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11 results for “Neotropical phylogeography”
Fig. 2 in Phylogeography of the Neotropical catfish Pimelodus albicans (Siluriformes: Pimelodidae) from río de la Plata basin, South America, and conservation remarks
Fig. 2. Map showing the collecting sites of Pimelodus albicans. The square represents the río Arrecifes, the remaining localities are indicated in the río de la Plata.
Fig. 4 in Phylogeography of the Neotropical catfish Pimelodus albicans (Siluriformes: Pimelodidae) from río de la Plata basin, South America, and conservation remarks
Fig. 4. Minimum spanning network of P. albicans haplotypes. The number of mutational steps separating each haplotype were represented by dots. Pointed branches represent alternatives links. The size of the circles represents the frequency of each haplotype.
Fig. 1 in Phylogeography of the Neotropical catfish Pimelodus albicans (Siluriformes: Pimelodidae) from río de la Plata basin, South America, and conservation remarks
Fig. 1. Hypotheses of phylogenetic relationship among three Siluriformes families: Pimelodidae, Heptapteridae, Pseudopimelodidae. a- Cladogram presented by de Pinna (1998). b- Consensus tree among three most parsimonious topologies based on cyt b sequences modified from Hardman (2005). Numbers above nodes are posterior probabilities recovered by the Bayesian analysis for those clades common to both parsimony and likelihood topologies. Nodes with 0 failed to reject the null hypothesis of zero length, and are considered falsely resolved. c- Maximum parsimony analysis of rag1 and rag2 sequences showing likelihood bootstrap values and Bayesian posterior probabilities (as %) modified from Sullivan et al. (2006).
Fig. 3 in Phylogeography of the Neotropical catfish Pimelodus albicans (Siluriformes: Pimelodidae) from río de la Plata basin, South America, and conservation remarks
Fig. 3. Maximum likelihood tree based on GTR+G model, showing Bayesian support values in the nodes. Pimelodidae family appears basal and paraphyletic whereas P. albicans conforms as a monophyletic assemblage. Pimelodus albicans clade shows four monophyletic groups with strong clade support.
Data from: Recent chapters of Neotropical history overlooked in phylogeography: shallow divergence explains phenotype and genotype uncoupling in Antilophia manakins
Establishing links between phenotypic and genotypic variation is a central goal of evolutionary biology, as they might provide important insights into evolutionary processes shaping genetic and species diversity in nature. One of the more intriguing possibilities is when no genetic divergence is found to be associated with conspicuous phenotypic divergence. In that case, speciation theory predicts that phenotypic divergence may still occur in the presence of significant gene flow—thereby resulting in little genomic divergence—when genetic loci underpinning phenotypes are under strong divergent selection. However, a finding of phenotypic distinctiveness with weak or no population genetic structure may simply result from low statistical power to detect shallow genetic divergences when small datasets are used. Here, we used a subgenomic dataset of 2386 ultraconserved elements to explore genome-wide divergence between two species of Antilophia manakins, which are phenotypically distinct yet evidently lack strong genetic differentiation according to previous studies based on a limited number of loci. Our results revealed clear population structure that matches the two phenotypes, supporting the idea that smaller datasets lacked the power to detect this recent divergence event (likely < 100 k ya). Indeed, we found little or no introgression between the species, as well as evidence of genome-wide divergence. One implication of our study is that the Araripe plateau may be a hotspot of cryptic-diverging forest Cerrado populations. Besides their use in biogeography, subgenomic datasets may help redefine local conservation programs by revealing cryptic population structure that may be key to population management.
Data from: Recent chapters of Neotropical history overlooked in phylogeography: shallow divergence explains phenotype and genotype uncoupling in Antilophia manakins
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Scripts from: Distinct intraspecific diversification dynamics in Neotropical montane versus lowland canopy birds (Thraupidae: <em>Tangara</em>) revealed by whole-genome comparative phylogeography
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Data from: Phylogeography of the Neotropical epiphytic orchid, Brassavola nodosa: evidence for a secondary contact zone in northwestern Costa Rica
Spatial patterns of genetic variation can reveal otherwise cryptic evolutionary and landscape processes. In northwestern Costa Rica, an approximately concordant genetic discontinuity occurs among populations of several plant species. We conducted phylogeographic analyses of an epiphytic orchid, Brassavola nodosa, to test for genetic discontinuity and to explore its underlying causes. We genotyped 18 populations with 19 nuclear loci and two non-coding chloroplast sequence regions. We estimated genetic diversity and structure, relative importance of pollen and seed dispersal, and divergence time to understand how genetic diversity was spatially partitioned. Nuclear genetic diversity was high with little differentiation among populations (GSTn = 0.065). In contrast, chloroplast haplotypes were highly structured (GSTc = 0.570) and reveal a discontinuity between northwestern and southeastern populations within Costa Rica. Haplotype differences suggest two formerly isolated lineages that diverged approximately 10,000-100,000 YBP. Haplotype mixing and greater genetic diversity occur in an intermediate transition zone. Patterns of nuclear and chloroplast data were consistent. Different levels of genetic differentiation for the two genomes reflect the relative effectiveness of biotic versus abiotic dispersers of pollen and seeds. Isolation of the two lineages likely resulted from the complex environmental and geophysical history of the region. Our results suggest a recent cryptic seed dispersal barrier and/or zone of secondary contact. We hypothesize that powerful northeasterly trade winds hinder movement of wind-borne seeds between the two regions, while the multi-directional dispersal of pollen by strong-flying sphinx moths resulted in lower differentiation of nuclear loci.
Data from: Phylogeography of the Neotropical epiphytic orchid, Brassavola nodosa: evidence for a secondary contact zone in northwestern Costa Rica
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Data from: Comparative phylogeography of mainland and insular species of Neotropical molossid bats (Molossus)
<p>Genetic structures, historical events, habitat preferences, and geographic barriers might result in distinct patterns in insular versus mainland populations. Comparison between these two biogeographic systems provides an opportunity to investigate the relative role of isolation in phylogeographic patterns and to elucidate the importance of evolution and demographic history in population structure. Herein we use a genotype by sequencing approach (GBS) to explore population structure within three species of mastiff bats (Molossus molossus, M. coibensis, and M. milleri), which represent different ecological histories and geographical distributions in the genus to explore phylogeographic patterns and better understand the role of geographic barriers in their dispersal and gene flow. We tested the hypotheses that oceanic straits serve as barriers to dispersal in Caribbean bats and that isolated island populations are more likely to experience genetic drift and bottlenecks relative to highly connected ones, which should have different phylogeographic patterns. We show that population structures vary according to general habitat preferences, to levels of population isolation, and to historical fluctuations in climate. In our dataset, mainland geographic barriers played only a small role in isolation of lineages. However, oceanic straits posed a partial barrier to the dispersal for some populations within some species (M. milleri), but do not seem to disrupt gene flow in others (M. molossus). Lineages on distant islands undergo genetic bottlenecks more frequently than island lineages closer to the mainland, which have a greater exchange of haplotypes.</p>
Data from: Comparative phylogeography of mainland and insular species of Neotropical molossid bats (Molossus)
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Allen Brain Atlas
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DANDI Archive for NWB datasets
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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.