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1.
Jacquelin DeFaveri Heidi Viitaniemi Erica Leder Juha Merilä 《Molecular ecology resources》2013,13(3):377-392
The implications of transitioning to single nucleotide polymorphism (SNPs) from microsatellite markers (MSs) have been investigated in a number of population genetics studies, but the effect of genomic location on the amount of information each type of marker reveals has not been explored in detail. We developed novel SNP markers flanking 1 kb regions of 13 genic (within gene or <1 kb away from gene) and 13 nongenic (>10 kb from annotated gene) MSs in the threespine stickleback genome to obtain comparable data for both types of markers. We analysed patterns of genetic diversity and divergence on various geographic scales after converting the SNP loci within each genomic region into haplotypes. Marker type (SNP haplotype or MS) and location (genic or nongenic) significantly affected most estimates of population diversity and divergence. Between‐lineage divergence was significantly higher in SNP haplotypes (genic and nongenic), however, within‐lineage divergence was similar between marker types. Most divergence and diversity measures were uncorrelated between markers, except for population differentiation which was correlated between MSs and SNP haplotypes (both genic and nongenic). Broad‐scale population structure and assignment were similarly resolved by both marker types, however, only the MSs were able to delimit fine‐scale population structuring, particularly when genic and nongenic markers were combined. These results demonstrate that estimates of genetic variability and differentiation among populations can be strongly influenced by marker type, their genomic location in relation to genes and by the interaction of these two factors. This highlights the importance of having an awareness of the inherent strengths and limitations associated with different molecular tools to select the most appropriate methods for accurately addressing various ecological and evolutionary questions. 相似文献
2.
In the threespine stickleback Gasterosteus aculeatus model system, phenotypes are often classified into three morphs according to lateral plate number. Morph identity has been shown to be largely genetically determined, but substantial within‐morph variation in plate number exists. In this study, we test whether plate number has a plastic component in response to salinity in the low‐plated morph using a split‐clutch experiment where families were split in two, one half raised in water at 0 and the other at 30 ppt salt. We find a small salinity‐induced plastic effect on plate number in an unexpected direction, opposite to what we predicted: Fish raised in freshwater on average have slightly more plates than fish raised in saltwater. Our results confirm that heritability of plate number is high. Additionally, we find that variance in plate number at the family level can be predicted from other family level traits, which might indicate that epistatic interactions play a role in creating the observed pattern of lateral plate number variation. 相似文献
3.
Mathew Seymour Katja Räsänen Rolf Holderegger Bjarni K. Kristjánsson 《Ecology and evolution》2013,3(3):492-502
Neutral genetic structure of natural populations is primarily influenced by migration (the movement of individuals and, subsequently, their genes) and drift (the statistical chance of losing genetic diversity over time). Migration between populations is influenced by several factors, including individual behavior, physical barriers, and environmental heterogeneity among populations. However, drift is expected to be stronger in populations with low immigration rate and small effective population size. With the technological advancement in geological information systems and spatial analysis tools, landscape genetics now allows the development of realistic migration models and increased insight to important processes influencing diversity of natural populations. In this study, we investigated the relationship between landscape connectivity and genetic distance of threespine stickleback (Gasterosteus aculeatus) inhabiting a pond complex in Belgjarskógur, Northeast Iceland. We used two landscape genetic approaches (i.e., least-cost-path and isolation-by-resistance) and asked whether gene flow, as measured by genetic distance, was more strongly associated with Euclidean distance (isolation-by-distance) or with landscape connectivity provided by areas prone to flooding (as indicated by Carex sp. cover)? We found substantial genetic structure across the study area, with pairwise genetic distances among populations (DPS) ranging from 0.118 to 0.488. Genetic distances among populations were more strongly correlated with least-cost-path and isolation-by-resistance than with Euclidean distance, whereas the relative contribution of isolation-by-resistance and Euclidian distance could not be disentangled. These results indicate that migration among stickleback populations occurs via periodically flooded areas. Overall, this study highlights the importance of transient landscape elements influencing migration and genetic structure of populations at small spatial scales. 相似文献
4.
