Find research datasets worth reusing
Search datasets from major research repositories and use ShareScore to quickly assess how well each record supports discovery, access, and reuse.
15
datasets available to search
ShareScore release 0.9.0
Dataset results
15 results for “Isthmus of Panama”
Data from: Phylogenetic and biogeographic history of the Snooks (Centropomidae: Carangiformes) spanning the closure of the Isthmus of Panama
Open the record for dataset details and reuse information.
Divergent microbiota of echinoid eggs separated by the Isthmus of Panama
<p>Relationships between animals and their associated microbiota are dependent on the evolutionary history of the host and on the environment. The majority of studies tend to focus on one of these factors and rarely consider how both determine the community composition of the associated bacteria. One "natural experiment" to test how evolutionary history, shared environments, and the interaction between these factors drive community composition is to compare geminate species pairs. Echinoids separated by the Isthmus of Panama are suitable for this comparison due to the known evolutionary history and differences in oceanographic characteristics of the Caribbean Sea and Pacific Ocean. By comparing the egg-associated microbiota of the <i>Echinometra</i> and <i>Diadema</i> geminate species pairs, we show that each pair of geminate species associates with a distinct bacterial community in a pattern consistent with phylosymbiosis, and that the interaction between the evolutionary history of the host and the environment best explain differences in these communities. Moreover, we found that particular microbial taxa differed considerably between, but not within, oceans and that the microbiota of the two Caribbean <i>Echinometra</i> species were dominated by the phototrophic Oxyphotobacteria. Taken together, data presented here support the hypothesis that the microbiota associated with geminate species are another characteristic of these taxa that diverged in ~2.8 million years of isolation.</p>
Topology testing and demographic modeling illuminate a novel speciation pathway in the Greater Caribbean Sea following the formation of the Isthmus of Panama
<p>Recent genomic analyses have highlighted the prevalence of speciation with gene flow in many taxa and have underscored the importance of accounting for these reticulate evolutionary processes when constructing species trees and generating parameter estimates. This is especially important for deepening our understanding of speciation in the sea where fast-moving ocean currents, expanses of deep water, and periodic episodes of sea level rise and fall act as soft and temporary allopatric barriers that facilitate both divergence and secondary contact. Under these conditions, gene flow is not expected to cease completely while contemporary distributions are expected to differ from historical ones. Here we conduct range-wide sampling for Pederson's cleaner shrimp (<em>Ancylomenes</em> <em>pedersoni</em>), a species complex from the Greater Caribbean that contains three clearly delimited mitochondrial lineages with both allopatric and sympatric distributions. Using mtDNA barcodes and a genomic ddRADseq approach, we combine classic phylogenetic analyses with extensive topology testing and demographic modeling (10 site frequency replicates x 45 evolutionary models x 50 model simulations/replicate = 22,500 simulations) to test species boundaries and reconstruct the evolutionary history of what was expected to be a simple case study. Instead, our results indicate a history of allopatric divergence, secondary contact, introgression, and endemic hybrid speciation that we hypothesize was driven by the final closure of the Isthmus of Panama and the strengthening of the Gulf Stream Current ~3.5 million years ago. The history of this species complex recovered by model-based methods that allow reticulation differs from that recovered by standard phylogenetic analyses and is unexpected given contemporary distributions. The geologically and biologically meaningful insights gained by our model selection analyses illuminate what is likely a novel pathway of species formation not previously documented that resulted from one of the most biogeographically significant events in Earth's history.</p>
Divergent microbiota of echinoid eggs separated by the Isthmus of Panama
Open the record for dataset details and reuse information.
Topology testing and demographic modeling illuminate a novel speciation pathway in the Greater Caribbean Sea following the formation of the Isthmus of Panama
Open the record for dataset details and reuse information.
Base-substitution mutation rate across the nuclear genome of Alpheus snapping shrimp and the timing of isolation by the Isthmus of Panama
Open the record for dataset details and reuse information.
