A5005232594- Genetic Mapping and Diversity in Plants and Animals
- Soybean genetics and cultivation
- Legume Nitrogen Fixing Symbiosis
- Mitochondrial Function and Pathology
- Genomics and Phylogenetic Studies
- Photosynthetic Processes and Mechanisms
- Wheat and Barley Genetics and Pathology
- Forest Insect Ecology and Management
- Genetic and phenotypic traits in livestock
- Insect and Pesticide Research
- Plant Disease Resistance and Genetics
- Genetics and Plant Breeding
- Genetic Associations and Epidemiology
- Insect and Arachnid Ecology and Behavior
- Chromosomal and Genetic Variations
- Plant responses to water stress
- Ion channel regulation and function
- Nutrition, Genetics, and Disease
- Genetic and Environmental Crop Studies
- Genetics, Bioinformatics, and Biomedical Research
- Autophagy in Disease and Therapy
- Machine Learning in Bioinformatics
- Cancer-related molecular mechanisms research
- Plant Molecular Biology Research
- Cardiac electrophysiology and arrhythmias
The University of Western Australia
2015-2024
ARC Centre of Excellence in Plant Energy Biology
2017-2024
Australian Research Council
2015-2020
Leibniz University Hannover
2017
University of Nevada, Reno
2017
Recent growth in crop genomic and trait data have opened opportunities for the application of novel approaches to accelerate improvement. Machine learning deep are at forefront prediction-based analysis. However, few genotype phenotype prediction compare machine with further interpret models that support predictions. This study uses genome wide molecular markers traits across 1110 soybean individuals develop accurate models. For 13/14 sets predictions, XGBoost or random forest outperformed...
Genomic selection approaches have increased the speed of plant breeding, leading to growing crop yields over last decade. However, climate change is impacting current and future yields, resulting in need further accelerate breeding efforts cope with these changing conditions. Here we present incorporate nonadditive effects genomic by applying state-of-the-art machine learning approaches. These are made more powerful inclusion pangenomes, which represent entire genome content a species....
Abstract Bread wheat ( Triticum aestivum L.) is one of humanity's most important staple crops, characterized by a large and complex genome with high level gene presence–absence variation (PAV) between cultivars, hampering genomic approaches for crop improvement. With the growing global population increasing impact climate change on yield, there an urgent need to apply accelerate breeding. recent advances in DNA sequencing technology, number high‐quality reference genomes are becoming...
Protein homeostasis in eukaryotic organelles and their progenitor prokaryotes is regulated by a series of proteases including the caseinolytic protease (CLPP). CLPP has essential roles chloroplast biogenesis maintenance, but significance plant mitochondrial remains unknown factors that aid coordination nuclear- mitochondrial-encoded subunits for complex assembly mitochondria await discovery. We generated knockout lines single gene CLP subunit, CLPP2, Arabidopsis (Arabidopsis thaliana)....
The major soy protein QTL, cqProt-003, was analysed for haplotype diversity and global distribution, results indicate 304 bp deletion variable tandem repeats in coding regions are likely causal candidates. Here, we present association linkage analysis of 985 wild, landrace cultivar soybean accessions a pan genomic dataset to characterize the high-protein/low-oil associated locus cqProt-003 located on chromosome 20. A significant trait-associated region within 173 kb block identified,...
Precursor proteins containing mitochondrial peptide signals are cleaved after import by a processing peptidase. In yeast (Saccharomyces cerevisiae) and human (Homo sapiens), INTERMEDIATE CLEAVAGE PEPTIDASE55 (ICP55) plays role in stabilizing the removal of single amino acids from peptidase-processed proteins. We have investigated metallopeptidase (At1g09300) Arabidopsis (Arabidopsis thaliana) that has sequence similarity to ICP55. identified this protein mitochondria mass spectrometry...
