Hélène Glémet

Incorporating temporally dynamic baselines in isotopic mixing models

Stable isotopes (particularly C and N) are widely used to make inferences regarding food web structure and the phenology of consumer diet shifts, applications that require accurate isotopic characterization of trophic resources to avoid biased inferences of feeding relationships. For example, most isotope mixing models require that endmembers be adequately represented by a single probability distribution; yet, there is mounting evidence that the isotopic composition of aquatic organisms often used as mixing model endmembers can change over periods of weeks to months. A review of the literature indicated that the delta13C values of five aquatic primary consumer taxa, commonly used as proxies of carbon production sources (i.e., trophic baselines), express seasonally dynamic cycles characterized by an oscillation between summer maxima and winter minima. Based on these results, we built a dynamic baseline mixing model that allows a growing consumer to track temporal gradients in the isotopic baselines of a food web. Simulations showed that the ability of a consumer to maintain or approach isotopic equilibrium with its diet over a realistic growth season was strongly affected by both the rate of change of the isotopic baseline and equilibration rate of the consumer. In an empirical application, mixing models of varying complexity were used to estimate the relative contribution of benthic vs. pelagic carbon sources to nine species of juvenile fish in a fluvial lake of the St. Lawrence River system (Québec, Canada). Estimates of p (proportion of carbon derived from benthic sources) derived from a static mixing model indicated broad interspecific variation in trophic niche, ranging from complete benthivory to > 95% reliance on pelagic food webs. Output from the more realistic dynamic baseline mixing model increased estimated benthivory by an average of 36% among species. Taken together, our results demonstrate that failing to identify dynamic baselines when present, and (or) matching consumers with baseline taxa that possess substantially different equilibration rates can seriously bias interpretation of stable isotope data. Additionally, by providing a formalized framework that allows both resources and consumers to shift their isotopic value through time, our model demonstrates a feasible approach for incorporating temporally dynamic isotope conditions in trophic studies of higher consumers.

Developments in the ecology, evolution, and behaviour of the charrs, genus Salvelinus: relevance for their management and conservation

Salvelinus species are one of the most thoroughly studied groups of fishes. Many reasons explain this intense interest in charr biology. First, charrs have a Holarctic distribution encompassing many Asian, North American, and European countries and occupy a diversity of aquatic environments, including both marine and freshwater habitats. For instance, the presence of anadromous, stream-resident, and lacustrine life histories within and among species provides a rich template for ecological and physiological study and experimentation. Second, most of the current distribution of charr includes areas that were directly influenced by climate and topographic change associated with the many Pleistocene glaciations. This means that there has been tremendous opportunity for repeated episodes of isolation, divergence in distinct refugia (and different selective environments), and recontact between divergent lineages. Undoubtably, these conditions have promoted much of the tremendous morphological, ecological, and genetic variability and plasticity within species of the genus and make charr very good models to study evolutionary processes ‘in action’. Third, many charr species exhibit demographic characteristics such as slow growth, late maturity, and life in extreme environments, that perhaps make them more susceptible to extinction from habitat changes and overexploitation, particularly because they often occupy depauperate aquatic habitats. This vulnerability makes understanding their biology of great relevance to biodiversity and conservation. Finally, charr are of great cultural, commercial, and recreational significance to many communities, and their intimate linkage with human societies has therefore undoubtedly stimulated much interest in this enigmatic genus.

Interactions between nuclear genes and a foreign mitochondrial genome in the redbelly dace Chrosomus eos.

Given the coevolution process occurring between nuclear and mitochondrial genomes, the effects of introgressive hybridization remain puzzling. In this study, we take advantage of the natural co-occurrence of two biotypes bearing a similar nuclear genome (Chrosomus eos) but harbouring mitochondria from different species (wild type: C. eos; cybrids: Chrosomus neogaeus) to determine the extent of phenotype changes linked to divergence in the mitochondrial genome. Changes were assessed through differences in gene expression, enzymatic activity, proteomic and swimming activity. Our data demonstrate that complex IV activity was significantly higher in cybrids compared to wild type. This difference could result from one variable amino acid on the COX3 mitochondrial subunit and/or from a tremendous change in the proteome. We also show that cybrids present a higher swimming performance than wild type. Ultimately, our results demonstrate that the absence of coevolution for a period of almost ten million years between nuclear and mitochondrial genomes does not appear to be necessarily deleterious but could even have beneficial effects. Indeed, the capture of foreign mitochondria could be an efficient way to circumvent the selection process of genomic coevolution, allowing the rapid accumulation of new mutations in C. eos cybrids.