Kay Lucek Bjarni K. Kristjánsson Skúli Skúlason Ole Seehausen 《Ecology and evolution》2016,6(15):5256-5272
Cases of evolutionary diversification can be characterized along a continuum from weak to strong genetic and phenotypic differentiation. Several factors may facilitate or constrain the differentiation process. Comparative analyses of replicates of the same taxon at different stages of differentiation can be useful to identify these factors. We estimated the number of distinct phenotypic groups in three‐spine stickleback populations from nine lakes in Iceland and in one marine population. Using the inferred number of phenotypic groups in each lake, genetic divergence from the marine population, and physical lake and landscape variables, we tested whether ecosystem size, approximated by lake size and depth, or isolation from the ancestral marine gene pool predicts the occurrence and the extent of phenotypic and genetic diversification within lakes. We find intralacustrine phenotypic diversification to be the rule rather than the exception, occurring in all but the youngest lake population and being manifest in ecologically important phenotypic traits. Neutral genetic data further indicate nonrandom mating in four of nine studied lakes, and restricted gene flow between sympatric phenotypic groups in two. Although neither the phenotypic variation nor the number of intralacustrine phenotypic groups was associated with any of our environmental variables, the number of phenotypic traits that were differentiated was significantly positively related to lake size, and evidence for restricted gene flow between sympatric phenotypic groups was only found in the largest lakes where trait specific phenotypic differentiation was highest. 相似文献
5.
Clara S. Jenck Whitley R. Lehto Brian T. Ketterman Lukas F. Sloan Aaron N. Sexton Robin M. Tinghitella 《Ecology and evolution》2020,10(6):2900-2916
By studying systems in their earliest stages of differentiation, we can learn about the evolutionary forces acting within and among populations and how those forces could contribute to reproductive isolation. Such an understanding would help us to better discern and predict how selection leads to the maintenance of multiple morphs within a species, rather than speciation. The postglacial adaptive radiation of the threespine stickleback (Gasterosteus aculeatus) is one of the best‐studied cases of evolutionary diversification and rapid, repeated speciation. Following deglaciation, marine stickleback have continually invaded freshwater habitats across the northern hemisphere and established resident populations that diverged innumerable times from their oceanic ancestors. Independent freshwater colonization events have yielded broadly parallel patterns of morphological differences in freshwater and marine stickleback. However, there is also much phenotypic diversity within and among freshwater populations. We studied a lesser‐known freshwater “species pair” found in southwest Washington, where male stickleback in numerous locations have lost the ancestral red sexual signal and instead develop black nuptial coloration. We measured phenotypic variation in a suite of traits across sites where red and black stickleback do not overlap in distribution and at one site where they historically co‐occurred. We found substantial phenotypic divergence between red and black morphs in noncolor traits including shape and lateral plating, and additionally find evidence that supports the hypothesis of sensory drive as the mechanism responsible for the evolutionary switch in color from red to black. A newly described third “mixed” morph in Connor Creek, Washington, differs in head shape and size from the red and black morphs, and we suggest that their characteristics are most consistent with hybridization between anadromous and freshwater stickleback. These results lay the foundation for future investigation of the underlying genetic basis of this phenotypic divergence as well as the evolutionary processes that may drive, maintain, or limit divergence among morphs. 相似文献
6.
Karen E. Sullam Blake Matthews Thierry Aebischer Ole Seehausen Helmut Bürgmann 《Ecology and evolution》2017,7(5):1572-1582
The presence of predators can impact a variety of organisms within the ecosystem, including microorganisms. Because the effects of fish predators and their phenotypic differences on microbial communities have not received much attention, we tested how the presence/absence, genotype, and plasticity of the predatory three‐spine stickleback (Gasterosteus aculeatus) influence aquatic microbes in outdoor mesocosms. We reared lake and stream stickleback genotypes on contrasting food resources to adulthood, and then added them to aquatic mesocosm ecosystems to assess their impact on the planktonic bacterial community. We also investigated whether the effects of fish persisted following the removal of adults, and the subsequent addition of a homogenous juvenile fish population. The presence of adult stickleback increased the number of bacterial OTUs and altered the size structure of the microbial community, whereas their phenotype affected bacterial community composition. Some of these effects were detectable after adult fish were removed from the mesocosms, and after juvenile fish were placed in the tanks, most of these effects disappeared. Our results suggest that fish can have strong short‐term effects on microbial communities that are partially mediated by phenotypic variation of fish. 相似文献
7.
8.
