scholarly journals Adaptive and maladaptive genetic diversity in small populations; insights from the Brook Charr (Salvelinus fontinalis) case study

2019 ◽  
Author(s):  
Anne-Laure Ferchaud ◽  
Maeva Leitwein ◽  
Martin Laporte ◽  
Damien Boivin-Delisle ◽  
Bérénice Bougas ◽  
...  
Keyword(s):  
Transposable Elements ◽  
Genetic Drift ◽  
Environmental Variables ◽  
Evolutionary Biology ◽  
Salvelinus Fontinalis ◽  
Small Populations ◽  
Deleterious Mutations ◽  
Brook Charr ◽  
Main Driver ◽  
Genomic Regions

AbstractInvestigating the relative importance of neutral versus selective processes governing the accumulation of genetic variants is a key goal in evolutionary biology. This is particularly true in the context of small populations, where genetic drift can counteract the effect of selection. In this study, we investigated the accumulation of putatively beneficial and harmful variations using 7,950 high-quality filtered SNPs among 36 lacustrine, seven riverine and seven anadromous Brook Charr (Salvelinus fontinalis) populations (n = 1,193) from Québec, Canada. Using the Provean algorithm, we observed an accumulation of deleterious mutations that tend to be more prevalent in isolated lacustrine and riverine populations than the more connected anadromous populations. In addition, the absence of correlation between the occurrence of putative beneficial nor deleterious mutations and local recombination rate supports the hypothesis that genetic drift might be the main driver of the accumulation of such variants. Despite the effect of pronounced genetic drift and limited gene flow in non-anadromous populations, several loci representing biological functions of potential adaptive significance were associated with environmental variables, and particularly with temperature. We also identified genomic regions associated with anadromy. We also observed an overrepresentation of transposable elements associated with variation in environmental variables, thus supporting the importance of transposable elements in adaptation.

scholarly journals Adaptive and maladaptive genetic diversity in small populations: Insights from the Brook Charr ( Salvelinus fontinalis ) case study

2020 ◽  
Vol 29 (18) ◽  
pp. 3429-3445
Author(s):  
Anne‐Laure Ferchaud ◽  
Maeva Leitwein ◽  
Martin Laporte ◽  
Damien Boivin‐Delisle ◽  
Bérénice Bougas ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Salvelinus Fontinalis ◽  
Small Populations ◽  
Brook Charr

scholarly journals Recombination Can Evolve in Large Finite Populations Given Selection on Sufficient Loci

Genetics ◽  
2003 ◽  
Vol 165 (4) ◽  
pp. 2249-2258 ◽  
Author(s):  
Mark M Iles ◽  
Kevin Walters ◽  
Chris Cannings
Keyword(s):  
Experimental Evidence ◽  
Genetic Drift ◽  
Finite Population ◽  
Selective Advantage ◽  
Indirect Selection ◽  
Small Populations ◽  
Finite Populations ◽  
Population Sizes ◽  
Population Recombination

AbstractIt is well known that an allele causing increased recombination is expected to proliferate as a result of genetic drift in a finite population undergoing selection, without requiring other mechanisms. This is supported by recent simulations apparently demonstrating that, in small populations, drift is more important than epistasis in increasing recombination, with this effect disappearing in larger finite populations. However, recent experimental evidence finds a greater advantage for recombination in larger populations. These results are reconciled by demonstrating through simulation without epistasis that for m loci recombination has an appreciable selective advantage over a range of population sizes (am, bm). bm increases steadily with m while am remains fairly static. Thus, however large the finite population, if selection acts on sufficiently many loci, an allele that increases recombination is selected for. We show that as selection acts on our finite population, recombination increases the variance in expected log fitness, causing indirect selection on a recombination-modifying locus. This effect is enhanced in those populations with more loci because the variance in phenotypic fitnesses in relation to the possible range will be smaller. Thus fixation of a particular haplotype is less likely to occur, increasing the advantage of recombination.

scholarly journals Distinct Responses of Arabidopsis Telomeres and Transposable Elements to Zebularine Exposure

2021 ◽  
Vol 22 (1) ◽  
pp. 468
Author(s):  
Klára Konečná ◽  
Pavla Polanská Sováková ◽  
Karin Anteková ◽  
Jiří Fajkus ◽  
Miloslava Fojtová
Keyword(s):  
Transposable Elements ◽  
Transcriptional Activation ◽  
Genome Stability ◽  
Cytosine Methylation ◽  
Individual Variability ◽  
Correlated Response ◽  
Telomere Shortening ◽  
Treatment Changes ◽  
Telomere Homeostasis ◽  
Genomic Regions

Involvement of epigenetic mechanisms in the regulation of telomeres and transposable elements (TEs), genomic regions with the protective and potentially detrimental function, respectively, has been frequently studied. Here, we analyzed telomere lengths in Arabidopsis thaliana plants of Columbia, Landsberg erecta and Wassilevskija ecotypes exposed repeatedly to the hypomethylation drug zebularine during germination. Shorter telomeres were detected in plants growing from seedlings germinated in the presence of zebularine with a progression in telomeric phenotype across generations, relatively high inter-individual variability, and diverse responses among ecotypes. Interestingly, the extent of telomere shortening in zebularine Columbia and Wassilevskija plants corresponded to the transcriptional activation of TEs, suggesting a correlated response of these genomic elements to the zebularine treatment. Changes in lengths of telomeres and levels of TE transcripts in leaves were not always correlated with a hypomethylation of cytosines located in these regions, indicating a cytosine methylation-independent level of their regulation. These observations, including differences among ecotypes together with distinct dynamics of the reversal of the disruption of telomere homeostasis and TEs transcriptional activation, reflect a complex involvement of epigenetic processes in the regulation of crucial genomic regions. Our results further demonstrate the ability of plant cells to cope with these changes without a critical loss of the genome stability.

