DOI: 10.5061/dryad.76hdr7t5n
title: Data from: Impact of Pleistocene climate on diversification and distribution of congeneric freshwater crustacean species

description: AimThe climatic oscillations of the glacial-interglacial cycles
 significantly influenced species diversification, playing an essential
 role in shaping the current patterns of biodiversity. However, the effects
 of the Pleistocene climate on species diversification and their current
 distribution are poorly understood for the Southern Hemisphere and some
 taxonomic groups, such as invertebrates.  Here, we explore the
 role of Pleistocene climate changes in the diversification and
 distribution of four species of South American freshwater crustaceans.
 LocationSouthern South America.  TaxonGenus Aegla (Aeglidae).
 MethodsWe performed phylogenetic analyses, estimated genetic diversity,
 and neutrality indices for Aegla alacalufi, Aegla neuquensis, Aegla
 platensis, and Aegla uruguayana using nuclear and mitochondrial sequences.
 We used the mitochondrial genes to estimate divergence times, calculate
 historical demography, and reconstruct the ancestral area range. We also
 estimated current and past potential distributions using ecological niche
 modeling. ResultsAlthough all species studied had their diversification
 influenced by Pleistocene glacial cycles, the Patagonian species A.
 alacalufi and A. neuquensis, which were directly influenced by the glacial
 ice cap, appear to have benefited from lower sea levels and melting of
 glaciation ice. As for the species A. platensis and A. uruguayana, their
 diversification was affected by the dry and cold climate on the continent
 during the glacial period. Main ConclusionsOur study unveils the intricate
 interplay between Pleistocene climatic fluctuations and the evolutionary
 history of freshwater crustaceans in South America. Distinct
 phylogeographic patterns were observed in Aegla. Some underwent
 significant diversification due to glaciation, while the cold, arid
 conditions of the continent shaped others. These findings underscore the
 crucial role of past climate dynamics in the distribution and genetic
 diversity of species. As freshwater ecosystems confront escalating
 threats, our study highlights the urgency for conservation measures and
 continued research to unveil species' adaptive mechanisms in the face
 of climate change.
description: Genetic and species occurrence data were obtained from the
 published literature, GenBank (http://www.ncbi.nlm.nih.gov/genbank) and
 Dryad (https://datadryad.org/stash), and encompass most of the
 distribution areas of each species. We performed
 phylogenetic analyses, estimated genetic diversity, and neutrality indices
 for <em>Aegla alacalufi</em>, <em>Aegla
 neuquensis</em>, <em>Aegla platensis</em>, and
 <em>Aegla uruguayana</em> using nuclear and mitochondrial
 sequences. We used the mitochondrial genes to estimate divergence times,
 calculate historical demography, and reconstruct the ancestral area range.
 We also estimated current and past potential distributions using
 ecological niche modeling.
description: # Dataset Impact of Pleistocene Climate on Diversification and
 Distribution of Congeneric Freshwater Crustacean Species
 [https://doi.org/10.5061/dryad.76hdr7t5n](https://doi.org/10.5061/dryad.76hdr7t5n) ## Description of the data and file structure We performed phylogenetic analyses, estimated genetic diversity, and neutrality indices for *Aegla alacalufi*, *Aegla neuquensis*, *Aegla platensis*, and *Aegla uruguayana* using nuclear and mitochondrial sequences. We used the mitochondrial genes to estimate divergence times, calculate historical demography, and reconstruct the ancestral area range. We also estimated current and past potential distributions using ecological niche modeling. Genetic and species occurrence data were obtained from the published literature, GenBank ([http://www.ncbi.nlm.nih.gov/genbank](http://www.ncbi.nlm.nih.gov/genbank)) and Dryad ([https://datadryad.org](https://datadryad.org)), and are cited in the manuscript. ### Files and variables #### File: Data\_set\_Impact\_of\_Pleistocene\_Aeglidae.zip **Description:** This dataset contains the data required to replicate analyses of ancestral area reconstruction for *Aegla alacalufi*, *Aegla neuquensis*, *Aegla platensis* and *Aegla uruguayana* (Crustacea, Anomura, Aeglidae) in Puli et al. (in press). For each species, there are three entry files for use in RASP (Yu et al., 2020): one .trees file containing the trees dataset constructed using the BEAST package (Drummond et al., 2012), one .tre file containing a consensus tree obtained using the BEAST package, and one .csv file containing sample codes and distribution area (states). Occurrence points (geographic coordinates) used in Maxent for ecological niche models of *A. alacalufi*, *A. nequensis*, *A. platensis* and *A. uruguayana* are in the file A_DistrMaxent.csv. ## Code/software Recommended Software for Data Analysis: RASP (Reconstruct Ancestral State in Phylogenies) software v. 4.2. ## Access information DNA Sequence data was derived from the following sources: * Dryad ([https://doi.org/10.5061/dryad.93js1254](https://doi.org/10.5061/dryad.93js1254)) * GenBank ([http://www.ncbi.nlm.nih.gov/genbank](http://www.ncbi.nlm.nih.gov/genbank)) ### Change Log **May 2025**: Added A_DistrMaxent.csv