cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.n83b3
title: Data from: Stark sexual display divergence among jumping spider populations in the face of gene flow

description: Gene flow can inhibit evolutionary divergence by eroding genetic
 differences between populations. A current aim in speciation research is
 to identify conditions in which selection overcomes this process. We
 focused on a state of limited differentiation, asking whether selection
 enables divergence with gene flow in a set of Habronattus americanus
 jumping spider populations that exhibit three distinct male sexual display
 morphs. We found that each population is at high frequency or fixed for a
 single morph. These strong phenotypic differences contrast with low
 divergence at 210 AFLP markers, suggesting selection has driven or
 maintains morph divergence. Coinciding patterns of isolation by distance
 and ‘isolation by phenotype’ (i.e. increased genetic divergence among
 phenotypically contrasting populations) across the study area support
 several alternative demographic hypotheses for display divergence, each of
 which entails gene flow. Display-associated structure appears broadly
 distributed across the genome and the markers producing this pattern do
 not stand out from background levels of differentiation. Overall, the
 results suggest selection can promote stark sexual display divergence in
 the face of gene flow among closely related populations.
description: DFALowMid_inFST_High_inHigh_in.txtFST_Low_inLow_in.txtFST_Mid_inMid_in.txtIBDLowMid_inIBDLowMid_RscriptIBDLowMid.RFstListln_geog-distances_P3aPartialMantelLowMid_RscriptMantelLowMid.Rpheno-distancesPCALowMid_inTajima,AMOVA_inBayescanStructureAFLP_scoresArlequin_CO1
DOI: 10.5061/dryad.553hc134
title: Data from: Edge effects on growth and biomass partitioning of an Amazonian understory herb (Heliconia acuminata; Heliconiaceae)

description: PREMISE: After deforestation, environmental changes in the remaining
 forest fragments are often most intense near the forest edge, but few
 studies have evaluated plant growth or plasticity of plant growth in
 response to edge effects. METHODS: In a 2-year common garden experiment,
 we compared biomass allocation and growth of Heliconia acuminata with
 identical genotypes grown in 50 × 35 m common gardens on a 25-year-old
 edge and in a forest interior site. KEY RESULTS: Genetically identical
 plants transplanted to the forest edge and understory exhibited different
 patterns of growth and biomass allocation. However, individuals with
 identical genotypes in the same garden often had very different responses.
 Plants on forest edges also had higher growth rates and increased biomass
 at the end of the experiment, almost certainly due to the increased light
 on the forest edge. CONCLUSIONS: With over 70000 km of forest edge created
 annually in the Brazilian Amazon, phenotypic plasticity may play an
 important role in mediating plant responses to these novel environmental
 conditions.
description: Bruna&SegalindeAndrade_AJB_dataData on plant growth and abiotic conditions in common gardens described in Bruna and Segalin de Andrade (2011).
DOI: 10.5061/dryad.647h6
title: Data from: MHC-disassortative mate choice and inbreeding avoidance in a solitary primate

