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Endosymbionts are crucial to this study as the literature suggests that these organisms have undergone bottlenecks during evolution.
Theoretical models predict that severe reductions in population size termed as population bottlenecks, have a significant impact on the Ne, and thus the genetic diversity of populations, so understandably, species that have undergone bottlenecks are often the focus of genetic studies.
To check whether the observed statistics were compatible with purely demographic events (i.e. bottlenecks in the case of positive tests), all significant mutation-drift equilibrium statistics were re-computed on simulated data sets having the same descriptive statistics as the observed data and having undergone bottlenecks of varying size, duration, and timing.
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This result indicates that few large population passages are sufficient to increase viral fitness of HIV clones that had undergone bottleneck passages.
In both cases, the populations underwent bottlenecks during breed formation which accounts for their smaller N e sizes [ 34].
Most habitats where we found HEC caterpillars in Italy recently were rather small and sometimes temporary, thus many populations probably undergo bottlenecks and/or local extinctions and founder effects.
This seasonal dynamic is consistent with that observed in a semi-natural habitat, such as a compost heap, where C. elegans population size varies over the year, from a dense population in autumn to one that declines and undergoes bottlenecks in winter (Barrière and Félix, 2007; Petersen et al., 2014).
When displaced, species are introduced in new environments where they probably lack specific adaptations, and may also undergo bottleneck events (Sakai et al. 2001).
Especially, the first three processes could result in species undergoing bottleneck periods during which genetic drift could play a large role in fixing random mutations.
As similar results can be obtained from different processes (see for instance [ 36, 37]), we conducted a mismatch analysis that also indicated that European populations underwent bottleneck events due to the recurrent glaciation periods and then recurrently expanded after the retreat of the ice.
Alternatively, G. fasciatus and M. herderiana populations may have recently undergone strong bottlenecks, with the growth detected reflecting the recent recovery from such bottlenecks, while the remaining species could have maintained relatively constant population sizes throughout their histories.
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