management Practices
- Cancer-related molecular mechanisms research
- RNA and protein synthesis mechanisms
- Biomedical and Engineering Education
- Scientific Computing and Data Management
- Chromosomal and Genetic Variations
- Environmental DNA in Biodiversity Studies
- Insect Resistance and Genetics
- Molecular Biology Techniques and Applications
- Viral Infectious Diseases and Gene Expression in Insects
- Leptospirosis research and findings
- Cancer Genomics and Diagnostics
- Bacteriophages and microbial interactions
- Gene expression and cancer classification
- Plant Virus Research Studies
- Genetic and phenotypic traits in livestock
- Veterinary medicine and infectious diseases
- Innovative Teaching and Learning Methods
- Dementia and Cognitive Impairment Research
- Insect-Plant Interactions and Control
- Forensic Entomology and Diptera Studies
- Wnt/β-catenin signaling in development and cancer
- Kruppel-like factors research
Queensland University of Technology
2024
Commonwealth Scientific and Industrial Research Organisation
2012-2024
Data61
2016-2024
ACT Government
2016-2021
EMBL Australia
2019
Australia Bioinformatics Resource
2019
Monash University
2019
The University of Adelaide
2016
Australian Centre for Plant Functional Genomics
2016
Bioplatforms Australia
2016
To make full use of research data, the bioscience community needs to adopt technologies and reward mechanisms that support interoperability promote growth an open 'data commoning' culture. Here we describe prerequisites for data commoning present established growing ecosystem solutions using shared 'Investigation-Study-Assay' framework vision.
Leptospira biflexa is a free-living saprophytic spirochete present in aquatic environments. We determined the genome sequence of L. biflexa, making it first to be sequenced. The has 3,590 protein-coding genes distributed across three circular replicons: major 3,604 chromosome, smaller 278-kb replicon that also carries essential genes, and third 74-kb replicon. Comparative analysis provides evidence an excellent model for study evolution; we conclude 2052 (61%) represent progenitor existed...
Leptospirosis is one of the most common zoonotic diseases in world, resulting high morbidity and mortality humans affecting global livestock production. Most infections are caused by either Leptospira borgpetersenii or interrogans, bacteria that vary their distribution nature rely on different modes transmission. We report complete genomic sequences two strains L. serovar Hardjo have distinct phenotypes virulence. These nearly identical genetic content, with subtle frameshift point mutations...
The genetic structure of sheep reflects their domestication and subsequent formation into discrete breeds. Understanding is essential for achieving improvement through genome-wide association studies, genomic selection the dissection quantitative traits. After identifying first set SNP sheep, we report on levels variability both within between a diverse sample ovine populations. Then, using cluster analysis partitioning variation, demonstrate are characterised by weak phylogeographic...
Helicoverpa armigera and zea are major caterpillar pests of Old New World agriculture, respectively. Both, particularly H. armigera, extremely polyphagous, has developed resistance to many insecticides. Here we use comparative genomics, transcriptomics resequencing elucidate the genetic basis for their properties as pests.
Lupins are important grain legume crops that form a critical part of sustainable farming systems, reducing fertilizer use and providing disease breaks. It has basal phylogenetic position relative to other crop model legumes high speciation rate. Narrow-leafed lupin (NLL; Lupinus angustifolius L.) is gaining popularity as health food, which in protein dietary fibre but low starch gluten-free. We report the draft genome assembly (609 Mb) NLL cultivar Tanjil, captured >98% gene content,...
Abstract Background We present the genome sequence of tammar wallaby, Macropus eugenii , which is a member kangaroo family and first representative iconic hopping mammals that symbolize Australia to be sequenced. The has many unusual biological characteristics, including longest period embryonic diapause any mammal, extremely synchronized seasonal breeding prolonged sophisticated lactation within well-defined pouch. Like other marsupials, it gives birth highly altricial young, small number...
Abstract Summary: Rapid technological advances have led to an explosion of biomedical data in recent years. The pace change has inspired new collaborative approaches for sharing materials and resources help train life scientists both the use cutting-edge bioinformatics tools databases how analyse interpret large datasets. A prototype platform such training was recently created by Bioinformatics Training Network (BTN). Building on this work, we a centralized portal courses, including...
