Publications by authors named "G O Storvik"
Graph-based representations are considered to be the future for reference genomes, as they allow integrated representation of the steadily increasing data on individual variation. Currently available tools allow de novo assembly of graph-based reference genomes, alignment of new read sets to the graph representation as well as certain analyses like variant calling and haplotyping. We here present a first method for calling ChIP-Seq peaks on read data aligned to a graph-based reference genome.
View Article and Find Full Text PDFBackground: It has been proposed that future reference genomes should be graph structures in order to better represent the sequence diversity present in a species. However, there is currently no standard method to represent genomic intervals, such as the positions of genes or transcription factor binding sites, on graph-based reference genomes.
Results: We formalize offset-based coordinate systems on graph-based reference genomes and introduce methods for representing intervals on these reference structures.
Article Synopsis
- Identifying the spatial scale of population structuring is essential for effective conservation efforts and accurate ecological understanding, yet studies often rely on aggregated data, which can overlook important population dynamics.
- This study used dynamic, age-structured models to analyze coastal Atlantic cod populations, comparing a single-population assumption with a model allowing for unique local dynamics in different fjords, based on over 90 years of survey data.
- Results indicated that the spatially structured model provided better predictions and revealed significant differences in population trends and parameters among fjords, highlighting that declines in cod biomass and recruitment issues were closely linked to local environmental changes and fishing pressures.
Article Synopsis
- The debate continues on how density dependence and life history evolution impact fish trait changes, especially in exploited stocks like the northeast Arctic cod.
- In the 1930s, the switch from traditional fishing to industrial trawling drastically changed the cod population, leading to earlier maturation and shorter size, trends also seen in other species worldwide.
- Using a multitrait eco-evolutionary model, researchers found that the degree of density dependence affects predictions on fish maturation, suggesting that stronger density dependence may lessen the role of evolution in these observed changes.