Data from: Biological evidence supports an early and complex emergence of the Isthmus of Panama
The formation of the Isthmus of Panama, which linked North and South America, is key to understanding the biodiversity, oceanography, atmosphere, and climate in the region. Despite its importance across multiple disciplines, the timing of formation and emergence of the Isthmus and the biological patterns it created have been controversial. Here, we analyze molecular and fossil data, including terrestrial and marine organisms, to show that biotic migrations across the Isthmus of Panama began several million years earlier than commonly assumed. An earlier evolution of the Isthmus has broad implications for the mechanisms driving global climate (e.g., Pleistocene glaciations, thermohaline circulation) as well as the rich biodiversity of the Americas.
Data from: Appearance of an early closure of the Isthmus of Panama is the product of biased inclusion of data in the metaanalysis
In their PNAS article "Biological evidence supports an early and complex emergence of the Isthmus of Panama," Bacon et al. (1 - http://dx.doi.org/10.1073/pnas.1423853112) use data from molecular comparisons of terrestrial and marine organisms taken from the literature to estimate dates of rate shifts in migration. One of their conclusions is that "events separating marine organisms in the Atlantic and Pacific oceans [occurred] at ca. 23 and 7 Ma" (1). The authors base this conclusion on two kinds of molecular dating: (i) 31 dates from phylogenies with evolutionary rates calibrated from fossils at one or more nodes, and (ii) 52 dates from mitochondrial divergence between sister species on either side of the Isthmus taken from the review by Lessios (2) (note: complete data are available from the Dryad Digital Repository at http://dx.doi.org/10.5061/dryad.6m653). For the latter, divergence was converted to time by assuming a mitochondrial DNA divergence rate of 2% per million years. Unfortunately, Bacon et al.'s metaanalysis of separations of marine organisms contains unexplained omissions of data and mistakes.
Subspecies and Distribution. U. c. cinereoargenteus Schreber, 1775 — E USA. U. c. borealis Merriam, 1903 — SE Canada and USA (New England). U. c. californicus Mearns, 1897 — SW USA (S California). U. c. costaricensis Goodwin, 1938 — Costa Rica. U. c. flornidanus Rhoads, 1895 — Gulf of Mexico. U. c. fraterculus Elliot, 1896 — Mexico (Yucatan). U. c. furvus G. M. Allen & Barbour, 1923 — Panama. U. c. guatemalae G. S. Miller, 1899 — S Mexico S to Nicaragua. U. c. madrensis Burt & Hooper, 1941 — Mexico (S Sonora, SW Chihuahua & NW Durango). U. c. nigrirostris Lichtenstein, 1830 — SW Mexico. U. c. ocythous Bangs, 1899 — USA (Central Plains) and adjoining S Canada. U. c. orinomus Goldman, 1938 — S Mexico (Isthmus of Tehuantepec). U. c. perunsularis Huey, 1928 — NW Mexico (Baja California). U. c. scottit Mearns, 1891 — N Mexico and SW USA. U. c. townsend: Merriam, 1899 — W USA (California & Oregon). U. c. venezuelae]. A. Allen, 1911 — Colombia, Venezuela. in Canidae
Subspecies and Distribution. U. c. cinereoargenteus Schreber, 1775 — E USA. U. c. borealis Merriam, 1903 — SE Canada and USA (New England). U. c. californicus Mearns, 1897 — SW USA (S California). U. c. costaricensis Goodwin, 1938 — Costa Rica. U. c. flornidanus Rhoads, 1895 — Gulf of Mexico. U. c. fraterculus Elliot, 1896 — Mexico (Yucatan). U. c. furvus G. M. Allen & Barbour, 1923 — Panama. U. c. guatemalae G. S. Miller, 1899 — S Mexico S to Nicaragua. U. c. madrensis Burt & Hooper, 1941 — Mexico (S Sonora, SW Chihuahua & NW Durango). U. c. nigrirostris Lichtenstein, 1830 — SW Mexico. U. c. ocythous Bangs, 1899 — USA (Central Plains) and adjoining S Canada. U. c. orinomus Goldman, 1938 — S Mexico (Isthmus of Tehuantepec). U. c. perunsularis Huey, 1928 — NW Mexico (Baja California). U. c. scottit Mearns, 1891 — N Mexico and SW USA. U. c. townsend: Merriam, 1899 — W USA (California & Oregon). U. c. venezuelae]. A. Allen, 1911 — Colombia, Venezuela.