description: Sexual selection theory suggests that choice for partners carrying
 dissimilar genes at the major histocompatibility complex (MHC) may play a
 role in maintaining genetic variation in animal populations by limiting
 inbreeding or improving the immunity of future offspring. However, it is
 often difficult to establish whether the observed MHC dissimilarity among
 mates drives mate choice or represents a by-product of inbreeding
 avoidance based on MHC-independent cues. Here, we used 454-sequencing and
 a 10-year study of wild grey mouse lemurs (Microcebus murinus), small,
 solitary primates from western Madagascar, to compare the relative
 importance on the mate choice of two MHC class II genes, DRB and DQB, that
 are equally variable but display contrasting patterns of selection at the
 molecular level, with DRB under stronger diversifying selection. We
 further assessed the effect of the genetic relatedness and of the spatial
 distance among candidate mates on the detection of MHC-dependent mate
 choice. Our results reveal inbreeding avoidance, along with disassortative
 mate choice at DRB, but not at DQB. DRB-disassortative mate choice remains
 detectable after excluding all related dyads (characterized by a
 relatedness coefficient r &gt; 0), but varies slightly with the
 spatial distance among candidate mates. These findings suggest that the
 observed deviations from random mate choice at MHC are driven by
 functionally important MHC genes (like DRB) rather than passively
 resulting from inbreeding avoidance and further emphasize the need for
 taking into account the spatial and genetic structure of the population in
 correlative tests of MHC-dependent mate choice.
description: Mimu_Main
 datasetThis represents the main
 dataset used to run the analyses presented in the corresponding
 manuscript, computing the list of females, their age, the list of
 candidate males for each female, the spatial distance among mates and
 various measures of genetic distance among mates. Measures of genetic
 distances among mates are all detailed in the corresponding
 manuscript.Mimu_Spatial
 dataThis dataset includes
 the spatial location of the homerange for each individual involved in the
 study, in UTM coordinates. See main manuscript for further
 details.Mimu_Microsatellite
 dataThis dataset contains
 microsatellite genotypes for all individuals involved in the study. See
 corresponding manuscript for further details.Mimu_MHC
 dataThis dataset contains
 MHC-DRB and -DQB exon 2 genotypes for all individuals included in the
 study. The alleles have been deposited in Genbank (accession numbers
 listed in the corresponding manuscript) and the full list of alleles
 identified in this study is available in Huchard et al. 2012
 Immunogenetics. See corresponding manuscript for further
 details.
DOI: 10.5061/dryad.3mg2h
title: Data from: Extreme MHC class I diversity in the sedge warbler (Acrocephalus schoenobaenus); selection patterns and allelic divergence suggest that different genes have different functions

description: Background: Recent work suggests that gene duplications may play an
 important role in the evolution of immunity genes. Passerine birds, and in
 particular Sylvioidea warblers, have highly duplicated major
 histocompatibility complex (MHC) genes, which are key in immunity,
 compared to other vertebrates. However, reasons for this high MHC gene
 copy number are yet unclear. High-throughput sequencing (HTS) allows MHC
 genotyping even in individuals with extremely duplicated genes. This HTS
 data can reveal evidence of selection, which may help to unravel the
 putative functions of different gene copies, i.e. neofunctionalization. We
 performed exhaustive genotyping of MHC class I in a Sylvioidea warbler,
 the sedge warbler, Acrocephalus schoenobaenus, using the Illumina MiSeq
 technique on individuals from a wild study population. Results: The MHC
 diversity in 863 genotyped individuals by far exceeds that of any other
 bird species described to date. A single individual could carry up to 65
 different alleles, a large proportion of which are expressed
 (transcribed). The MHC alleles were of three different lengths differing
 in evidence of selection, diversity and divergence within our study
 population. Alleles without any deletions and alleles containing a 6 bp
 deletion showed characteristics of classical MHC genes, with evidence of
 multiple sites subject to positive selection and high sequence divergence.
 In contrast, alleles containing a 3 bp deletion had no sites subject to
 positive selection and had low divergence. Conclusions: Our results
 suggest that sedge warbler MHC alleles that either have no deletion, or
 contain a 6 bp deletion, encode classical antigen presenting MHC
 molecules. In contrast, MHC alleles containing a 3 bp deletion may encode
 molecules with a different function. This study demonstrates that highly
 duplicated MHC genes can be characterised with HTS and that selection
 patterns can be useful for revealing neofunctionalization. Importantly,
 our results highlight the need to consider the putative function of
 different MHC genes in future studies of MHC in relation to disease
 resistance and fitness.
description: long_reads_cDNA_sequences4inds_gDNA_cDNAsedge_warbler_genotyping_results
DOI: 10.5061/dryad.bj506
title: Data from: Long-term population size of the North Atlantic humpback whale within the context of worldwide population structure

