Gender differences for growth in North American Atlantic salmon.

An assumption in aquaculture of Atlantic salmon is that male and female growth within families is perfectly genetically correlated. That is, families would rank identically if based on male growth only or female growth only. Also, growth in freshwater and sea water is assumed to be highly correlated between males and females within families. However, structural analysis of the DNA of Atlantic salmon has found that the linkage maps of females differ significantly from that of males. Genetic variability for any trait measured on females could be greater or lesser than on males. Thus, male and female growth might be considered as separate traits giving rise to families ranking differently depending on gender. A multiple trait family model for weight and length at 3 years of age in Atlantic salmon according to gender was applied to data on North American Atlantic salmon obtained from the Oak Bay Hatchery in New Brunswick, Canada. Genetic correlations between male and female growth in both freshwater and sea water were estimated by Bayesian methods. The estimates support the possible existence of gender dimorphism in North American Atlantic salmon for growth traits.

Changes in the selection differential exerted on a marine snail during the ontogeny of a predatory shore crab.

Empirical estimates of selection gradients caused by predators are common, yet no one has quantified how these estimates vary with predator ontogeny. We used logistic regression to investigate how selection on gastropod shell thickness changed with predator size. Only small and medium purple shore crabs (Hemigrapsus nudus) exerted a linear selection gradient for increased shell-thickness within a single population of the intertidal snail (Littorina subrotundata). The shape of the fitness function for shell thickness was confirmed to be linear for small and medium crabs but was humped for large male crabs, suggesting no directional selection. A second experiment using two prey species to amplify shell thickness differences established that the selection differential on adult snails decreased linearly as crab size increased. We observed differences in size distribution and sex ratios among three natural shore crab populations that may cause spatial and temporal variation in predator-mediated selection on local snail populations.

Conservation genomics of Atlantic salmon: SNPs associated with QTLs for adaptive traits in parr from four trans-Atlantic backcrosses.

European Atlantic salmon (Salmo salar) differ in skin pigmentation and shape from the North American lineage of Atlantic salmon but the genetic basis of these differences are poorly understood. We created four large (N=300) backcross families by crossing F1 hybrid male siblings to two females from the European and two from the North American aquacultural strains. We recorded 15 morphological landmarks and two skin pigmentation, three growth and three condition traits on parr. The backcross families were genotyped for at least 129 SNPs (single nucleotide polymorphisms) within expressed sequence tags (ESTs) spaced throughout the Atlantic salmon linkage map. The high polymorphism and low rates of crossover in our hybrid sires provided enough statistical power to detect 79 significant associations between SNP markers and quantitative traits after experiment-wide permutation analysis for all families within traits. Linkage group AS22 contained a quantitative trait loci (QTL) for parr mark number; its homolog AS24 contained a large QTL, which explained 26% of the phenotypic variance in parr mark contrast. We found 25 highly significant QTLs for body shape and fin position on seven different linkage groups, and 16 for growth and condition on six different linkage groups. QTL(s) for pectoral fin position, caudal peduncle position, late parr growth and condition index were associated with an SNP on linkage group AS1, which was linked to the sex-determining locus. Our work adds to the evidence that much of the variation in growth rate, shape and skin pigmentation observed among Atlantic salmon parr from different natal streams is genetic.

Modelling the genetics and demography of step cline formation: gastropod populations preyed on by experimentally introduced crabs.

Whether a prey population goes extinct or adapts in response to an invading predator may depend on the number of contiguous populations that experience increased predation. We created invaded snail populations by building shelters for predatory shore crabs on a rocky intertidal bench. The crabs preyed selectively on thin-shelled snails tethered next to the shelters but did not prey on those more than 2 m away. This caused strong directional selection for increased shell thickness in populations close to the shelters but did not change selection in those farther away. The field experiment was used to parameterize a new individual-based quantitative genetic model that included demography. In the model a detectable step cline in shell thickness evolved rapidly even though the region of increased predation was shorter than Slatkin's characteristic length. The cline's step size in the model was similar to that measured in the field 10 years after the experiment began.

Associations between single nucleotide polymorphisms in candidate genes and growth rate in Arctic charr (Salvelinus alpinus L.).

