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333 results for “Convergent evolution”
Data from: The acacia ants revisited: convergent evolution and biogeographic context in an iconic ant/plant mutualism
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Parallel and convergent evolution in genes underlying seasonal migration
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Episodic evolution of a protracted convergent margin revealed by detrital zircon geochronology in the Greater Caucasus
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Diadromy drives elevated rates of trait evolution and ecomorphological convergence in Clupeiformes (herring, shad, and anchovies)
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Convergent evolution of giant size in eurypterids
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Different genes are recruited during convergent evolution of pregnancy and the placenta
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Data from: Convergent rates of protein evolution identify novel targets of sexual selection in primates
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Data from: CAnDI: a new tool to investigate conflict in homologous gene trees and explain convergent trait evolution
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Deep-time convergent evolution in animal communication presented by shared adaptations for coping with noise in lizards and other animals
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Evidence for continent-wide convergent evolution and stasis throughout 150 years of a biological invasion
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Comparative genomics sheds new light on the convergent evolution of infrared vision in snakes
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Data from: Convergent evolution of niche structure in Northeast Pacific kelp forests
<ol> <li>Much of the morphological and ecological diversity present on earth is believed to have arisen through the process of adaptive radiation. Yet, this is seemingly at odds with substantial evidence that niches tend to be similar among closely related species (i.e., niche conservatism). Identifying the relative importance of these opposing processes in driving niche evolution under different circumstances is therefore essential to our understanding of the interaction between ecological and evolutionary phenomena.</li> <li>In this study, we make use of recent advances in our understanding of the phylogeny of kelps (Laminariales) to investigate niche evolution in one of the most ecologically significant groups of benthic habitat-forming organisms on the planet. We quantify functional traits and use community sampling data from a kelp diversity hotspot to determine which traits are responsible for the habitat (β) niche of kelps and whether they are labile or conserved across the kelp phylogeny. </li> <li>We find that combinations of functional traits have evolved convergently across kelp subclades and that these functional traits are significant predictors of community structure. Specifically, traits associated with whole-kelp structural reinforcement and material properties were found to be significantly correlated with species distributions along a gradient of wave disturbance and thus predict the outcome of environmental filtering. However, kelp assemblages were made up of species that are more phylogenetically distinct than expected (i.e., phylogenetic overdispersion), suggesting that niche partitioning along this gradient of wave disturbance has been an important driver of divergence between close relatives.</li> <li>These results are consistent with the hypothesis that environmental filtering associated with wave disturbance plays an essential role in determining the habitat niche of kelps across local communities and further suggest that this process can drive phenotypic divergence and niche partitioning between close relatives. We propose that parallel adaptive radiation of kelp subclades has shaped the diversity and species composition of kelp forests in the Northeast Pacific and we discuss how evidence from the literature on incipient or ongoing speciation events support this hypothesis.</li> </ol>
Adaptive and non-adaptive convergent evolution in feather reflectance of Channel Islands songbirds