description: Once hunted to the brink of extinction, humpback whales (Megaptera
 novaeangliae) in the North Atlantic have recently been increasing in
 numbers. However, uncertain information on past abundance makes it
 difficult to assess the extent of the recovery in this species. While
 estimates of pre-exploitation abundance based upon catch data suggest the
 population might be approaching pre-whaling numbers, estimates based on
 mtDNA genetic diversity suggest they are still only a fraction of their
 past abundance levels. The difference between the two estimates could be
 accounted for by inaccuracies in the catch record, by uncertainties
 surrounding the genetic estimate, or by differences in the timescale to
 which the two estimates apply. Here we report an estimate of long-term
 population size based on nuclear gene diversity. We increase the
 reliability of our genetic estimate by increasing the number of loci,
 incorporating uncertainty in each parameter and increasing sampling across
 the geographic range. We report an estimate of long-term population size
 in the North Atlantic humpback of ~112,000 individuals (95% CI: 45,000 –
 235,000). This value is 2-3 fold higher than estimates based upon catch
 data. This persistent difference between estimates parallels difficulties
 encountered by population models in explaining the historical crash of
 North Atlantic humpback whales. The remaining discrepancy between genetic
 and catch-record values, and the failure of population models, highlights
 a need for continued evaluation of whale population growth and shifts over
 time, and continued caution about changing the conservation status of this
 population.
description: ACT_sequence_all
 individualsSequence data in Fasta
 file format for Actin locus.ACT.txtCAT_sequence_all_indivdiualsCAT.txtESD_sequence_all_indivdiualsESD.txtFGG_sequence_all_individualsFGG.TXTGBA_sequence_all_individualsGBA.txtLAC_sequence_all_individualsLAC.txtPLP_sequence_all_individualsPLP.txtPLP_sequence_all_individualsPLP.txtPTH_sequence_all_individualsPTH.txtRHO_sequence_all_individualsRHO.txt
DOI: 10.5061/dryad.5bb65
title: Data from: Does diet drive the evolution of head shape and bite force in chameleons of the genus Bradypodion?

description: The head is a complex integrated system that is implicated in many vital
 functions. As such, its morphology is impacted by different and sometimes
 conflicting demands. Consequently, head shape varies greatly depending on
 the environment and dietary ecology of an organism. Moreover, given its
 role in territory defence and mating in lizards, it is also subjected to
 strong sexual selection in these animals. We investigated the
 relationships between head shape, bite performance and diet in 14 of the
 17 extant Bradypodion species to determine whether variation in diet can
 explain the observed diversity in bite force and head shape in this genus.
 We also evaluate differences between sexes in terms of the relationships
 between head shape, bite force and diet and predict tighter relationships
 in females given that the head in this sex is principally under natural
 selection. Our results show that there is indeed a correlation between
 head shape, diet and bite force, but the direction and magnitude are
 sex-dependent. Whereas we observed a correlation between absolute bite
 force and head shape in both sexes, size-corrected bite force was
 correlated with mandible and quadrate shape in females only. Despite
 strong correlations between bite force and prey hardness, and between prey
 hardness and head shape, we did not find any relationship between head
 shape and prey evasiveness. These data suggest that the cranial system in
 chameleons of the genus Bradypodion evolves under natural selection for
 the ability to eat large or hard prey. Moreover, significant differences
 in the ecomorphological relationships between the two sexes suggest that
 sexual selection plays a role in driving the evolution of bite force and
 head shape. These data suggest that ecomorphological relationships may be
 sex-dependent.
description: stomach contents
 BradypodionThis file contains the
 raw diet data for all species of Bradypodion included in the study. Each
 prey item identified for each individual is measured and included in the
 table. Species names and individual IDs are provided.Scores
 PCAThe excel file contains
 the PC scores of the geometric morphometric analysis upon which further
 analyses were performed. Sheets present data for males, females and both
 sexes together.
DOI: 10.5061/dryad.8th5m
title: Data from: Phenotypic plasticity in response to environmental heterogeneity contributes to fluctuating asymmetry in plants: first empirical evidence