Bénéfices à court terme des mouvements anadromes saisonniers pour une population d'omble de fontaine (Salvelinus fontinalis) du Nouveau Québec

1991 ◽  
Vol 48 (11) ◽  
pp. 2212-2222 ◽  
Author(s):  
Jean-François Doyon ◽  
Christiane Hudon ◽  
Roderick Morin ◽  
F. G. Whoriskey Jr.
Keyword(s):  
Water Level ◽  
Egg Size ◽  
Salvelinus Fontinalis ◽  
Condition Factor ◽  
Size At Maturity ◽  
Brook Charr ◽  
Tissue Water Content ◽  
Tissue Water ◽  
Single Population ◽  
Energetic Reserves

This study characterizes the seasonal anadromous movements of a brook charr population and compares its biological and energetic characteristics with charr spending summer in freshwaters. Downstream movements monitored at a counting fence over 3 yr were most intense in spring but occurred until fall and were positively correlated with rapid increases of water level. The timing of movements varied from year to year. Smaller charr were most subject to being swept downstream compared with freshwater residents, and most trout were concentrated near the mouth of the river. These patterns suggest that the downstream movements of charr in this system are passive. Upstream migrants had a higher condition factor and a lower tissue water content than freshwater residents, indicating that downstream movements result in a faster accumulation of energetic reserves during summer. However, the fortuitous character of anadromous migrations as well as the absence of differences in the biological characteristics (growth, size at maturity, fecundity, egg size) suggests that anadromous and resident fish belong to a single population whose yearly migrant component could be randomly determined.

Mechanisms responsible for the niche shift of brook charr, Salvelinus fontinalis Mitchill, when living sympatrically with creek chub, Semotilus atromaculatus Mitchill

1984 ◽  
Vol 62 (8) ◽  
pp. 1548-1555 ◽  
Author(s):  
Pierre Magnan ◽  
Gérard J. FitzGerald
Keyword(s):  
Laboratory Experiments ◽  
Salvelinus Fontinalis ◽  
Niche Shift ◽  
Intraspecific Aggression ◽  
Brook Charr ◽  
Semotilus Atromaculatus ◽  
High Level ◽  
Gill Raker ◽  
Creek Chub ◽  
Study Laboratory

When brook charr, Salvelinus fontinalis Mitchill, are in allopatry in oligotrophic Québec lakes, they feed largely on macrobenthic invertebrates. However, when brook charr cooccur with creek chub, Semotilus atromaculatus Mitchill, they feed largely on zooplankton. In the present study, laboratory experiments showed that creek chub were more effective than brook charr in searching for hidden, patchily distributed prey. The searching efficiency of an individual chub feeding in a group was improved through social facilitation. In contrast, the high level of intraspecific aggression observed in brook charr prevents the formation of such feeding groups. In the laboratory, brook charr were able to displace creek chub from the food source because of interspecific aggression. Data are presented showing that chub are morphologically better adapted than charr to feed on benthos (subterminal orientation of the mouth and protrusible premaxillae), while the charr are better adapted than chub to feed on zooplankton (gill raker structure). Differences in feeding behaviour, morphology, and relative abundance between these species appear to be important in the observed niche shift of brook charr in nature.

scholarly journals Allele frequency divergence reveals ubiquitous influence of positive selection in Drosophila

2021 ◽  
Author(s):  
Jason Bertram
Keyword(s):  
Allele Frequency ◽  
Evolutionary Biology ◽  
Polymorphic Locus ◽  
Purifying Selection ◽  
Allele Frequencies ◽  
Intermediate Allele ◽  
Genome Wide ◽  
Signature Of Selection ◽  
Basic Objective ◽  
Genomic Regions

Resolving the role of natural selection is a basic objective of evolutionary biology. It is generally difficult to detect the influence of selection because ubiquitous non-selective stochastic change in allele frequencies (genetic drift) degrades evidence of selection. As a result, selection scans typically only identify genomic regions that have undergone episodes of intense selection. Yet it seems likely such episodes are the exception; the norm is more likely to involve subtle, concurrent selective changes at a large number of loci. We develop a new theoretical approach that uncovers a previously undocumented genome-wide signature of selection in the collective divergence of allele frequencies over time. Applying our approach to temporally-resolved allele frequency measurements from laboratory and wild Drosophila populations, we quantify the selective contribution to allele frequency divergence and find that selection has substantial effects on much of the genome. We further quantify the magnitude of the total selection coefficient (a measure of the combined effects of direct and linked selection) at a typical polymorphic locus, and find this to be large (of order 1%) even though most mutations are not directly under selection. We find that selective allele frequency divergence is substantial at intermediate allele frequencies, which we argue is most parsimoniously explained by positive --- not purifying --- selection. Thus, in these populations most mutations are far from evolving neutrally in the short term (tens of generations), including mutations with neutral fitness effects, and the result cannot be explained simply as a purging of deleterious mutations.

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