<p>Convergent evolution is widely regarded as a signature of adaptation. But testing the adaptive consequences of convergent phenotypes is challenging, making it difficult to exclude non-adaptive explanations for convergence. Here, we combined feather reflectance spectra and phenotypic trajectory analyses with visual and thermoregulatory modeling to test the adaptive significance of dark plumage in songbirds of the California Channel Islands. By evolving dark dorsal plumage, island birds are generally less conspicuous to visual-hunting raptors in the island environment than mainland birds. Dark dorsal plumage also reduces the energetic demands associated with maintaining homeothermy in the cool island climate. We also found an unexpected pattern of convergence, wherein the most divergent island populations evolved greater reflectance of near-infrared radiation. However, our heat flux models indicate that elevated near-infrared reflectance is not adaptive. Analysis of feather microstructure suggests that island-mainland differences are related to coloration of feather barbs and barbules rather than their structure. Our results indicate that adaptive and non-adaptive mechanisms interact to drive plumage evolution in this system. This study sheds light on the mechanisms driving the association between dark color and wet, cold environments across the tree of life, especially in island birds.</p>
Raw data and Matlab code for: Convergence in carnivorous pitcher plants reveals a mechanism for composite trait evolution
<p>Composite traits involve multiple components that, only when combined, gain a new synergistic function. Thus, how they evolve remains a puzzle. We combined field experiments, microscopy, chemical analyses and laser Doppler vibrometry with comparative phylogenetic analyses to show that two carnivorous <em>Nepenthes</em> pitcher plant species convergently evolved identical adaptations in three distinct traits to acquire a new, composite trapping mechanism. Comparative analyses suggest that this new trait arose convergently via 'spontaneous coincidence' of the required trait combination, rather than directional selection in the component traits. Our results indicate a plausible mechanism for composite trait evolution and highlight the importance of stochastic phenotypic variation as a facilitator of evolutionary novelty.</p>
Convergent evolution and predictability of gene copy numbers associated with diets in mammals
<p>Convergent evolution, the evolution of the same or similar phenotypes in phylogenetically independent lineages, is a widespread phenomenon in nature. If the genetic basis for convergent evolution is predictable to some extent, it may be possible to infer organismic phenotypes and adaptability based on genome sequence data. While repeated amino acid changes have been studied in association with convergent evolution, relatively little is known about the potential contribution of repeated gene copy number changes. In this study, we explore whether certain gene copy number changes are linked to diet shifts in mammals and assess if trophic ecology can be inferred from the copy numbers of a specific set of genes. Using 86 mammalian genome sequences, we identified several genes with higher copy numbers in herbivores, carnivores, and omnivores, even after phylogenetic corrections. We were able to confirm previous findings on genes such as amylase, olfactory receptor, and xenobiotic metabolism genes, and identify novel genes whose copy numbers correlate with dietary patterns. For example, omnivores exhibited higher copy numbers of genes encoding gene expression regulators. We also established a discriminant function based on the copy numbers of 13 genes that can help predict trophic ecology based on genome sequence data. These findings highlight a possible association between convergent evolution and repeated copy number changes in specific genes, suggesting the potential to develop a method for predicting animal ecology and adaptability from genome sequence data.</p>
Convergent evolution of desiccation tolerance in grasses
<p>Desiccation tolerance has evolved repeatedly in plants as an adaptation to survive extreme environments. Plants use similar biophysical and cellular mechanisms to survive life without water, but convergence at the molecular, gene, and regulatory levels remains to be tested. Here, we explore the evolutionary mechanisms underlying the recurrent evolution of desiccation tolerance across grasses. We present genomes of three resurrection grasses native Sub-Saharan Africa. We leveraged comparative genomic and transcriptomic approaches to identify patterns of convergence and divergence across these species. <strong></strong>We observed substantial overlap in gene duplication and expression associated with desiccation, and syntenic genes of shared origin are activated across species, indicative of parallel evolution. In other cases, similar metabolic pathways are induced, but using different gene sets, pointing towards phenotypic convergence. Species-specific mechanisms supplement these shared core mechanisms, underlining the complexity and diversity of evolutionary adaptations. Our findings provide insight into the evolutionary processes driving desiccation tolerance and highlight the roles of parallel mutation and complementary pathway adaptation in response to environmental challenges.</p>
