Data from: Oligocene odyssey: Molecular phylogenetic analyses describe the origin and diversification of freshwater Gammarus in eastern North America
Data files
Mar 13, 2025 version files 1.74 MB
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Cannizzaro_and_Berg_ENA_Alignment_Concatenated.nex
335.30 KB
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Cannizzaro_and_Berg_ENA_BEAST_annotated.nexus
4.33 KB
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Cannizzaro_and_Berg_ENA_ML_tree.newick
5.95 KB
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Cannizzaro_and_Berg_ENA_Mrbayes.newick
5.72 KB
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Cannizzaro_and_Berg_ENA_RASP.png
1.39 MB
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README.md
1.07 KB
Abstract
Aim: Members of the amphipod genus Gammarus have served as an excellent model for testing biogeographic hypotheses given the number of species within the genus and its unique history, with multiple taxa transitioning from marine to freshwater environments independently. However, while attention has been placed on Palearctic Gammarus, little is known about members in the Nearctic. Given trends observed within the genus, Gammarus from eastern North America (ENA) may represent another independent lineage, likely reaching the continent using a heretofore unknown pathway. We investigate the phylogenetic and evolutionary history of Gammarus spp. in this region.
Location: eastern North America
Taxon: Gammarus
Methods: Sequence data for two nuclear and two mitochondrial loci were obtained for 75 individuals, four of which are newly sequenced. Based on a concatenated dataset, phylogenetic trees were reconstructed using both Maximum likelihood and Bayesian inference. Bayesian trees were time-calibrated based on a set of five mixed calibration points. RASP software was used to investigate potential ancestral areas.
Results: ENA Gammarus spp. were recovered as monophyletic, showing affinity to both Palearctic Gammarus and G. duebeni. Newly generated sequences solidify the position of Gammarus bousfieldi which is found to be related to G. minus. Time-calibrated phylogenies place the crown age of the ENA lineage during the Eocene/Oligocene. These timings suggest a marine origin for the lineage followed by dispersal into freshwaters.
Main Conclusions: Members of the “ENA Gammarus” are a unique lineage within the genus, originating from a marine ancestor during the Eocene/Oligocene and colonizing the Nearctic shortly after. The exact route the lineage may have taken is unclear, however, three routes are proposed: (I) the Gulf of St. Lawrence (II) the Chesapeake Bay (III) and the Mississippi River. Results generated here emphasize the lineages’ unique evolutionary history, highlighting novel colonization pathways not often considered for invertebrate taxa.
https://doi.org/10.5061/dryad.905qfttvd
Description of the data and file structure
Included here are raw tree files in either newick or nexus formats from all tree-building methodologies undertaken (IQTREE, MRBAYES, BEAST), results of the RASP analysis, and a concatenated sequence alignment, generated by SEQUENCEMATRIX.
Files and variables
File: Cannizzaro_and_Berg_ENA_BEAST_annotated.nexus
Description: Annotated BEAST tree.
File: Cannizzaro_and_Berg_ENA_Alignment_Concatenated.nex
Description: Concatenated sequence alignment (nexus format)
File: Cannizzaro_and_Berg_ENA_ML_tree.newick
Description: Raw Maximum-likelihood tree file from IQTREE
File: Cannizzaro_and_Berg_ENA_Mrbayes.newick
Description:Raw Bayesian tree file from MRBAYES
File: Cannizzaro_and_Berg_ENA_RASP.png
Description: Result of RASP analysis
