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8 results for “Gonioctena quinquepunctata”
Estimating migration of the cold-tolerant leaf beetle Gonioctena quinquepunctata inside a mountain range in a spatially explicit context
<p>The cold-tolerant leaf beetle <em>Gonioctena quinquepunctata</em> displays a large but fragmented European distribution and is restricted to mountain regions in the southern part of its range. Using a RAD-seq-generated large SNP data set (> 10,000 loci), we investigated the geographic distribution of genetic variation within the Vosges mountains, where the species is common. To translate this pattern of variation in an estimate of its capacity to disperse, we simulated SNP data under a spatially explicit model of population evolution and compared the simulated and real data with an approximate Bayesian computation (ABC) approach. For this purpose, we propose a new SNP statistic summarizing genetic variation in a spatially explicit context. The estimated number of effective migrants inferred with this statistic was compared to that derived from a combination of standard population genetic statistics often used in population genetic analyses. We conducted this ABC analysis with a relatively low number of data points compared to traditional ABC analyses, because spatially explicit models require long simulation times. A test of our overall strategy was conducted with simulated data and showed that it could provide a good estimate of the level of dispersal of an organism over its continuous geographic range. We suggest that the lower number of explored data points were at least partially compensated by the much larger number of simulations per data point associated with a large SNP data set. The results of our analyses suggested that this insect disperses well within the Vosges mountains, much more than was initially expected given the current and probably past fragmentation of its habitat and given the results of previous studies on genetic variation in other mountain leaf beetles.</p>
Estimating migration of the cold-tolerant leaf beetle Gonioctena quinquepunctata inside a mountain range in a spatially explicit context
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Fig. 1 in Estimating Migration of Gonioctena quinquepunctata (Coleoptera: Chrysomelidae) Inside a Mountain Range in a Spatially Explicit Context
Fig. 1. Strategy developed in this study to compare observed and simulated SNP data in a spatially explicit context, using the new DSVSF statistic. Allele frequencies per SNP are recorded for each sampled grid cell and organized in an array. Frequency arrays can then be categorized into patterns by associating them with one of three categories, according to their frequency (category 0 corresponds to a frequency ≤ 0.1, category 2 to a frequency ≥ 0.9, and category 1 otherwise). We then compared the resulting observed and simulated distributions of pattern frequencies using a standard dissimilarity index (see text). Each simulated distribution shown at the bottom of the figure corresponds to one specific combination of Ne and m values.
Fig. 5 in Estimating Migration of Gonioctena quinquepunctata (Coleoptera: Chrysomelidae) Inside a Mountain Range in a Spatially Explicit Context
Fig. 5. Results of the validation analyses. Each dot presents, for one ABC analysis run on a pseudo-observed data set, the estimated value of Nm as a function of its known value. Dots are black when the real value was included inside the 95% highest posterior density interval, white otherwise. Real values are along the red line.
Fig. 4 in Estimating Migration of Gonioctena quinquepunctata (Coleoptera: Chrysomelidae) Inside a Mountain Range in a Spatially Explicit Context
Fig. 4. Principal component analysis (PCA) graph resulting from analyzing all SNPs from all sampled individuals. Each population is identified by a different color.
Fig. 3 in Estimating Migration of Gonioctena quinquepunctata (Coleoptera: Chrysomelidae) Inside a Mountain Range in a Spatially Explicit Context
Fig. 3. Grids defining the spatially explicit context used in the coalescence models for simulating SNP data with PhyloGeoSim. Insects are absent from white cells but are potentially present in orange cells. Blue dots on the right grid (15,000 a—0) depict sampling locations.The left grid describes the spatial context assumed during the last glaciation.
RAD-seq vcf files for the leaf beetle Gonioctena quinquepunctata sampled across Europe
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Fig. 2 in Estimating Migration of Gonioctena quinquepunctata (Coleoptera: Chrysomelidae) Inside a Mountain Range in a Spatially Explicit Context
Fig. 2. Map of the studied area (Vosges mountains, France) with sampled locations, as generated with the R packages raster (v2.8-19; Hijmans 2019) and rnaturalearth (v0.1.0; South 2017), using the USGS/NASA SRTM 90m DEM Digital Elevation Database (https://srtm.csi.cgiar.org) and free raster maps available from https://www.naturalearthdata.com/.The first inset (top left) shows the location of the Vosges in France; the second inset (bottom left) is a photograph of an adult G. quinquepunctata on its host plant S. aucuparia in the region.
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