Data and code for: Host-use Drives Convergent Evolution in Clownfish
<p>This folder contains the following files:</p> <p>data/Alignments_WithOutgroups.tar.gz:<br> Contains the alignments of 10,720 genes with the sequences of the outgroup Pomacentrus moluccensis. The gene IDs correspond to the ID of the Amphiprion frenatus reference genome (Marcionetti et al., 2018; https://datadryad.org/stash/dataset/doi:10.5061/dryad.nv1sv). The position of the gene on the Amphiprion percula chromosomes is also reported. For information on the methods and sample names, please refer to the publication. These alignments were used to infer the species tree with ASTRAL-III. Alignments for the genes selected with SortaDate and used for dating with BEAST are also available and are: chr04_g2455.t1.WithOutgroup.phy, chr05_g51486.t1.WithOutgroup.phychr05_g56452.t1.WithOutgroup.phy, chr08_g50086.t1.WithOutgroup.phy, chr09_g35092.t1.WithOutgroup.phy, chr09_g49030.t1.WithOutgroup.phy, chr10_g47484.t1.WithOutgroup.phy, chr11_g5494.t1.WithOutgroup.phy, chr11_g32313.t1.WithOutgroup.phy, chr12_g7961.t1.WithOutgroup.phy, chr12_g27572.t1.WithOutgroup.phy, chr12_g32580.t1.WithOutgroup.phy, chr13_g33152.t1.WithOutgroup.phy, chr15_g60485.t1.WithOutgroup.phy, chr16_g18013.t1.WithOutgroup.phy, chr17_g60288.t1.WithOutgroup.phy, chr22_g6154.t1.WithOutgroup.phy, chr22_g22141.t1.WithOutgroup.phy, chr22_g29206.t1.WithOutgroup.phy, chr23_g36756.t1.WithOutgroup.phy. </p> <p>data/DatedTree.WithOutgroup.tree:<br> BEAST2 output. The clownfish dated phylogenetic tree with the outgroup Pomacentrus moluccensis used for rooting. The tree was obtained with BEAST2, using 20 most informative genes. For each partition, we applied a GTR+ G site model and an uncorrelated relaxed clock with a lognormal distribution. A secondary calibration points was used, setting uniform prior from 10 to 18 MYA for the crown age of clownfishes. For more information on the methods, please refer to the publication. </p> <p><br>data/Example.DatFile.evolver.tar.gz: <br> Templates of the .dat files (MCcodonNSbranchsites.Shifts_to_Entacmaea.dat, MCcodonNSbranchsites.Shifts_to_Radianthus.dat) containing information to simulate sequences with evolver. The two .dat files were used to simulate sequences under different selection scenarios (no positive selection, convergent positive selection, positive selection on "long" or "clade" branches only) during the shifts to Entacmaeae or Radianthus hosts. The files were used with the scripts Create_DATFile_Evolved.Shift_to_Entacmaea.py and Create_DATFile_Evolved.Shift_to_Radianthus.py to generate .dat files for all the conditions, used then in evolver. For more information on the methods, please refer to the publication. </p> <p>data/DatFiles.Evolver.tar.gz<br> The .dat files that were obtained for the different omega and evolutionary scenarios, for shifts to Entacmaea and Radianthus hosts. The files are obtained with the template files (Example.DatFile.evolver.tar.gz) and the scripts Create_DATFile_Evolved.Shift_to_Entacmaea.py and Create_DATFile_Evolved.Shift_to_Radianthus.py. The resulting .dat files are run in evolver:</p> <p> evolverNSbranchsites 6 DAT_FILES.dat </p> <p> to obtain the codon alignment files to perform power and false positive rate analyses. For more information, please refer to the publication. </p> <p>data/Alignments_ProteinCodingGenes.tar.gz: <br> Contains the alignments of the 18,390 protein-coding genes analysed in the study. The gene IDs correspond to the ID of the Amphiprion frenatus reference genome (Marcionetti et al., 2018; https://datadryad.org/stash/dataset/doi:10.5061/dryad.nv1sv). The position of the gene on the Amphiprion percula chromosomes is also reported. For information on the methods and sample names, please refer to the publication. These alignments were used to test for convergent positive selection occurring during host shifts. </p> <p>data/Example.ControlFiles.CodeML.tar.gz<br> It contains examples of the control files for the null model (no positive selection, H0), alternative model (positive selection, H1), and the site model M1a (used to verify the correct optimization of the null model). The final control files for each gene and condition (shift to Entacmaea or Readianthus host) were generated with the script Create_CTLFile_CodeML.py. </p> <p>data/LabelledTree.CodeML.tar.gz<br> Tree files used in codeml analyses, with shifts to Entacmaea labelled as foreground branches (ClownTree.Rooted.Label_Entacmaea.nwk, ClownTree.Rooted.Label_Entacmaea.NoLongBranches.nwk) and shifts to Radianthus labelled as foreground branches (ClownTree.Rooted.Label_Radianthus.nwk, ClownTree.Rooted.Label_Radianthus.NoLongBranches.nwk). The trees do or do not have the 3 "long branches" species (A. ocellaris, A. percula, P. biaculeatus). For more information, refer to the publication. An additional folder (Additional_labelled_trees_for_test_on_simulated_data.tar.gz) containg the trees with only specific species kept and labelled. These trees were used for codeml analyses on simulated alignments, to investigate false positives and power of the analyses. For more information, refer to the publication. </p> <p>data/SimulatedData_BranchSite_Results.tar.gz<br> It contains the results for the branch site model on the simulated data. Each file name reports the simulated scenario (Simulated without positive selection: Simulated_NO_PS_Entacmaea / Simulated_NO_PS_Radianthus; simulated convergent positive selection: Simulated_PS_Entacmaea / Simulated_PS_Radianthus; Simulated positive selection on long branches : Simulated_PS_LongBranches / Simulated_PS_Premnas; Simulated positive selection on "clade" branches: Simulated_PS_AKA / Simulated_PS_Ephi), as well as the tested scenario (Tested for positive selection: Tested_PS_Entacmaea / Tested_PS_Radianthus; or tested for positive selection on specific branches). Each file contains the information on the name of the original file, the simulated scenario, the tested scenario, the simulated omega, the replicate number, the log-likelihood of the tested model (site model: M1a, null model without positive selection: H0, alternative model with positive selection: H1), and the p-values associated to the likelihood-ratio test (LRT_pvalue). For more information, refer to the publication. </p> <p>data/EmpiricalData_BranchSite_Results.tar.gz<br> It contains the results for the branch site model for the 18,390 protein-coding genes tested in the study, for shifts to Entacmaea (Results.BranchSiteModel.Shifts_To_Entacmaea.txt, Results.BranchSiteModel.Shifts_To_Entacmaea.NoLongBranches.txt) and shifts to Radianthus hosts (Results.BranchSiteModel.Shifts_To_Radianthus.txt, Results.BranchSiteModel.Shifts_To_Radianthus.NoLongBranches.txt). Each file contains information on the chromosome information of the analyzed gene, the name of the gene, the log-likelihood of the M1a model (site model, used to verify the correct optimization of the null model), the log-likelihood of the null model (H0) and the alternative model (H1), and the p-values associated to the likelihood-ratio test (LRT_pvalue). These p-values were subsequentially corrected for multiple testing. For more information, refer to the publication. </p> <p>data/ASR_adult_host_4st.rds<br> It contains the results of reproductive host associations ancestral states reconstruction to the form of a list() R object. In the list $joint returns a tree with joint ancestral states (returns the most likely ancestral reproductive host association at nodes), $marginal returns a tree with the likelihood of each state at nodes, $simmap returns 100 stochastic maps of ancestral states along branches of the tree calculated over the marginal reconstruction, $map returns a map of ancestral states along branches estimated from the joint reconstruction.</p> <p>data/Absolute_host_assoc.tar.gz<br> It contains description of the sources used for characterizing host associations for each species of clownfish. For each species, we provide a list of pictures used from public citizen science databases with associated urls and additional published references if used. reprod_host.csv contains our final classification of reproductive host associations.</p> <p>data/DEC.tar.gz<br> It contains files used for the biogeographic reconstruction (areas_adjacency_clowns.txt, areas_clowns.txt, calibrated_tree.tre, distances.txt, geo_col.txt) and results of the biogeographic reconstruction. geo_obj.rds is a R object containing the joint reconstruction of ancestral biogeographic states formatted for being used in phylogenetic comparative methods analyses. list_geo_obj.rds is a list of a 100 similar objects generated from stochastic maps of ancestral biogeographic states.</p> <p>data/phenotype.tar.gz<br> It contains results of clownfish individuals phenotyping. Within each file, the first column is the name of the species identified from the picture. morph_pca.csv contains results of the pca analysis performed on the procrustes of clownfish individuals. morph_traits.csv contains traits values calculated from the prcrustes of clownfish individuals. colorRGB.csv contains results of the pca analysis performed on the concatenated red green and blue channels of each clownfish image. colorWOB.csv contains results of the pca analyses performed independantly on white, orange and black channels. columns with names ending with W represent pca axis generated from white channel (O: orange channel, B: black channel)</p> <p>scripts/Create_CTLFile_CodeML.py: <br> Script used to generate the codeml control files for codeml