The mountain pine beetle (MPB, Dendroctonus ponderosae Hopkins) is a highly destructive pest of forests in western North America. During flight to new host tree and initiation feeding, beetles release aggregation pheromones. biosynthetic pathways these pheromones are sex-specific localized the midgut fat body, but enzymes involved have not all been identified or characterized. We used comparative RNA-Seq analysis between fed unfed male female MPB midguts bodies identify candidate genes...
Pod dehiscence is a major source of yield loss in legumes, which exacerbated by aridity. Disruptive mutations "Pod indehiscent 1" (PDH1), pod sclerenchyma-specific lignin biosynthesis gene, has been linked to significant reductions several legume species. We compared syntenic PDH1 regions across 12 legumes and two outgroups uncover key historical evolutionary trends at this important locus. Our results clarified the extent orthologs are present showing typical genomic context surrounding...
Copy number variations (CNVs) are defined as deletions, duplications and insertions among individuals of a species. There is growing evidence that CNV major factor underlining various autoimmune disorders diseases in humans; however, plants, especially oilseed crops, the role CNVs disease resistance not well studied. Here, we investigate genome-wide diversity genetic properties gene analogues (RGAs) across eight Brassica napus lines. A total 1137 events (704 deletions 433 duplications) were...
Abstract The “Fight or Flight” response is elicited by extrinsic stress and necessary in many species for survival. involves activation of the β-adrenergic signalling pathway. Surprisingly mechanisms have remained unresolved. Calcium influx through cardiac L-type Ca 2+ channel (Ca v 1.2) absolutely required. Here we identify functionally relevant site PKA phosphorylation on human pore forming α1 subunit using a novel approach. We used cell free system where could assess direct effects...
Multiple studies have shown ribulose-1,5-bisphosphate carboxylase/oxygenase (E.C. 4.1.1.39; Rubisco) to be subject Lys-acetylation at various residues; however, opposing reports exist about the biological significance of these post-translational modifications. One aspect that has not been addressed in plants generally, or with Rubisco specifically, is stoichiometry which events occur. As a method ascertain sites on Arabidopsis might regulatory importance its catalytic function Calvin-Benson...
In eukaryotes the presence of dimeric phospholipid cardiolipin is limited to mitochondrial membranes. It resides predominantly in inner membrane where it interacts with components electron transfer chain. Cardiolipin deficiency has previously been shown affect abundances plant NADH-dehydrogenase complex and its association cyctochrome c reductase. Using an Arabidopsis thaliana knock-out mutant for final enzyme biosynthesis we here extend current knowledge on dependence respiration...
Caseinolytic protease (CLPP) is an energy-dependent serine-type that plays a role in protein quality control. The CLPP gene highly conserved across kingdoms and the present both bacteria eukaryote organelles like mitochondria wide phylogenetic range. This pedigree has all hallmarks of being essential gene. However, plants, disruption mitochondrial no impact on its growth, reminiscent nonessential some model fungi. Deletion improves health increased life span filamentous fungus, Podospora...
Gene models are regions of the genome that can be transcribed into RNA and translated to proteins, or belong a class non-coding genes. The prediction gene is complex process unreliable, leading false positive annotations. To help support calling confident conserved minimize positives arising during model we have developed Truegene, machine learning approach classify potential low confidence using 14 41 protein-based characteristics. Amino acid nucleotide sequence-based features were...
Abstract Wheat ( Triticum aestivum ) is considered anoxia intolerant but it shows variance in responses between genotypes and environmental treatments. We firstly examined 4 day old seedlings of five wheat response to at 15 °C 28 by assessing growth rate, tissue damage changes metabolite abundances. Significant genotypic variations tolerance were observed, especially °C. grown appeared be more tolerant showed less variation than those To minimize seedling size define the temperature effects,...
Abstract The availability of increasing quantities crop pangenome data permits the detailed association gene content with agronomic traits. Here, we investigate disease resistance diverse soybean cultivars and report a significant negative correlation between number NLR ( R ) genes yield. We find no R- seed weight, oil or protein content, yield RLK, RLP genes, total genes. These results suggest that recent improvement in may be partially associated selective loss Three quarters do not show...