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74 results for “evolutionary processes”
Evolutionary and ecological processes determining properties of the $\bm G$-matrix
<p>The $\bm G$-matrix is the matrix of additive genetic variances and covariances for a vector of phenotypes. Here we apply the classical theory for the balance between selection drift and mutations to find the contributions to $\bm G$ from each locus. The fitness is approximated by a linear function of phenotypes. Fluctuations in the environment generate variation in the coefficients of the fitness function. We show that the $\bm G$-matrix can be decomposed into 4 additive components generated by selection, drift, mutations and environmental fluctuations. Selection is on average counteracted by the other three processes included in Fisher's concept of the deterioration of the environment, in accordance with Frank's approximate conservation law proposing that the response to selection at stasis on average is canceled by effects of drift and mutations. The theory illustrates that Fisher's fundamental theorem cannot be used to accumulate selection through time to describe adaption unless the other effects are corrected for. Another implication of the analyses is that the factor loadings to the eigenvector of the $\bm G$-matrix with the least eigenvalue are likely to indicate which characters contributing the most to the fitness function. This is information notoriously difficult to obtain in natural populations. </p>
Unveiling the Patterns of Reticulated Evolutionary Processes with Phylogenomics: Hybridization and Polyploidy in the genus Rosa
<p>Reticulation, caused by hybridization and allopolyploidization, is considered an important and frequent phenomenon in the evolution of numerous plant lineages. Although both processes represent important driving forces of evolution, they are mostly ignored in phylogenetic studies involving a large number of species. Indeed only a scattering of methods exists to recover a comprehensive reticulated evolutionary history for a broad taxon sampling. Plastid markers, sometimes combined with a few nuclear sequences, are therefore favored, even though they restrict in-depth studies of hybridization and polyploidization. The genus <i>Rosa</i> encompasses c. 150 species widely distributed throughout the northern hemisphere and represents a challenging taxonomic group in which hybridization and polyploidization are prominent. Our main objective was to develop a general framework that would take patterns of reticulation into account in the study of the phylogenetic relationships among <i>Rosa</i> species. Using amplicon sequencing we targeted allele variation in the nuclear genome as well as haploid sequences in the chloroplast genome. A stepwise diploids-first approach was developed to reconstruct the reticulate evolutionary history of the genus <i>Rosa</i>. We successfully recovered robust plastid and nuclear phylogenies and performed in-depth tests for several scenarios of hybridization. Using this strategy, we were able to resolve most of the evolutionary relationships among <i>Rosa</i> subgenera, sections, and selected species, and we provide new directions for a future revision of the infrageneric classification in <i>Rosa</i>. The stepwise strategy proposed here can be used to reconstruct the phylogenetic relationships of other challenging taxonomic groups with large numbers of hybrid and polyploid taxa.</p>
Evolutionary conservation and diversification of auditory neural circuits that process courtship songs in Drosophila
<p><span>Acoustic communication signals diversify even on short evolutionary time scales. To understand how the auditory system underlying acoustic communication could evolve, we conducted a systematic comparison of the early stages of the auditory neural circuit involved in song information processing between closely-related fruit-fly species. Male <em>Drosophila</em> <em>melanogaster</em> and <em>D</em>. <em>simulans</em> produce different sound signals during mating rituals, known as courtship songs. Female flies from these species selectively increase their receptivity when they hear songs with conspecific temporal patterns. Here, we first confirmed interspecific differences in temporal pattern preferences; <em>D</em>. <em>simulans</em> preferred pulse songs with longer intervals than <em>D</em>. <em>melanogaster</em>. Primary and secondary song-relay neurons, JO neurons and AMMC-B1 neurons, shared similar morphology and neurotransmitters between species. The temporal pattern preferences of AMMC-B1 neurons were also relatively similar between species, with slight but significant differences in their band-pass properties. Although the shift direction of the response property matched that of the behavior, these differences are not large enough to explain behavioral differences in song preferences. This study enhances our understanding of the conservation and diversification of the architecture of the early-stage neural circuit which processes acoustic communication signals.</span></p>
Data from: Complex evolutionary processes maintain an ancient chromosomal inversion
<p>Genome re-arrangements such as chromosomal inversions are often involved in adaptation. As such, they experience natural selection, which can erode genetic variation. Thus, whether and how inversions can remain polymorphic for extended periods of time remains debated. Here we combine genomics, experiments, and evolutionary modeling to elucidate the processes maintaining an inversion polymorphism associated with the use of a challenging host plant (Redwood trees) in <em>Timema </em>stick insects. We show that the inversion is maintained by a combination of processes, finding roles for life-history trade-offs, heterozygote advantage, local adaptation to different hosts, and gene flow. We use models to show how such multi-layered regimes of balancing selection and gene flow provide resilience to help buffer populations against the loss of genetic variation, maintaining the potential for future evolution. We further show that the inversion polymorphism has persisted for millions of years and is not a result of recent introgression. We thus find that rather than being a nuisance, the complex interplay of evolutionary processes provides a mechanism for the long-term maintenance of genetic variation.</p>
Spatial controls on eco-evolutionary processes in microbial communities
<div> <p><span>Microorganisms are the most biodiverse life forms on our planet, yet we know little about the spatial processes underlying their ecology and evolution. Here, we highlight the importance of two spatial processes that act on individual cells – spatial intermixing of different populations and mechanical cell shoving during growth – to improve our understanding of microbial eco-evolutionary dynamics. Using an individual-based model, we show that the coexistence between slow- and fast-growing populations becomes highly constrained under two conditions: when the slow- and fast-growing populations are highly spatially intermixed and when the ability to shove other cells (both conspecific and heterospecific) is weak. The potential for evolution through plasmid-mediated horizontal gene transfer between slow- and fast- growing populations also becomes restricted in the same scenario. Our modeling highlights that ecological constraints can dampen evolutionary opportunities within microbial communities due to variation in spatial intermixing and mechanical shoving at the cellular scale.</span></p> </div>
