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      Alpine endemic spiders shed light on the origin and evolution of subterranean species

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          Abstract

          We designed a comparative study to unravel the phylogeography of two Alpine endemic spiders characterized by a different degree of adaptation to subterranean life: Troglohyphantes vignai (Araneae, Linyphiidae) and Pimoa rupicola (Araneae, Pimoidae), the latter showing minor adaptation to hypogean life. We sampled populations of the model species in caves and other subterranean habitats across their known geographical range in the Western Alps. By combining phylogeographic inferences and Ecological Niche Modeling techniques, we inferred the biogeographic scenario that led to the present day population structure of the two species. According to our divergent time estimates and relative uncertainties, the isolation of T. vignai and P. rupicola from their northern sister groups was tracked back to Middle–Late Miocene. Furthermore, the fingerprint left by Pleistocene glaciations on the population structure revealed by the genetic data, led to the hypothesis that a progressive adaptation to subterranean habitats occurred in T. vignai, followed by strong population isolation. On the other hand, P. rupicola underwent a remarkable genetic bottleneck during the Pleistocene glaciations, that shaped its present population structure. It seems likely that such shallow population structure is both the result of the minor degree of specialization to hypogean life and the higher dispersal ability characterizing this species. The simultaneous study of overlapping spider species showing different levels of adaptation to hypogean life, disclosed a new way to clarify patterns of biological diversification and to understand the effects of past climatic shift on the subterranean biodiversity.

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          AMPLIFICATION AND DIRECT SEQUENCING OF FUNGAL RIBOSOMAL RNA GENES FOR PHYLOGENETICS

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            R: A language and environment for statistical computing

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              Arlequin (version 3.0): An integrated software package for population genetics data analysis

              Arlequin ver 3.0 is a software package integrating several basic and advanced methods for population genetics data analysis, like the computation of standard genetic diversity indices, the estimation of allele and haplotype frequencies, tests of departure from linkage equilibrium, departure from selective neutrality and demographic equilibrium, estimation or parameters from past population expansions, and thorough analyses of population subdivision under the AMOVA framework. Arlequin 3 introduces a completely new graphical interface written in C++, a more robust semantic analysis of input files, and two new methods: a Bayesian estimation of gametic phase from multi-locus genotypes, and an estimation of the parameters of an instantaneous spatial expansion from DNA sequence polymorphism. Arlequin can handle several data types like DNA sequences, microsatellite data, or standard multi-locus genotypes. A Windows version of the software is freely available on http://cmpg.unibe.ch/software/arlequin3.
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                Author and article information

                Contributors
                Journal
                PeerJ
                PeerJ
                PeerJ
                PeerJ
                PeerJ
                PeerJ Inc. (San Francisco, USA )
                2167-8359
                3 November 2015
                2015
                : 3
                : e1384
                Affiliations
                [1 ]Department of Life Sciences and Systems Biology, University of Turin , Turin, Italy
                [2 ]Departament de Biologia Animal & Biodiversity Research Institute, Universitat de Barcelona , Barcelona, Spain
                Article
                1384
                10.7717/peerj.1384
                4699788
                93ae689a-de56-41c9-ab4b-da148d5a6227
                © 2015 Mammola et al.

                This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, reproduction and adaptation in any medium and for any purpose provided that it is properly attributed. For attribution, the original author(s), title, publication source (PeerJ) and either DOI or URL of the article must be cited.

                History
                : 22 August 2015
                : 15 October 2015
                Funding
                Funded by: University of Turin and Compagnia di San Paolo
                Award ID: (Progetti di Ricerca di Ateneo 2011—ORTO11T92F)
                This study was set within the CaveLab project “From microclimate to climate change: caves as laboratories for the study of the effects of temperature on ecosystems and biodiversity”, funded by University of Turin and Compagnia di San Paolo (Progetti di Ricerca di Ateneo 2011—ORTO11T92F). The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.
                Categories
                Biogeography
                Ecology
                Evolutionary Studies
                Molecular Biology
                Zoology

                comparative phylogeography,pleistocene glaciations,ecological niche modeling,cave-dwelling spiders,alpine fauna,pimoa,troglohyphantes,subterranean specialization,dna markers,dispersal

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