A5063522743- Genetic and phenotypic traits in livestock
- Genetic Mapping and Diversity in Plants and Animals
- Genomics and Phylogenetic Studies
- Animal Genetics and Reproduction
- Adipose Tissue and Metabolism
- Cancer-related molecular mechanisms research
- Aquaculture Nutrition and Growth
- Effects of Environmental Stressors on Livestock
- Genetic diversity and population structure
- Chromosomal and Genetic Variations
- Fish Ecology and Management Studies
- Invertebrate Immune Response Mechanisms
- Vector-Borne Animal Diseases
- Meat and Animal Product Quality
- RNA and protein synthesis mechanisms
- Molecular Biology Techniques and Applications
- Viral Infections and Vectors
- Aquaculture disease management and microbiota
- RNA Research and Splicing
- Genetic and Clinical Aspects of Sex Determination and Chromosomal Abnormalities
- Marine Bivalve and Aquaculture Studies
- Adipokines, Inflammation, and Metabolic Diseases
- Peroxisome Proliferator-Activated Receptors
- Gene expression and cancer classification
- Biopolymer Synthesis and Applications
Commonwealth Scientific and Industrial Research Organisation
2014-2024
Agriculture and Food
2018-2024
James Cook University
2022
Animal, Food and Health Sciences
2014-2019
The University of Queensland
2019
Cooperative Research Centre for Beef Genetic Technologies
2005-2010
Health Sciences and Nutrition
2005
Royal Children's Hospital
1991-1992
This study describes comprehensive polling of transcription start and termination sites analysis previously unidentified full-length complementary DNAs derived from the mouse genome. We identify 5' 3' boundaries 181,047 transcripts with extensive variation in arising alternative promoter usage, splicing, polyadenylation. There are 16,247 new protein-coding transcripts, including 5154 encoding proteins. Genomic mapping transcriptome reveals transcriptional forests, overlapping on both...
A survey of genetic diversity cattle suggests two domestication events in Asia and selection by husbandry.
Sheep (Ovis aries) are a major source of meat, milk, and fiber in the form wool represent distinct class animals that have specialized digestive organ, rumen, carries out initial digestion plant material. We developed analyzed high-quality reference sheep genome transcriptomes from 40 different tissues. identified highly expressed genes encoding keratin cross-linking proteins associated with rumen evolution. also involved lipid metabolism had been amplified and/or altered tissue expression...
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...
Deposition of intramuscular fat, or "marbling," in beef cattle contributes significantly to meat quality variables, including juiciness, flavor, and tenderness. The accumulation fat is largely influenced by the genetic background cattle, as well their age nutrition. To identify genes that can be used early biomarkers for prediction marbling capacity, we studied muscle transcriptome 2 crossbreeds with contrasting content. transcriptomes LM tissue heifers from Wagyu x Hereford (WxH; n = 6)...
Background Giant freshwater prawn (Macrobrachium rosenbergii or GFP), is the most economically important crustacean species. However, as little known about its genome, 454 pyrosequencing of cDNA was undertaken to characterise transcriptome and identify genes for growth. Methodology Principal Findings A collection 787,731 sequence reads (244.37 Mb) obtained from analysis prepared muscle, ovary testis tissues taken 18 adult prawns assembled into 123,534 expressed tags (ESTs). Of these, 46%...
The identification of genes influencing fitness is central to our understanding the genetic basis adaptation and how it shapes phenotypic variation in wild populations. Here, we used whole-genome resequencing Rocky Mountain bighorn sheep (Ovis canadensis) >50-fold coverage identify 2.8 million single nucleotide polymorphisms (SNPs) genomic regions bearing signatures directional selection (i.e. selective sweeps). A comparison SNP diversity between X chromosome autosomes indicated that males...
Abstract Domestication fundamentally reshaped animal morphology, physiology and behaviour, offering the opportunity to investigate molecular processes driving evolutionary change. Here we assess sheep domestication artificial selection by comparing genome sequence from 43 modern breeds ( Ovis aries ) their Asian mouflon ancestor O. orientalis identify sweeps. Next, provide a comparative functional annotation of genome, validated using experimental ChIP-Seq tissue. Using these annotations,...