Correlation of Parasites with Growth of Yellow Perch

The possible influence of parasites on the short-term and long-term growth and condition of yellow perch Perca flavescens was examined by investigating correlations between parasite abundance and specific growth variables. The following parasites were enumerated in age-1 yellow perch collected from Lake St. Pierre in June 2008: Apophallus brevis, Diplostomum spp., Ichthyocotylurus spp., Tylodelphys scheuringi, Phyllodistomum superbum, and Raphidascaris acus. Short-term growth was estimated using RNA/DNA ratios and long-term growth via the total length and condition as measured by the Fulton index. No correlation was found between parasite abundance and short-term growth, but a negative influence of combined infections of T. scheuringi and P. superbum on long-term growth was detected. In addition, the abundance of Ichthyocotylurus spp. was positively correlated with the condition of the yellow perch. Together these results suggest that limited or subtle pathogenic effects in juvenile fish are not discernable in recent growth but only in long-term growth indices. Furthermore, in future studies examination of parasite effects on fish growth should account for multiple infections.

Extensive length variation in the ribosomal DNA intergenic spacer of yellow perch (Perca flavescens).

The intergenic spacer (IGS) is located between ribosomal RNA (rRNA) gene copies. Within the IGS, regulatory elements for rRNA gene transcription are found, as well as a varying number of other repetitive elements that are at the root of IGS length heterogeneity. This heterogeneity has been shown to have a functional significance through its effect on growth rate. Here, we present the structural organization of yellow perch (Perca flavescens) IGS based on its entire sequence, as well as the IGS length variation within a natural population. Yellow perch IGS structure has four discrete regions containing tandem repeat elements. For three of these regions, no specific length class was detected as allele size was seemingly normally distributed. However, for one repeat region, PCR amplification uncovered the presence of two distinctive IGS variants representing a length difference of 1116 bp. This repeat region was also devoid of any CpG sites despite a high GC content. Balanced selection may be holding the alleles in the population and would account for the high diversity of length variants observed for adjacent regions. Our study is an important precursor for further work aiming to assess the role of IGS length variation in influencing growth rate in fish.

Balancing selection on the number of repeats in the ribosomal intergenic spacer (IGS) present in naturally occurring yellow perch (Perca flavescens) populations

The ribosomal intergenic spacer (IGS), responsible for the rate of transcription of rRNA genes, is associated with the growth and fecundity of individuals. A previous study of IGS length variants in a yellow perch (Perca flavescens) population revealed the presence of two predominant alleles differing by 1 kb due to variation in the number of repeat units. This study aims to assess whether length variation of IGS is the result of selection in natural populations. Length variation of IGS and 11 neutral microsatellite loci were assessed in geographically distant yellow perch populations. Most populations displayed the very same IGS alleles; they did not differ in frequencies among populations and the FST was not significantly different from zero. In contrast, diversity at microsatellite loci was high and differed among populations (FST = 0.18). Selection test based on FST identified IGS as a significant outlier from neutral expectations for population differentiation. Heterozygote excess was also detected in one specific cohort, suggesting temporal variation in the selection regime. While the exact mechanism remains to be specified, together the results of this study support the contention that balancing selection is acting to maintain two distinct IGS alleles in natural fish populations.

Gene flow prevents mitonuclear co-adaptation: A comparative portrait of sympatric wild types and cybrids in the fish Chrosomus eos

Allospecific mtDNA can occasionally be beneficial for the fitness of populations. It is, however, difficult to assess the effect of mtDNA in natural conditions due to genetic and/or environmental interactions. In the fish Chrosomus eos, the transfer of C. neogaeus mitochondria occurs in a single generation and results in natural cybrids. For a few lakes in Quebec, C. eos can harbor either a C. eos mtDNA (wild types) or a C. neogaeus mtDNA (cybrids). Moreover, mtDNA of cybrids originated either from Mississippian or Atlantic glacial refuges. Such diversity provides a useful system for in situ assessment of allospecific mtDNA effects. We determined genetic, epigenetic and transcriptomic variation as well as mitochondrial enzymatic activity (complex IV) changes among wild types and cybrids either in sympatry or allopatry. Wild types and cybrids did not segregate spatially within a lake. Moreover, no significant genetic differentiation was detected among wild types and cybrids indicating sustained gene flow. Mitochondrial complex IV activity was higher for cybrids in both sympatry and allopatry while no difference was detected among cybrid haplotypes. Epigenetic and transcriptomic analyses revealed only subtle differences between sympatric wild types and cybrids compared to differences between sites. Altogether, these results indicate a limited influence of allospecific mtDNA in nuclear gene expression when controlling for genetic and environmental effects. The absence of a reproductive barrier between wild types and cybrids results in random association of either C. eos or C. neogaeus mtDNA with C. eos nDNA at each generation, and prevents mitonuclear co-adaptation in sympatry.