William E. Stutz Matthew Schmerer Jessica L. Coates Daniel I. Bolnick 《Molecular ecology》2015,24(18):4629-4646
Geographic variation in parasite communities can drive evolutionary divergence in host immune genes. However, biotic and abiotic environmental variation can also induce plastic differences in immune function among populations. At present, there is little information concerning the relative magnitudes of heritable vs. induced immune divergence in natural populations. We examined immune gene expression profiles of threespine stickleback (Gasterosteus aculeatus) from six lakes on Vancouver Island, British Columbia. Parasite community composition differs between lake types (large or small, containing limnetic‐ or benthic‐like stickleback) and between watersheds. We observed corresponding differences in immune gene expression profiles among wild‐caught stickleback, using a set of seven immune genes representing distinct branches of the immune system. To evaluate the role of environmental effects on this differentiation, we experimentally transplanted wild‐caught fish into cages in their native lake, or into a nearby foreign lake. Transplanted individuals' immune gene expression converged on patterns typical of their destination lake, deviating from their native expression profile. Transplant individuals' source population had a much smaller effect, suggesting relatively weak genetic underpinning of population differences in immunity, as viewed through gene expression. This strong environmental regulation of immune gene expression provides a counterpoint to the large emerging literature documenting microevolution and genetic diversification of immune function. Our findings illustrate the value of studying immunity in natural environmental settings where the immune system has evolved and actively functions. 相似文献
9.
Laura K. Helenius Anna Aymà Padrós Elina Leskinen Hannu Lehtonen Leena Nurminen 《Ecology and evolution》2015,5(10):2021-2035
Planktivorous fish can exert strong top‐down control on zooplankton communities. By incorporating different feeding strategies, from selective particulate feeding to cruising filter feeding, fish species target distinct prey. In this study, we investigated the effects of two species with different feeding strategies, the three‐spined stickleback (Gasterosteus aculeatus (L.)) and roach (Rutilus rutilus (L.)), on a low‐diversity brackish water zooplankton community using a 16‐day mesocosm experiment. The experiment was conducted on a small‐bodied spring zooplankton community in high‐nutrient conditions, as well as a large‐bodied summer community in low‐nutrient conditions. Effects were highly dependent on the initial zooplankton community structure and hence seasonal variation. In a small‐bodied community with high predation pressure and no dispersal or migration, the selective particulate‐feeding stickleback depleted the zooplankton community and decreased its diversity more radically than the cruising filter‐feeding roach. Cladocerans rather than copepods were efficiently removed by predation, and their removal caused altered patterns in rotifer abundance. In a large‐bodied summer community with initial high taxonomic and functional diversity, predation pressure was lower and resource availability was high for omnivorous crustaceans preying on other zooplankton. In this community, predation maintained diversity, regardless of predator species. During both experimental periods, predation influenced the competitive relationship between the dominant calanoid copepods, and altered species composition and size structure of the zooplankton community. Changes also occurred to an extent at the level of nontarget prey, such as microzooplankton and rotifers, emphasizing the importance of subtle predation effects. We discuss our results in the context of the adaptive foraging mechanism and relate them to the natural littoral community. 相似文献
10.
Travis Ingram Yuexin Jiang Racine Rangel Daniel I. Bolnick 《Ecology and evolution》2015,5(16):3352-3363
Assortative mating – correlation between male and female traits – is common within populations and has the potential to promote genetic diversity and in some cases speciation. Despite its importance, few studies have sought to explain variation in the extent of assortativeness across populations. Here, we measure assortative mating based on an ecologically important trait, diet as inferred from stable isotopes, in 16 unmanipulated lake populations of three‐spine stickleback. As predicted, we find a tendency toward positive assortment on the littoral–pelagic axis, although the magnitude is consistently weak. These populations vary relatively little in the strength of assortativeness, and what variation occurs is not explained by hypothesized drivers including habitat cosegregation, the potential for disruptive selection, costs to choosiness, and the strength of the relationship between diet and body size. Our results support recent findings that most assortative mating is positive, while suggesting that new approaches may be required to identify the environmental variables that drive the evolution of nonrandom mating within populations. 相似文献
11.
- Analyses of the mtDNA of 183 three‐spined sticklebacks (Gasterosteus aculeatus), from freshwater Iberian populations, were performed to reconstruct the phylogeography of this species and to inform conservation recommendations on the basis of genetic diversity and the geographical distribution of variation.
- A high degree of population structure, with high overall genetic diversity but very low intrapopulation variation, was observed. Haplotypes were distributed according to a geographical pattern with most samples fixed by a unique haplotype.
- Phylogenetic analyses supported two independent lineages in the Mediterranean region, highly divergent from Atlantic (Portuguese) haplotypes. Analyses of the historical demography confirmed that the Iberian Mediterranean three‐spined stickleback diverged prior to the last glaciation.
- Phylogeographic reconstruction, together with 114 representative sequences of the European three‐spined stickleback, revealed eight mtDNA lineages and related our Iberian Mediterranean haplotypes to those previously described in the lower Rhône (southern France). Multiple ancient Pleistocene lineages were described through the Adriatic, Black Sea and Mediterranean regions. The highly structured network fits well with a freshwater habit of the three‐spined stickleback in the ancient colonisation of southern Europe.