Raw data for " Unnatural evolutionary processes of SARS-CoV-2 variants and possibility of deliberate natural selection" DOI 10.5281/zenodo.8248320
<p>Compressed raw data for " Unnatural evolutionary processes of SARS-CoV-2 variants and possibility of deliberate natural selection" </p> <p>DOI 10.5281/zenodo.8248320</p>
Evolutionary and ecological processes determining properties of the $\bm G$-matrix
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Data from: Complex evolutionary processes maintain an ancient chromosomal inversion
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Unveiling the Patterns of Reticulated Evolutionary Processes with Phylogenomics: Hybridization and Polyploidy in the genus Rosa
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Data from: Punctuated versus gradual shifts in the multivariate evolutionary process: a test with paired radiations of scincid lizards
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Data from: Counting chicks before they hatch: Extending the observed lifetime to better characterise evolutionary processes in the wild
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Data from: Divergent evolutionary processes associated with colonization of offshore islands
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Global biogeography and diversification of a group of brown seaweeds (Phaeophyceae) driven by clade-specific evolutionary processes
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Spatial controls on eco-evolutionary processes in microbial communities
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A Likelihood-Ratio Test for Lumpability of Phylogenetic Data: Is the Markovian Property of an Evolutionary Process Retained in Recoded DNA?
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Contrasting patterns of sequence variation in steelhead populations reflect distinct evolutionary processes
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Evolutionary conservation and diversification of auditory neural circuits that process courtship songs in Drosophila
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Evolutionary and ecological processes influence a plant-bumble bee network
<p>Species interactions, such as those between plants and pollinators, are known to be shaped by both evolutionary history and ecological factors. However, the relative importance of neutral- and niche-based ecological processes is still under debate, and little is known about which ecological factors are most important for explaining phylogenetic patterns in interaction networks. Using a plant-bumble bee network comprising 2428 interactions between 29 plant species and 12 bumble bee species in the Himalaya-Hengduan mountains, we tested for phylogenetic signal and whether phylogenetic pattern was explained by 14 plant and four bumble bee ecological traits. We also tested whether trait matching between bumble bee tongue length and flower tube depth explained interaction patterns. All of the measured traits contributed to explaining the phylogenetic attraction pattern, among them, species abundances, nectar volume, and nectar sugar concentration were the most important predictors. Meanwhile, trait mismatch between bumble bee tongue length and flower tube depth failed to predict the interactions, with short-tongued bees generalized across tube depths. Our findings suggest neutral-based process seems to matter more than niche-based processes in this system and help to predict how interactions will respond when key traits are altered by pollinator declines and global change effects.</p>
Data from: Evolutionary processes and its environmental correlates in the cranial morphology of western chipmunks (Tamias)
The importance of the environment in shaping phenotypic evolution lies at the core of evolutionary biology. Chipmunks of the genus Tamias (subgenus Neotamias) are part of a very recent radiation, occupying a wide range of environments with marked niche partitioning among species. One open question is if and how those differences in environments affected phenotypic evolution in this lineage. Herein we examine the relative importance of genetic drift versus natural selection in the origin of cranial diversity exhibited by clade members. We also explore the degree to which variation in potential selective agents (environmental variables) are correlated with the patterns of morphological variation presented. We found that genetic drift cannot explain morphological diversification in the group, thus supporting the potential role of natural selection as the predominant evolutionary force during Neotamias cranial diversification, although the strength of selection varied greatly among species. This morphological diversification, in turn, was correlated with environmental conditions, suggesting a possible causal relationship. These results underscore that extant Neotamias represent a radiation in which aspects of the environment might have acted as the selective force driving species' divergence.
Data from: Proteomic evidence of a paedomorphic evolutionary process within a marine snail species: a strategy for adapting to extreme ecological conditions?
The exposed and sheltered ecotypes of the marine snail Littorina saxatilis from European rocky shores are considered a key model system to study adaptation and ecological speciation. Previous studies showed that two ecotypes (RB and SU) of this species in NW Spain have differently adapted to different shore levels and microhabitats. In order to understand how this divergent adaptive process has been accomplished, we followed a quantitative proteomic approach to investigate the proteome variation in a number of different biological factors, i.e. ecotype, ontogeny and their interactions. This approach allowed testing the hypothesis that one of the ecotypes has evolved by paedomorphosis, and also whether or not the molecular mechanisms related to ecotype differentiation are set up in early developmental stages. Additionally the identification of some candidate proteins by mass spectrometry provides some functional insights about these evolutionary processes. Results from this study provided evidence of higher ontogenetic differentiation at proteome level in the RB (metamorphic) than in SU (paedomorphic) ecotype that point to the possibility of juvenile stage retention in this latter ecotype. The level of protein expression (proteome) differences between ecotypes maintained nearly constant from late embryonic stages to adulthood, although some proteins involved in these changes considerably differed in embryonic compared to other ontogenetic stages. Paedomorphosis may be the evolutionary response of the SU ecotype of solving the trade-off during sexually immaturity that is caused by the evolution of small size arising from adaptation to the wave exposed habitat. Some potential candidate genes of adaptation related to energetic metabolism have been identified, providing a promising baseline for future functional analyses.
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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)
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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.