description: Fluctuating asymmetry (FA) is widely used to quantify developmental
 instability (DI) in ecological and evolutionary studies. It has long been
 recognized that FA may not exclusively originate from DI for sessile
 organisms such as plants, because phenotypic plasticity in response to
 heterogeneities in the environment might also produce FA. This study
 provides the first empirical evidence for this hypothesis. We reasoned
 that solar irradiation, which is greater on the southern side than on the
 northern side of plants growing in the temperate zone of the northern
 hemisphere, would cause systematic morphological differences and asymmetry
 associated with the orientation of plant parts. We used geometric
 morphometrics to characterize the size and shape of flower parts in Iris
 pumila grown in a common garden. The size of floral organs was not
 significantly affected by orientation. Shape and particularly its
 asymmetric component differed significantly according to orientation for
 three different floral parts. Orientation accounted for 10.4% of the total
 shape asymmetry within flowers in the falls, for 11.4% in the standards,
 and for 2.2% in the style branches. This indicates that phenotypic
 plasticity in response to a directed environmental factor, most likely
 solar irradiation, contributes to FA of flowers under natural conditions.
 That FA partly results from phenotypic plasticity and not just from DI
 needs to be considered by studies of FA in plants and other sessile
 organisms.
description: Landmark coordinates for
 the fallsThe file contains an
 identifier in the format (P.OOO, where P is the number of the plant and
 OOO is the orientation of the fall for the respective landmark
 configuration, always as three digits) and the x and y coordinates of the
 landmarks. Note that the plants are numbered independently for the falls,
 standards and style branches.falldata.txtLandmark coordinates for the standardsThe file contains an identifier in the format (P.OOO, where P is the number of the plant and OOO is the orientation of the standard for the respective landmark configuration, always as three digits) and the x and y coordinates of the landmarks. Note that the plants are numbered independently for the falls, standards and style branches.standarddata.txtLandmark coordinates for the style branchesThe file contains an identifier in the format (P.OOO, where P is the number of the plant and OOO is the orientation of the style branch for the respective landmark configuration, always as three digits) and the x and y coordinates of the landmarks. Note that the plants are numbered independently for the falls, standards and style branches.styledata.txt
DOI: 10.5061/dryad.7ng0h
title: Data from: Antagonistic natural and sexual selection on wing shape in a scrambling damselfly

description: Wings are a key trait underlying the evolutionary success of birds, bats,
 and insects. For over a century, researchers have studied the form and
 function of wings to understand the determinants of flight performance.
 However, to understand the evolution of flight, we must comprehend not
 only how morphology affects performance, but also how morphology and
 performance affect fitness. Natural and sexual selection can either
 reinforce or oppose each other, but their role in flight evolution remains
 poorly understood. Here, we show that wing shape is under antagonistic
 selection with regard to sexual and natural selection in a scrambling
 damselfly. In a field setting, natural selection (survival) favored
 individuals with long and slender forewings and short and broad hindwings.
 In contrast, sexual selection (mating success) favored individuals with
 short and broad forewings and narrow-based hindwings. Both types of
 selection favored individuals of intermediate size. These results suggest
 that individuals face a trade-off between flight energetics and
 maneuverability and demonstrate how natural and sexual selection can
 operate in similar directions for some wing traits, that is, wing size,
 but antagonistically for others, that is, wing shape. Furthermore, they
 highlight the need to study flight evolution within the context of
 species’ mating systems and mating behaviors.
description: Datasets on marking
 encounter history, mating and mobilityThe file contains 6
 datasets (3 for forewings and 3 for hindwings). The "Marking"
 datasets contain the encounter history for each individual during the
 mark-recapture study, and the associated individual values of centroid
 size and the first three PC's of wing shape. These covariates are
 z-standardized. The "Matings" datasets contain the mating
 success of each individual (1 for mating, 0 for non-mating), as well as
 the associated individual values of centroid size and the first three
 PC's of wing shape. The values are z-standardized. Finally, the
 "Mobility" datasets include the individual values of centroid
 size, maximum flight distance, mobility rate, and the first three
 PC's of wing shape.Dataset_Outomuro et
 al_Evolution.rar
DOI: 10.5061/dryad.1nn35
title: Data from: Glyphosate redirects wetland vegetation trajectory following willow invasion