analyses (simulated data or empirical data). The scripts needs the path to the folder were the codon alignments (see Alignments_ProteinCodingGenes.tar.gz or Alignments created for simulations) are found, the path were the output file are gonna be written; the path to the alignment, tree file and output as they will be written in the control file; the output suffix. </p> <p> python Create_CTLFile_CodeML.py PATH/to/Alignments/ PATH/to/out/CTL_files/ alignment_in_ctlFile tree_in_ctlFile path_to_output_in_ctlFile Output_Suffix</p> <p> This produces the control files of the null model (H0, no positive selection) and alternative model (H1, positive selection), that can be run with codeml</p> <p> codeml CONTROL_FILE.ctl </p> <p> to obtain the results. This was done using the tree with shifts to Ratianthus or Entacmaea as foreground branches (see LabelledTree.CodeML.tar.gz). This was also performed on real data or simulated data. For more information, refer to the publication. </p> <p><br>scripts/Create_DATFile_Evolved.Shift_to_Entacmaea.py<br>scripts/Create_DATFile_Evolved.Shift_to_Radianthus.py<br> Scripts used to generate the .dat files for evolver simulations. The scripts need the template .dat files (provided in Example.DatFile.evolver.tar.gz) and the information of the path where to save the resulting .dat files:</p> <p> python Create_DATFile_Evolved.Shift_to_Entacmaea.py MCcodonNSbranchsites.Shifts_to_Entacmaea.dat Out_dat_files_Entacmaeae/</p> <p> python Create_DATFile_Evolved.Shift_to_Radianthus.py MCcodonNSbranchsites.Shifts_to_Radianthus.dat Out_dat_files_Radianthus/</p> <p> The .dat files obtained are then run in evolver to generate the simulated alignments:</p> <p> evolverNSbranchsites 6 DAT_FILES.dat </p> <p> The simulated alignments and tree were then used in codeml to evaluate power and false positive rate of positive selection analyes. The file Create_CTLFile_CodeML.py was used to create control files and control files were run with codeml. For more information, refer to the publication. </p> <p>scripts/ASR_adult_host.R<br> Script used to perform the ancestral state reconstruction of reproductive host assocication. It uses data/Absolute_host_assoc/reprod_host.csv and data/BEAST2.DatedTree.WithOutgroup.tree and outputs the data/ASR_adult_host_4st.rds file. It requires the instalation of a few R packages ("ape", "igraph", "mvMORPH", "scales", "sda", "TeachingDemos","png", "corHMM","phytools") that can be installed with the function (install.packages("package-name"))</p> <p> Rscript scripts/ASR_adult_host.R</p> <p>scipts/BGB_fit.R<br> Script used to perform the ancestral state reconstruction of biogeographic region. It uses data embeded into data/DEC.tar.gz and outputs data/geo_obj.rds and data/list_geo_obs.rds. It requires the instalation of a few R packages ("ape","BioGeoBEARS", "GenSA", "FD", "snow", "parallel","cladoRcpp","rexpokit") that can be installed with the function (install.packages("package-name")).</p> <p> Rscript scripts/BGB_fit.R</p> <p>scripts/PCM_fit.R<br> Script used to perform the phylogenetic comparative analyses. It uses data embeded into the data folder. First part performs multivariate phylogenetic anova. Second part performs model testing and parameter estimations using multivariate and univariate datasets and ancestral state reconstruction joint maps. Third part performs model testing and parameter estimations using multivariate and univariate datasets and 100 stochastic maps from marginal ancestral state reconstructions. Results are saved into .rds files. It requires the instalation of a few R packages ("ape", "phytools", "mvMORPH", "RPANDA", "geiger","OUwie") that can be installed with the function (install.packages("package-name")).</p> <p> Rscript scripts/PCM_fit.R</p> <p>scripts/manova_var.R<br> Script used to estimate uncertainties on the mANOVA that are due to intraspecific variation. It uses data embeded into the data folder. Results are saved into .rds files. It requires the instalation of a few R packages ("ape", "phytools", "mvMORPH", "RPANDA", "geiger","OUwie") that can be installed with the function (install.packages("package-name")).</p> <p> Rscript scripts/manova_var.R</p> <p> </p> <p> </p> <p> </p>
Data from: A low-latitude species pump: Peripheral isolation, parapatric speciation and mating-system evolution converge in a marine radiation
