A5002523322- Genetic and phenotypic traits in livestock
- Genetic Mapping and Diversity in Plants and Animals
- Aquaculture Nutrition and Growth
- Helminth infection and control
- Cancer-related molecular mechanisms research
- Genetic diversity and population structure
- Animal Genetics and Reproduction
- Animal Behavior and Welfare Studies
- Parasite Biology and Host Interactions
- Animal Disease Management and Epidemiology
- Coccidia and coccidiosis research
- Parasites and Host Interactions
- Meat and Animal Product Quality
- Genetics and Plant Breeding
- Aquaculture disease management and microbiota
- Invertebrate Immune Response Mechanisms
- Genomics and Phylogenetic Studies
- Microbial infections and disease research
- Marine Bivalve and Aquaculture Studies
- Adipose Tissue and Metabolism
- Milk Quality and Mastitis in Dairy Cows
- Veterinary Equine Medical Research
- Crustacean biology and ecology
- Animal Nutrition and Physiology
- Insect and Pesticide Research
The University of Sydney
2015-2024
James Cook University
2015-2022
Australian Research Council
2018-2020
Dairy Australia (Australia)
2009
Center for Indonesian Veterinary Analytical Studies
2009
Commonwealth Scientific and Industrial Research Organisation
2007
Through their domestication and subsequent selection, sheep have been adapted to thrive in a diverse range of environments. To characterise the genetic consequence both we genotyped 49,034 SNP 2,819 animals from collection 74 breeds. We find majority populations contain high diversity retained an effective population size much higher than most cattle or dog breeds, suggesting occurred broad base. Extensive haplotype sharing generally low divergence time between breeds reveal frequent...
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...
The extent of linkage disequilibrium (LD) within a population determines the number markers that will be required for successful association mapping and marker-assisted selection. Most studies on LD in cattle reported to date are based microsatellite or small numbers single nucleotide polymorphisms (SNPs) covering one only few chromosomes. This is first comprehensive study by analyzing data 1,546 Holstein-Friesian bulls genotyped 15,036 SNP all regions autosomes. Furthermore, most have used...
Genomic selection (GS) uses molecular breeding values (MBV) derived from dense markers across the entire genome for of young animals. The accuracy MBV prediction is important a successful application GS. Recently, several methods have been proposed to estimate MBV. Initial simulation studies shown that these can accurately predict In this study we compared accuracies and possible bias five different regression in an empirical dairy cattle. Genotypes 7,372 SNP highly accurate EBV 1,945 bulls...
High-throughput sequencing and single nucleotide polymorphism (SNP) genotyping can be used to infer complex population structures. Fine-scale structure analysis tracing individual ancestry remains one of the major challenges. Based on network theory recent advances in SNP chip technology, we investigated an unsupervised clustering method called Super Paramagnetic Clustering (Spc). When applied whole-genome marker data it identifies natural divisions groups individuals into clusters without...
Network-based approaches are emerging as valuable tools for the analysis of complex genetic structure in wild and captive populations. netview p combines data quality control with construction population networks through mutual k-nearest neighbours thresholds applied to genome-wide SNPs. The program is cross-platform compatible, open-source efficiently operates on ranging from hundreds thousands pipeline was used pedigree simulated (n = 750, SNPs 1279) silver-lipped pearl oysters 415, 1107),...
Discerning the traits evolving under neutral conditions from those rapidly because of various selection pressures is a great challenge. We propose new method, composite signals (CSS), which unifies multiple pieces evidence rank distribution its diverse constituent tests. The extreme CSS scores capture highly differentiated loci and underlying common variants hauling excess haplotype homozygosity in samples target population. data on high-density genotypes were analyzed for an association...
At the current price, use of high-density single nucleotide polymorphisms (SNP) genotyping assays in genomic selection dairy cattle is limited to applications involving elite sires and dams. The objective this study was evaluate low-density predict direct value (DGV) on five milk production traits, an overall conformation trait, a survival index, two profit index traits (APR, ASI). Dense SNP genotypes were available for 42,576 2,114 Holstein bulls 510 cows. A subset 1,847 born between 1955...
We investigated strategies and factors affecting accuracy of imputing genotypes from lower-density SNP panels (Illumina 3K, 7K, Affymetrix 15K 25K, evenly spaced subsets) up to one medium 50K) high-density 800K) panel. also evaluated the utility imputed on genomic selection using Australian Holstein-Friesian cattle data 2727 845 animals genotyped with 50K 800K chip, respectively. Animals were divided into reference test sets (genotyped higher lower density panels, respectively) for...
Abstract Analysis of data on 1000 Holstein–Friesian bulls genotyped for 15,036 single-nucleotide polymorphisms (SNPs) has enabled genomewide identification haplotype blocks and tag SNPs. A final subset 9195 SNPs in Hardy–Weinberg equilibrium mapped autosomes the bovine sequence assembly (release Btau 3.1) was used this study. The average intermarker spacing 251.8 kb. minor allele frequency (MAF) 0.29 (0.05–0.5). Following recent precedents human HapMap studies, a block defined where 95%...
The black tiger shrimp (Penaeus monodon) remains the second most widely cultured species globally; however, issues with disease and domestication have seen production levels stagnate over past two decades. To help identify innovative solutions needed to resolve bottlenecks hampering culture of this species, it is important generate genetic genomic resources. Towards aim, we produced complete publicly available P. monodon transcriptome database date based on nine adult tissues eight early...
Past breeding strategies for dairy cattle have been very effective in producing rapid genetic gain to achieve industry targets and raise profitability. Such gains largely facilitated by intense selection of sires combined with the use artificial insemination. However, this practice can potentially limit level diversity through inbreeding plateaus. The rate Australia is increasing, primarily as a result semen importation from small number prominent bulls USA. effect influx Australian...
In this study, a highly significant quantitative trait locus (QTL) for meat percentage, eye muscle area (EMA) and silverside percentage was found on cattle chromosome 2 at 0-15 cM, region containing the positional candidate gene growth differentiation factor 8 (GDF8), which has common alias myostatin (MSTN). Loss-of-function mutations in MSTN are known to cause an extreme 'double muscling' phenotype cattle. associations of with carcass traits were using maternally inherited haplotypes from...