MicroRNAs (miRNAs) are a rapidly growing family of small regulatory RNAs modulating gene expression in plants and animals. In animals, most the miRNAs discovered early studies were found to be evolutionarily conserved across whole kingdom. More recent studies, however, have identified many that specific particular group organisms or even single species. These present question about evolution individual their role establishing maintaining lineage-specific functions characteristics.
Expression profiling using microarrays allows for the detailed characterization of gene networks that regulate an animal's response to environmental stresses. During nutritional restriction, processes such as protein turnover, connective tissue remodeling, and muscle atrophy take place in skeletal animal. These their regulation are interest context managing livestock optimal production efficiency product quality. Here we expand on recent research applying complementary DNA (cDNA) microarray...
Is it possible to construct an accurate and detailed subgene-level map of a genome using bacterial artificial chromosome (BAC) end sequences, sparse marker map, the sequences other genomes? A sheep BAC library, CHORI-243, was constructed were determined mapped with high sensitivity low specificity onto frameworks human, dog, cow genomes. To maximize coverage, coordinates all sequence hits dog genomes also converted equivalent human coordinates. The 84,624 BACs (about 5.4-fold coverage)...
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...
Abstract Teleost fish exhibit a remarkable diversity in the control of sex determination, offering opportunity to identify novel differentiation mechanisms and their ecological consequences. Here, we perform GWAS using 4715 46,501 SNP map determination three separate genomic locations Atlantic salmon ( Salmo salar ). To characterize each, whole genome sequencing was performed 30-fold depth coverage 20 representing each identified lineages. polymorphism reveals male carry single copy specific...
The callipyge mutation in sheep results postnatal skeletal muscle hypertrophy the pelvic limbs and loins with little or no effect on anterior muscles. Associated phenotype are changes expression of a number imprinted genes flanking site mutation, which lies an intergenic region at telomeric end ovine chromosome 18. manner these local gene translated into is not known. Microarray-based transcriptional profiling was used to identify differentially expressed longissimus dorsi samples taken...
Custom-built single-nucleotide-polymorphism (SNP) marker systems that are compatible with Sequenom® chemistry compared a general purpose microsatellite system in their ability to accurately assign Black Tiger shrimp parentage. The consisted of 13 markers, while the SNP comprised 63 (SNPa), 59 (SNPb) or 122 markers (SNPab). Comparisons were made using animals from commercial breeding lines thresholds for assignment derived simulated genotypes. Pedigree was highest when panel SNPab used. Panel...
A key developmental transformation in the life of all vertebrates is transition to sexual maturity, whereby individuals are capable reproducing for first time. In farming Atlantic salmon, early maturation prior harvest size has serious negative production impacts.We report genome wide association studies (GWAS) using fish measured freshwater or marine environment. Genotypic data from a custom 50 K single nucleotide polymorphism (SNP) array was used identify 13 significantly associated SNP...
Abstract Motivation: Clusters of genes encoding proteins with related functions, or in the same regulatory network, often exhibit expression patterns that are correlated over a large number conditions. Protein associations and gene networks can be modelled from data. We address question which several normalization methods is optimal prior to computing correlation profiles between every pair genes. Results: use data five experiments total 78 hybridizations 23 diverse Nine explored based on...
Abstract Background Microarray transcript profiling has the potential to illuminate molecular processes that are involved in responses of cattle disease challenges. This knowledge may allow development strategies exploit these genes enhance resistance an individual or animal population. Results The Bovine Innate Immune developed this study consists 1480 characterised identified by literature searches, 31 positive and negative control elements 5376 cDNAs derived from subtracted normalised...
Extending genome wide association analysis by the inclusion of gene expression data may assist in dissection complex traits. We examined piebald, a pigmentation phenotype both human and Merino sheep, analysing multiple types using systems approach. First, case control 49,034 ovine SNP was performed which confirmed multigenic basis for condition. combined these results with from five tissue analysed skin-specific microarray. Promoter sequence differentially expressed genes allowed us to...
Previous genome-wide association analyses identified QTL regions in the X chromosome for percentage of normal sperm and scrotal circumference Brahman Tropical Composite cattle. These traits are important to be studied because they indicators male fertility correlated with female sexual precocity reproductive longevity. The aim was investigate candidate genes these identify putative causative mutations that influence traits. In addition, we tested growth Using a combination bioinformatics...