- Results suggested a Middle Adriatic and Black Sea origin of the European post‐glacial three‐spined stickleback, but additional colonisation from the northern Adriatic and even from Atlantic marine refuges cannot be discarded. Mediterranean three‐spined sticklebacks probably did not contribute to this post‐glacial colonisation.
- Conservation priorities should be established in the Iberian Mediterranean, where the three‐spined stickleback has many endemic genotypes whose habitats are threatened. On the basis of the genetic data, we recommend that each river system is considered as an independent conservation unit.
12.
A challenge in the Bachelor's studies in Biology is to strike a balance between reducing the teaching of practical scientific experiments to what is feasible in a short time, and teaching “real” science in undergraduate laboratories for high numbers of participants. We describe a laboratory in behavioral biology, with the primary focus on the student learning. However, also the underlying scientific question and the results of the experiment, namely the behavior of the three‐spined stickleback (Gasterosteus aculeatus) in a trade‐off situation during foraging, is without a doubt timely and sufficient for scientific studies on this subject, and this through the experiments conducted and data collected by the students. The students rated this laboratory well and learned at the end that social information is certainly important, but that self‐learning can be more important, and this not only in small fish, but also for the students themselves. 相似文献
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14.
Different lines of evidence suggest that the occurrence and extent of local adaptation in high gene flow marine environments – even in mobile and long‐lived vertebrates with complex life cycles – may be more widespread than earlier thought. We conducted a common garden experiment to test for local adaptation to salinity in Baltic Sea sticklebacks (Gasterosteus aculeatus). Fish from three different native salinity regimes (high, mid and low) were subjected to three salinity treatments (high, mid and low) in a full‐factorial experimental design. Irrespective of their origin, fish subjected to low (and mid) salinity treatments exhibited higher juvenile survival, grew to largest sizes and were in better condition than fish subjected to the high salinity treatment. However, a significant interaction between native and treatment salinities – resulting mainly from the poor performance of fish native to low salinity in the high salinity treatment – provided clear cut evidence for adaptation to local variation in salinity. Additional support for this inference was provided by the fact that the results concur with an earlier demonstration of significant differentiation in a number of genes with osmoregulatory functions across the same populations and that the population‐specific responses to salinity treatments exceeded that to be expected by random genetic drift. 相似文献
15.
Meike Hiermes Simon Vitt Ingolf P. Rick Theo C. M. Bakker 《Biological journal of the Linnean Society. Linnean Society of London》2015,116(4):761-772
Grouping is a widespread phenomenon in the animal kingdom and the decision to join a group is a function of individual and environmental conditions, meaning that any advantages and disadvantages have to be pondered constantly. Shoaling decisions in fishes are communicated via a variety of factors, such as colour signals, amongst other ultraviolet (UV) signals. The sensitivity for ultraviolet signals is assumed to be costly and a function of the predominant ecological conditions. The island of North Uist, Scotland, comprises bodies of water that possess great variation in their spectral distribution, especially in the UV spectral range. We examined different populations of three‐spined stickleback (Gasterosteus aculeatus L.), which is known to use UV for visual tasks, consisting of three populations from tea‐stained lakes and four from clear‐water lakes, concerning their preferences to join a shoal viewed under UV‐present and UV‐absent conditions. Nonreproductively active sticklebacks from tea‐stained lakes significantly preferred the shoal under UV‐absent conditions, whereas sticklebacks from clear‐water lakes did not show a significant preference. Reflection measurements showed that the UV chroma (intensity) of sticklebacks from tea‐stained lakes was higher than that of sticklebacks from clear‐water, most likely contrasting maximally against the UV‐poor background or compensating for a stronger attenuation of the signal. 相似文献
16.