Distribution. Mexico, along Gulf Coast, in Isthmus of Tehuantepec, and Yucatan Peninsula, S to Canal Zone, Panama. in Mormoopidae
Distribution. Mexico, along Gulf Coast, in Isthmus of Tehuantepec, and Yucatan Peninsula, S to Canal Zone, Panama.
Subspecies and Distribution. M.m.mimulusThomas,1898—SWColombiaandNWEcuador. M.m.boguetensisNelson,1903—nearlyallofPanama,andextendingintoNWColombia. M. m. isthmus Nelson, 1899 — SW Panama and W Colombia. in Sciuridae
Subspecies and Distribution. M.m.mimulusThomas,1898—SWColombiaandNWEcuador. M.m.boguetensisNelson,1903—nearlyallofPanama,andextendingintoNWColombia. M. m. isthmus Nelson, 1899 — SW Panama and W Colombia.
Data from: Biological evidence supports an early and complex emergence of the Isthmus of Panama
Open the record for dataset details and reuse information.
Data from: Appearance of an early closure of the Isthmus of Panama is the product of biased inclusion of data in the metaanalysis
Open the record for dataset details and reuse information.
Mapfile and ASV table of whole-body and shell-surface samples from geminate species of gastropods separated by the Isthmus of Panama
Open the record for dataset details and reuse information.
Subspecies and Distribution. U. c. cinereoargenteus Schreber, 1775 — E USA. U. c. borealis Merriam, 1903 — SE Canada and USA (New England). U. c. californicus Mearns, 1897 — SW USA (S California). U. c. costaricensis Goodwin, 1938 — Costa Rica. U. c. flornidanus Rhoads, 1895 — Gulf of Mexico. U. c. fraterculus Elliot, 1896 — Mexico (Yucatan). U. c. furvus G. M. Allen & Barbour, 1923 — Panama. U. c. guatemalae G. S. Miller, 1899 — S Mexico S to Nicaragua. U. c. madrensis Burt & Hooper, 1941 — Mexico (S Sonora, SW Chihuahua & NW Durango). U. c¢. nigrirostris Lichtenstein, 1830 — SW Mexico. U. c. ocythous Bangs, 1899 — USA (Central Plains) and adjoining S Canada. U. ¢. orinomus Goldman, 1938 — S Mexico (Isthmus of Tehuantepec). U. c. perunsularis Huey, 1928 — NW Mexico (Baja California). U. c. scottit Mearns, 1891 — N Mexico and SW USA. U. c. townsend: Merriam, 1899 — W USA (California & Oregon). U. c. venezuelae]. A. Allen, 1911 — Colombia, Venezuela. in Canidae
Subspecies and Distribution. U. c. cinereoargenteus Schreber, 1775 — E USA. U. c. borealis Merriam, 1903 — SE Canada and USA (New England). U. c. californicus Mearns, 1897 — SW USA (S California). U. c. costaricensis Goodwin, 1938 — Costa Rica. U. c. flornidanus Rhoads, 1895 — Gulf of Mexico. U. c. fraterculus Elliot, 1896 — Mexico (Yucatan). U. c. furvus G. M. Allen & Barbour, 1923 — Panama. U. c. guatemalae G. S. Miller, 1899 — S Mexico S to Nicaragua. U. c. madrensis Burt & Hooper, 1941 — Mexico (S Sonora, SW Chihuahua & NW Durango). U. c¢. nigrirostris Lichtenstein, 1830 — SW Mexico. U. c. ocythous Bangs, 1899 — USA (Central Plains) and adjoining S Canada. U. ¢. orinomus Goldman, 1938 — S Mexico (Isthmus of Tehuantepec). U. c. perunsularis Huey, 1928 — NW Mexico (Baja California). U. c. scottit Mearns, 1891 — N Mexico and SW USA. U. c. townsend: Merriam, 1899 — W USA (California & Oregon). U. c. venezuelae]. A. Allen, 1911 — Colombia, Venezuela.
ScienceDex guides
Understand access before you commit
These curated guides explain access requirements, typical timelines, costs, and reuse considerations for widely used research datasets.
Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.