<p><span>Geologically recent radiation can shed light on speciation processes, but incomplete lineage sorting and introgressive gene flow render accurate evolutionary reconstruction and interpretation challenging. Independently evolving metapopulations of low-dispersal taxa may provide an additional level of phylogeographic information, given sufficiently broad sampling and genome-wide sequencing. Evolution in the marine brown algal genus </span><span>Fucus</span><span> in the south-eastern Atlantic was shaped by Quaternary climate-driven range shifts. Over this timescale, divergence and speciation occurred against a background of expansion-contraction cycles from multiple refugia, together with mating-system shifts from outcrossing (dioecy) to selfing hermaphroditism. We tested the hypothesis that peripheral isolation of range edge (dioecious) </span><span>F. vesiculosus</span><span> led to parapatric speciation and radiation of hermaphrodite lineages. Species tree methods using 876 single-copy nuclear genes and extensive geographic coverage produced conflicting topologies with respect to geographic clades of </span><span>F. vesiculosus</span><span>. All methods, however, revealed a new and early diverging hermaphrodite species, </span><span>Fucus macroguiryi</span><span> sp. Nov. Both the multispecies coalescent and polymorphism-aware models (in contrast to concatenation) support sequential paraphyly in </span><span>F. vesiculosus</span><span> resulting from distinct evolutionary processes. Our results support 1) peripheral isolation of the southern </span><span>F. vesiculosus</span><span> clade prior to parapatric speciation and radiation of hermaphrodite lineages – a "low latitude species pump". 2) Directional introgressive gene flow into </span><span>F. vesiculosus</span><span> around the present-day secondary contact zone (sympatric-allopatric boundary) between dioecious/hermaphrodite lineages as hermaphrodites expanded northwards, as supported by concordance analysis and statistical tests of introgression. Species boundaries in the extensive sympatric range are likely maintained by reproductive system (selfing in hermaphrodites) and reinforcement.</span></p>
The non-dereliction in evolution: Trophic specialisation drives convergence in the radiation of red devil spiders (Araneae: Dysderidae) in the Canary Islands
<p>Natural selection plays a key role in deterministic evolution, as clearly illustrated by adaptive radiations. Unlike most spiders, <em>Dysdera</em> species display a high variability of cheliceral morphologies, which has been suggested to reflect different levels of specialisation to feed on isopods. In this study, we integrate geometric morphometrics and experimental trials with a fully resolved phylogeny of the highly diverse endemic species from the Canary Islands to (1) characterize cheliceral morphologies, (2) unravel their dietary function, (3) examine if they evolved multiple times independently (4) verify whether convergent evolution of morphotypes has occurred and (5) test if specialization could lead to evolutionary irreversibility. We show the existence of nine cheliceral morphotypes and uncovered their significance for trophic ecology. Further, we demonstrate that similar ecomorphs evolved multiple times in the archipelago, providing a novel study system to explain how convergent evolution and irreversibility due to specialization may be combined to shape phenotypic diversification in adaptive radiations.</p>
Data from: Convergent evolution of disordered lipidic structural color in the fruits of Lantana strigocamara (syn. L. camara hybrid cultivar)
<p><em>Research conducted:</em> The majority of plant colors are produced by anthocyanin and carotenoid pigments, but coloration obtained by nanostructured materials (i.e., structural colors) is increasingly reported in plants. Here, we identify a multilayer photonic structure in the fruits of <em>Lantana strigocamara</em> and compare it to a previously described origin in <em>Viburnum tinus</em>.</p> <p><em>Methods:</em> We used a combination of transmission electron microscopy, serial EM tomography, scanning force microscopy, and optical simulations to characterize the photonic structure in<em> L. strigocamara</em>. We also examine the development of the structure during maturation.</p> <p><em>Key results:</em> We find that the structural color derives from a disordered, multilayered reflector consisting of lipid droplets of ~105 nm that form a plate-like structure in 3D. This structure begins to form early in development and reflects blue wavelengths of light with increasing intensity over time as the structure develops. The lipids used are likely polymers of lipid monomers.</p> <p><em>Main conclusions:</em> <em>Lantana strigocamara</em> is the second origin of a lipid-based photonic structure, convergently evolved with the structure in <em>Viburnum tinus</em>. Chemical differences between the lipids in<em> L. strigocamara</em> and those of <em>V. tinus</em> suggest a distinct evolutionary trajectory with implications for the signaling function of structural colors in fruits.</p>
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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)
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.