A5014979573- Genetic diversity and population structure
- Aquaculture disease management and microbiota
- Fish Ecology and Management Studies
- Genomics and Phylogenetic Studies
- Parasite Biology and Host Interactions
- Animal Genetics and Reproduction
- Identification and Quantification in Food
- Genetic and phenotypic traits in livestock
- T-cell and B-cell Immunology
- Aquaculture Nutrition and Growth
- Genetic and Clinical Aspects of Sex Determination and Chromosomal Abnormalities
- Chromosomal and Genetic Variations
- Reproductive biology and impacts on aquatic species
- Immune Cell Function and Interaction
- RNA and protein synthesis mechanisms
- Environmental DNA in Biodiversity Studies
- Molecular Biology Techniques and Applications
- Magnetic properties of thin films
- CAR-T cell therapy research
- Evolution and Genetic Dynamics
- Parasitic Infections and Diagnostics
- Wildlife Ecology and Conservation
- Genetic Mapping and Diversity in Plants and Animals
- CRISPR and Genetic Engineering
- Bacteriophages and microbial interactions
University of Victoria
2016-2025
Universidade Tecnológica Federal do Paraná
2024-2025
Faculdade de Pato Branco
2025
Tri Alpha Energy (United States)
2018-2025
University of British Columbia
2002-2020
Simon Fraser University
2018
Flagstaff Medical Center
2017
KTH Royal Institute of Technology
2011-2017
Laboratoire Informatique d'Avignon
2010
Memorial University of Newfoundland
2008
Abstract The whole-genome duplication 80 million years ago of the common ancestor salmonids (salmonid-specific fourth vertebrate duplication, Ss4R) provides unique opportunities to learn about evolutionary fate a duplicated genome in 70 extant lineages. Here we present high-quality assembly for Atlantic salmon ( Salmo salar ), and show that large genomic reorganizations, coinciding with bursts transposon-mediated repeat expansions, were crucial post-Ss4R rediploidization process. Comparisons...
The human β T cell receptor (TCR) locus, comprising a complex family of genes, has been sequenced. locus contains two types coding elements—TCR elements (65 variable gene segments and clusters diversity, joining, constant segments) eight trypsinogen genes—that constitute 4.6 percent the DNA. Genome-wide interspersed repeats locus-specific span 30 47 percent, respectively, 685-kilobase sequence. A comparison germline with their approximately 300 complementary DNA counterparts reveals marked...
The International Collaboration to Sequence the Atlantic Salmon Genome (ICSASG) will produce a genome sequence that identifies and physically maps all genes in salmon acts as reference for other salmonids.
Abstract Males and females often differ in their fitness optima for shared traits that have a genetic basis, leading to sexual conflict. Morphologically differentiated sex chromosomes can resolve this conflict protect sexually antagonistic variation, but they accumulate deleterious mutations. However, how is resolved species lack largely unknown. Here we present chromosome-anchored genome assembly rainbow trout ( Oncorhynchus mykiss ) characterize 55-Mb double-inversion supergene mediates...
Significance Captive rearing is known to impact the fitness of individuals released in wild, but relative role genetic vs. nongenetic underlying processes still debated. We measured genome-wide methylation profiles document epigenetic differences between Pacific salmon originating from a hatchery and their natural-born congeners two geographically distant rivers. Our results provide evidence that modifications induced by potential explanatory mechanism for reduced hatchery-reared once wild.
We report 80,388 ESTs from 23 Atlantic salmon ( Salmo salar ) cDNA libraries (61,819 ESTs), 6 rainbow trout Oncorhynchus mykiss (14,544 2 chinook tshawytscha (1317 sockeye nerka (1243 and lake whitefish Coregonus clupeaformis (1465 ESTs). The majority of these are 3′ sequences, allowing discrimination between paralogs arising a recent genome duplication in the salmonid lineage. Sequence assembly reveals 28,710 different S. , 8981 O. 1085 520 1176 C. putative transcripts. annotate submitted...
The concept of sequencing by hybridization (SBH) makes use an array all possible n-nucleotide oligomers (n-mers) to identify n-mers present in unknown DNA sequence. Computational approaches can then be used assemble the complete As a validation this concept, sequences three fragments, 343 base pairs length, were determined with octamer oligonucleotides. Possible applications SBH include physical mapping (ordering) overlapping clones, sequence checking, fingerprinting comparisons normal and...
DNA sequence and annotation of the entire human chromosome 7, encompassing nearly 158 million nucleotides 1917 gene structures, are presented. To generate a higher order description, additional structural features such as imprinted genes, fragile sites, segmental duplications were integrated at level with medical genetic data, including 440 rearrangement breakpoints associated disease. This approach enabled discovery candidate genes for developmental diseases autism.
Abstract Background We have developed and fabricated a salmonid microarray containing cDNAs representing 16,006 genes. The genes spotted on the array been stringently selected from Atlantic salmon rainbow trout expressed sequence tag (EST) databases. EST databases presently contain over 300,000 sequences 175 cDNA libraries derived wide variety of tissues different developmental stages. In order to evaluate utility microarray, number hybridization techniques screening methods tested. Results...
Salmonids are one of the most intensely studied fish, in part due to their economic and environmental importance, a recent whole genome duplication common ancestor salmonids. This greatly impacts species diversification, functional specialization, adaptation. Extensive new genomic resources have recently become available for Atlantic salmon (Salmo salar), but documentation allelic versus duplicate reference genes remains major uncertainty complete characterization its evolution.From existing...
Salmonids are of interest because their relatively recent genome duplication, and extensive use in wild fisheries aquaculture. A comprehensive gene list a comparison genes some the different species provide valuable genomic information for one most widely studied groups fish. 298,304 expressed sequence tags (ESTs) from Atlantic salmon (69% total), 11,664 chinook, 10,813 sockeye, 10,051 brook trout, 10,975 grayling, 8,630 lake whitefish, 3,624 northern pike ESTs were obtained this study have...
The Atlantic salmon is a species of commercial and ecological significance. Like other salmonids, the displays residual tetrasomy large difference in recombination rate between sexes. Linkage maps with full genome coverage, containing both type I II markers, are needed for progress genomics. Furthermore, it important to estimate levels linkage disequilibrium (LD) species. In this study, we developed several hundred single nucleotide polymorphism (SNP) markers salmon, constructed male female...
Abstract Background Several genome duplications have occurred in the evolutionary history of teleost fish. In returning to a stable diploid state, polyploid reorganized, and large portions are lost, while fish lines evolved numerous species. Large scale transposon movement has been postulated play an important role reorganization process. We analyzed DNA sequence several loci Salmo salar other species for presence families. Results identified bursts activity 14 families transposons (12...
The northern pike is the most frequently studied member of Esociformes, closest order to diverse and economically important Salmoniformes. ancestor all salmonids purportedly experienced a whole-genome duplication (WGD) event, making salmonid species ideal for studying early impacts genome while complicating their use in wider analyses teleost evolution. Studies suggest that Esociformes diverged from lineage prior WGD, supporting as pre-duplication outgroup. Here we present first assembly,...
Abstract New computational methods and next‐generation sequencing (NGS) approaches have enabled the use of thousands or hundreds genetic markers to address previously intractable questions. The massive marker sets present both new data analysis challenges opportunities visualize, understand, apply population conservation genomic in novel ways. large scale complexity NGS also increases expertise effort required thoroughly thoughtfully analyze interpret data. To aid this endeavor, a recent...