We tested for associations between single nucleotide polymorphisms (SNPs) in five candidate genes allied with the growth hormone axis and the age-specific growth rate of Arctic charr (Salvelinus alpinus L.: Salmonidae). Two large full sib families (N=217 and 95) were created by backcrossing males that were hybrids between two phenotypically divergent populations from Labrador, Canada and from Nauyuk Lake, Canada to females that were from Nauyuk Lake. Measures of individual growth rate (wet weight and fork length) were made three times during a 420-day period after the juveniles were transferred from 4 to 11 degrees C. We then identified SNP markers in 10 proposed candidate genes known to be related to the growth hormone axis. Comparative alignments of amino-acid sequences and nucleotide sequences from other fish species were used to design PCR primers that would amplify 0.5-3 kb DNA regions of the candidate genes. All the individuals in the two backcross families were genotyped for these SNP markers using either polymerase chain reaction-restriction fragment length polymorphisms (PCR-RFLP) or bidirectional amplification of specific alleles (Bi-PASA) approaches. A significant association between a particular SNP allele and early growth was found for the locus containing the growth hormone-releasing hormone and pituitary adenylate cyclase-activating polypeptide genes (GHRH/PACAP2, P=0.00001). We argue that using comparative sequence information to design PCR primers for candidate genes is an efficient method for locating quantitative triat loci in nonmodel organisms.

Genetic and demographic parameters determining population persistence after a discrete change in the environment.

Field studies suggest that populations often go extinct following discrete changes in the environment. However, populations may avoid extinction by rapidly adapting to their altered environment. We used a stochastic finite-locus model to estimate the distance the optimal value of a quantitative trait could shift in a single step Delta theta(c) without causing more than 5% of the replicate populations to go extinct. We found that evolution increased the magnitude of Delta theta(c) by at least two phenotypic standard deviations and that such evolution could take place within 5--10 generations. Indeed (Delta theta(c))(2) increased approximately linearly with the logarithm of the initial population size and the rate of this increase was much greater when heritability was high or when stabilizing selection was weak. (Delta theta(c))(2) also increased approximately linearly with the logarithm of per capita fecundity. To our surprise there was no 'demographic rescue' effect from migration; a population augmented with migrants from a neighbouring population where environmental conditions were unchanged was always more likely to go extinct. The addition of mutation, more loci, density-dependence, or environmental stochasticity had only small effects on the outcome. We were able to compare our results for closed populations with density-independent population growth to those from an analytical model and found good agreement so long as the proportion of the offspring surviving selection in the initial generations was at least 1%.

Molecular genetic evidence for parallel evolution in a marine gastropod, Littorina subrotundata.

Littorina subrotundata from wave-exposed rocky shores differ consistently in shell and radula morphology from those found in wave-protected salt-marshes. To determine if the two morphological forms of this gastropod represent separate species, clades, or ecotypes, DNA sequencing and single-stranded conformational polymorphism (SSCP) analysis were used to assay variation in a 480 bp fragment of the mitochondrial cytochrome-b gene. Several nested analyses of molecular variance (AMOVA) were then performed to test if grouping populations by geographical region or habitat type better explained the distribution of cytochrome-b haplotypes among some northeastern Pacific populations. The analysis by geographic region resulted in a significant variance component that explained 53% of the variance, whereas the analysis by habitat type was not significant. These results, along with previous studies showing that the differences in shell morphology among different forms have a heritable component, suggest that the two forms are ecotypes and not separate species or clades as had been previously proposed. These results also imply that each ecotype has evolved independently in each geographic area and that the morphological similarity of individuals from the same habitat type is most likely the result of parallel evolution.

Molecular evidence against phylogenetically distinct host races of the pea aphid (Acyrthosiphon pisum).

Pea aphid (Acyrthosiphon pisum) clones have been shown to be adapted to particular host plant species but it is unknown whether there are host races. A 1101 base pair region of the mitochondrial cytochrome oxidase I gene (COI) was sequenced for 21 pea aphid clones that had been collected from different host plants in Canada and the U.S.A. Only five closely related mitochondrial haplotypes were found. A maximum likelihood phylogeny was estimated for these five haplotypes and four related aphid species: Acyrthosiphon macrosiphum, A. kondoi, Fimbriaphis fimbriata, and Macrosiphum creelii. Pea aphids from the same host plant species were no more likely to have the same mitochondrial haplotype than aphids from different host plant species. In addition, aphids from the same geographical regions were no more likely to have the same mitochondrial haplotype than aphids from different geographic regions. I therefore reject the hypothesis that there are monophyletic host races of the pea aphid.