The nucleotide sequence of the Heliothis virescens ascovirus (HvAV-3e) DNA genome was determined and characterized in this study. circular consists 186,262 bp, has a G+C content 45.8 mol% encodes 180 potential open reading frames (ORFs). Five unique homologous regions (hrs), 23 'baculovirus repeat ORFs' (bro) genes encoding caspase homologue several enzymes involved replication metabolism were found genome. Several (AV)-, iridovirus- baculovirus-homologous identified. is significantly larger...
Abstract Thanks to sequencing technology, modern molecular bioscience datasets are often compositions of counts, e.g. counts amplicons, mRNAs, etc. While there is growing appreciation that compositional data need special analysis and interpretation, less well understood the discrete nature these count (or, as we call them, lattice compositions) impact this has on statistical analysis, particularly log-ratio (LRA) pairwise association. LRA methods scale-invariant, not; consequently,...
Abstract Most catchments discharging into the Great Barrier Reef lagoon have elevated loads of suspended sediment, nutrients, and pesticides, including photosystem II inhibiting herbicides, associated with upstream agricultural land use. To investigate potential impacts declining water quality on fish physiology, RNA sequencing (RNASeq) was used to characterize compare hepatic transcriptomes barramundi ( Lates calcarifer) captured from 2 these tropical river in Queensland, Australia. The...
Abstract Wild abalone (Family Haliotidae) populations have been severely affected by commercial fishing, poaching, anthropogenic pollution, environment and climate changes. These issues stimulated an increase in aquaculture production; however production growth has slow due to a lack of genetic knowledge resources. We sequenced draft genome for the commercially important temperate Australian ‘greenlip’ (Haliotis laevigata, Donovan 1808) generated 11 tissue transcriptomes from female adult...
Demand for training life scientists in bioinformatics skills led to the development of a train-the-trainer collaboration between European Molecular Biology Laboratory–European Bioinformatics Institute (EMBL-EBI) and 2 Australian organisations, Bioplatforms Australia Commonwealth Scientific Industrial Research Organisation (CSIRO) 2012. The goal was establish group trained instructors who could develop deliver short courses nationally. A course introduces aspects andragogy evidence-based...
Abstract Natural history collections are repositories of biodiversity and potentially used by molecular ecologists for comparative taxonomic, phylogenetic, biogeographic forensic purposes. Specimens in fish preserved using a combination methods with many fixed formalin then ethanol long‐term storage. Formalin fixation damages DNA, thereby limiting genetic analyses. In this study, the authors compared DNA barcoding identification success frozen formalin‐fixed tissues obtained from specimens...
The widespread adoption of high-throughput next-generation sequencing (NGS) technology among the Australian life science research community is highlighting an urgent need to up-skill biologists in tools required for handling and analysing their NGS data. There currently a shortage cutting-edge bioinformatics training courses Australia as consequence scarcity skilled trainers with time funding develop deliver courses. To address this, consortium organizations, including Bioplatforms...
The Australian sheep blowfly Lucilia cuprina (Wiedemann) (Diptera: Calliphoridae) is a destructive pest of the sheep, model organism for insecticide resistance research, and valuable tool medical forensic professionals. However, genomic information on L. still sparse.We report here construction an embryonic 2 larval cDNA libraries cuprina. A total 29,816 expressed sequence tags (ESTs) were obtained assembled into 7,464 unique clusters. collection captures great diversity genes, including...
The Bioinformatics Training Platform (BTP) has been developed to provide access the computational infrastructure required deliver sophisticated hands-on bioinformatics training courses. BTP is a cloud-based solution that in active use for delivering next-generation sequencing Australian researchers at geographically dispersed locations. was built an easy, accessible, consistent and cost-effective approach workshops host universities organizations with high demand but lacking dedicated suites...
Non-coding RNA (ncRNA) is involved in many biological processes and diseases all species. Many ncRNA datasets exist that provide data FASTA format which well suited for biomedical purposes. However, analysis classification, statistical learning methods require hidden numerical features from the data. Furthermore, literature, a wealth of sequence intrinsic has been proposed identification. The extraction features, their analysis, usage suitable set crucial performance any method. To alleviate...