Anurag Chaturvedi Joost A. M. Raeymaekers Filip A. M. Volckaert 《Molecular ecology resources》2014,14(4):768-777
An intriguing question in biology is how the evolution of gene regulation is shaped by natural selection in natural populations. Among the many known regulatory mechanisms, regulation of gene expression by microRNAs (miRNAs) is of critical importance. However, our understanding of their evolution in natural populations is limited. Studying the role of miRNAs in three‐spined stickleback, an important natural model for speciation research, may provide new insights into adaptive polymorphisms. However, lack of annotation of miRNA genes in its genome is a bottleneck. To fill this research gap, we used the genome of three‐spined stickleback to predict miRNAs and their targets. We predicted 1486 mature miRNAs using the homology‐based miRNA prediction approach. We then performed functional annotation and enrichment analysis of these targets, which identified over‐represented motifs. Further, a database resource (GAmiRdb) has been developed for dynamically searching miRNAs and their targets exclusively in three‐spined stickleback. Finally, the database was used in two case studies focusing on freshwater adaptation in natural populations. In the first study, we found 44 genomic regions overlapping with predicted miRNA targets. In the second study, we identified two SNPs altering the MRE seed site of sperm‐specific glyceraldehyde‐3‐phosphate gene. These findings highlight the importance of the GAmiRdb knowledge base in understanding adaptive evolution. 相似文献
17.
Taylor C. Gibbons David C. H. Metzger Timothy M. Healy Patricia M. Schulte 《Molecular ecology》2017,26(10):2711-2725
18.
Carl Smith Rowena Spence Iain Barber Mirosław Przybylski Robert J. Wootton 《Ecology and evolution》2014,4(18):3550-3554
While the genetic basis to plate morph evolution of the three‐spined stickleback (Gasterosteus aculeatus) is well described, the environmental variables that select for different plate and spine morphs are incompletely understood. Using replicate populations of three‐spined sticklebacks on North Uist, Scotland, we previously investigated the role of predation pressure and calcium limitation on the adaptive evolution of stickleback morphology and behavior. While dissolved calcium proved a significant predictor of plate and spine morph, predator abundance did not. Ecol. Evol., xxx, 2014 and xxx performed a comparable analysis to our own to address the same question. They failed to detect a significant effect of dissolved calcium on morphological evolution, but did establish a significant effect of predation; albeit in the opposite direction to their prediction. 相似文献
19.
Tanja K. Kleinhappel Oliver H. P. Burman Elizabeth A. John Anna Wilkinson Thomas W. Pike 《Ethology : formerly Zeitschrift fur Tierpsychologie》2016,122(9):712-716
Chemical information is used in a variety of contexts including habitat recognition, foraging and predator avoidance, and a plethora of studies have shown that an individual's distinct chemical profile can mediate interactions with conspecifics. Interestingly, recent work has revealed that diet alone is sufficient to change the chemical profile of individuals, and with it, the way other individuals perceive and interact with them. Free amino acids are known to be utilised across species in a range of contexts, including during predator–prey and host–parasite interactions, and have been widely postulated to underpin diet‐mediated social interactions, especially in fish. However, so far no empirical evidence has been presented to support this suggestion. Using an established behavioural assay in three‐spined sticklebacks (Gasterosteus aculeatus), we aimed to assess association preferences in groups of fish fed experimental diets which differed by a single free amino acid. Our results demonstrate that free amino acids alone are sufficient to mediate interindividual association preferences, raising the possibility that such a mechanism may be widespread among aquatic animals. 相似文献
20.
Tanja K. Kleinhappel Oliver H. P. Burman Elizabeth A. John Anna Wilkinson Thomas W. Pike 《Ethology : formerly Zeitschrift fur Tierpsychologie》2019,125(4):195-202
Acidification of lakes and rivers, as a consequence of anthropogenic interference, can cause fundamental changes to biological and ecological processes. One of the main consequences of a reduction in water pH for aquatic organisms is the disruption of their chemosensory abilities, as the detection of chemical cues underpins a wide range of decision‐making processes; for example, a reduction to low pH has been shown to interfere with predator avoidance and the detection of foraging cues. Moreover, aquatic organisms are known to make widespread use of chemical information to inform their social behaviour, although we have a comparably poor understanding of how this is impacted by water acidification, especially their shoaling behaviour. Using a standard behavioural assay, we therefore investigated the impact of low water pH on the social interactions mediated by diet‐derived chemical cues in three‐spined sticklebacks (Gasterosteus aculeatus), by quantifying social behaviour in water that varied either experimentally or naturally in pH. In both cases, we predicted that association patterns would be disrupted by low pH conditions, as reduced pH has shown to interfere with the perception of chemical cues in other non‐social contexts. Consistent with this prediction, our results demonstrate that an acute, short‐term reduction in water pH caused a breakdown in the diet‐mediated social interaction patterns seen in more alkaline water, although, interestingly, the pattern of associations for fish tested in naturally acidic water was both more complex and in a direction that was precisely contrary to our predictions. Overall, the findings provide insights into the potential effects of an acute reduction in water pH on fish communication and social interaction patterns, which may have implication for various individual, group, population and community‐level processes. 相似文献