4 Works
Data from: Use of genotyping-by-sequencing data to develop a high-throughput and multi-functional SNP panel for conservation applications in Pacific lamprey
Jon E. Hess, Nathan R. Campbell, Margaret F. Docker, Cyndi Baker, Aaron Jackson, Ralph Lampman, Brian McIlraith, Mary L. Moser, David P. Statler, William P. Young, Andrew J. Wildbill & Shawn R. Narum
Next generation sequencing data can be mined for highly informative single nucleotide polymorphisms (SNPs) to develop high-throughput genomic assays for non-model organisms. However, choosing a set of SNPs to address a variety of objectives can be difficult because SNPs are often not equally informative. We developed an optimal combination of 96 high-throughput SNP assays from a total of 4,439 SNPs identified in a previous study of Pacific lamprey (Entosphenus tridentatus), and used them to address...
Data from: Genes predict long distance migration and large body size in a migratory fish, Pacific lamprey
Jon E. Hess, Christopher C. Caudill, Matthew L. Keefer, Brian J. McIlraith, Mary L. Moser & Shawn R. Narum
Elucidation of genetic mechanisms underpinning migratory behavior could help predict how changes in genetic diversity may affect future spatiotemporal distribution of a migratory species. This ability would benefit conservation of one such declining species, anadromous Pacific lamprey (Entosphenus tridentatus). Nonphilopatric migration of adult Pacific lamprey has homogenized population-level neutral variation but has maintained adaptive variation that differentiates groups based on geography, run-timing and adult body form. To investigate causes for this adaptive divergence, we examined...
Data from: Evaluating adaptive divergence between migratory and non-migratory ecotypes of a salmonid fish, Oncorhynchus mykiss
Matthew C. Hale, Frank P. Thrower, Ewann A. Berntson, Michael R. Miller & Krista M. Nichols
Next generation sequencing and the application of population genomic and association approaches have made it possible to detect selection and unravel the genetic basis to variable phenotypic traits. Using the two approaches in parallel is an especially attractive approach in non-models organisms that lack a sequenced and annotated genome, but only works well when population structure is not confounded with the phenotype of interest. Herein, we use population genomics in a non-model fish species, rainbow...
Data from: Intermittent breeding and constraints on litter size: consequences for effective population size per generation (Ne) and per reproductive cycle (Nb)
Robin S. Waples & Tiago Antao
In iteroparous species, it is easier to estimate Nb = effective number of breeders in one reproductive cycle than Ne = effective population size per generation. Nb can be used as a proxy for Ne and also can provide crucial insights into eco-evolutionary processes that occur during reproduction. We used analytical and numerical methods to evaluate effects of intermittent breeding and litter/clutch size on inbreeding Nb and Ne. Fixed or random litter sizes ≥ 3...