description: Aims: Aerially applied glyphosate is an economic tool to deal with large
 areas of invasive plants. However, there are few studies investigating
 non-target effects or rates of reinvasion, particularly over multi-year
 timeframes. The aims were to evaluate the effectiveness of aerial
 application of glyphosate for control of dense stands of the invasive grey
 willow Salix cinerea, and determine the vegetation trajectory over the
 subsequent two years. Location: Whangamarino Wetland, Waikato, New
 Zealand. Methods: A before-after control-impact (BACI) experiment was
 conducted in a Ramsar-listed wetland in New Zealand. Effects on S. cinerea
 cover, canopy light interception and non-target damage were monitored over
 a 7.1 ha experimental area prior to, and for two years following, aerial
 application of glyphosate. Vegetation classification, ordination, and
 species richness analyses were undertaken to describe community-level
 effects. Results: Aerial application of glyphosate to an established
 willow canopy was effective in reducing cover to &lt; 5% on average
 for up to two years post-spray when assessed using 100 m2 vegetation
 survey plots. Smaller 1 m2 plots were more sensitive for detecting willow
 reinvasion, which was noted from one year post-spray. Collateral damage to
 non-target sub-canopy species was generally minimal, except for the native
 tree-fern Dicksonia squarrosa which showed marked reductions in cover and
 no recovery over the study period. Species richness was higher in sprayed
 plots post-spray and a shift towards a native Carex-dominated sedgeland
 community was detected. Conclusions: Aerial application of glyphosate to a
 dense canopy of mature willow was effective in reducing the cover and
 dominance of this invasive wetland tree species. Minimal collateral damage
 occurred, facilitating recovery and expansion of a native sedgeland
 community. The risk of secondary invasion did not eventuate, although
 exotic species richness spiked in the year following spraying. Sedgelands
 are susceptible to willow reinvasion via seed so longer-term trajectories
 will diverge depending on management intensity. Using currently available
 tools the rehabilitation options are either repeated cycles of herbicide
 application to redirect the trajectory from reinvasion back to
 short-statured sedgelands, or intensive initial management to establish an
 alternative, more resilient trajectory to native wetland forest.
description: Glyphosate redirects
 wetland vegetation trajectory following willow invasionVegetation data
 collected to describe the effect of glyphosate in a Salix cinerea invaded
 wetland. See the README file in the zip folder for further
 detailsglyphosate_package_dryad.zip
DOI: 10.17909/zktz-mn64
title: Data for 2026 LFBOT Paper

description: Contains the GALEX UV photometry of LFBOT host galaxies
DOI: 10.5061/dryad.rd927
title: Data from: Haemosporidian prevalence and parasitemia in the tufted titmouse (Baeolophus bicolor)

description: Haemosporidians are a diverse group of blood parasites that infect
 terrestrial vertebrates worldwide, but there is variability in parasite
 prevalence and parasitemia with infections ranging from virtually
 inconsequential to lethal. In this study, we determined prevalence and
 parasitemia of avian haemosporidians in the Tufted Titmouse (Baeolophus
 bicolor; n = 81). Plasmodium and Parahaemoproteus were detected and
 quantified from blood samples using microscopy, polymerase chain reaction
 (PCR), and quantitative PCR (qPCR). Thirteen mitochondrial cytochrome b
 lineages of haemosporidian parasites were found including generalist and
 specialist lineages, and the data indicate that prevalence is 69.1%
 (Plasmodium-89.3%; Parahaemoprotues-7.1%; double infection-3.6%). However,
 parasitemia was low in all infected birds. Seasonally, parasite prevalence
 varied significantly, although prevalence and parasitemia were not
 associated with host sex, age, or health. Observations of infection in
 this naturally infected bird provide details on host susceptibility that
 are applicable to the understanding of haemosporidian parasites in other
 avian hosts.
description: 2016-08-25 Fast Walstrom
 Outlaw Supplemental File.docx