cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.b3f50
title: Data from: Assessment of markers of antimalarial drug resistance in Plasmodium falciparum isolates from pregnant women in Lagos, Nigeria

description: Background: The use of antimalarial drugs for prevention and treatment is
 a major strategy in the prevention of malaria in pregnancy. Although
 sulphadoxine-pyrimethamine (SP) is currently recommended for intermittent
 preventive treatment of malaria during pregnancy in Nigeria, previously
 used drugs for prophylaxis such as chloroquine (CQ) and pyrimethamine are
 accessible as they are purchased over the counter. This study describes
 the markers of absence or presence of resistance to quinoline (Pfcrt and
 Pfmdr 1) and type 1 antifolate antimalarial medicines (Pfdhfr). Methods:
 Plasmodium falciparum-positive dried blood spots from pregnant women
 attending antenatal clinics for the first time during current pregnancy
 were investigated for the presence of mutations at codons 72–76 of
 Plasmodium falciparum chloroquine resistance transporter (Pfcrt) gene by
 real time polymerase chain reaction (PCR) using haplotype-specific probes.
 PCR followed by sequence analysis was used to identify mutations at codons
 86, 184, 1034, 1042 and 1246 of P. falciparum multi-drug resistance-1
 (Pfmdr1) gene; and codons 16, 50, 51, 59, 108, 140 and 164 of Pfdhfr gene.
 Results: Two haplotypes of Pfcrt (n = 54) were observed: CVMNK 13(24.2%)
 and CVIET 41 (75.9%) of the samples. The SVMNT haplotype was absent in
 this population. The Pfmdr1 (n = 28) haplotypes were NYSND 15(53.6%),
 YYSND 5(17.9%), NFSND 6(21.4%) and YFSND 2(7.1%). The Pfdhfr (n = 15) were
 ACNCSVI 4(26.7%), and ACICNSVI 1(6.7%) and ACIRNVI 10 (66.7%). The rate of
 occurrence of Pfcrt 76T, Pfdhfr108N, Pfmdr186Yand184F were 75.9%, 73.3%,
 25% and 28.1% respectively. The Pfmdr1 86Y was associated with low
 parasitaemia (median = 71 parasites/μl, P = 0.024) while Pfcrt 76T was
 associated with young maternal age (mean 24.1 ± 4.5 years; P = 0.006). The
 median parasitaemia were similar (P&gt;0.05) in wild and mutant
 strains of Pfcrt 76, Pfmdr1 184 and Pfdhfr 108. There was no association
 between gravidity or gestational age of the women and presence of
 mutations in the Pfcrt, Pfmdr1 or Pfdhfr genes (P&gt;0.05).
 Conclusion: Markers of resistance to chloroquine and pyrimethamine were
 high, whereas cycloguanil-resistance marker was not present in the studied
 population. The low level of mutations in the Pfmdr1gene indicates likely
 efficacy of amodiaquine against malaria in pregnancy.
description: haplotypes_dhfr crt
 mdr1Plasmodium falciparum
 resistant markers to Chloroquine and
 sulphadoxine-pyremethaimneFINAL haplotypes_dhfr crt mdr1
 (2).xlsx
DOI: 10.5061/dryad.c9q92
title: Data from: Detecting small-scale genotype-environment interactions in apomictic dandelion (Taraxacum officinale) populations

description: Studies of genotype × environment interactions (G×E) and local adaptation
 provide critical tests of natural selection’s ability to counter opposing
 forces such as gene flow. Such studies may be greatly facilitated in
 asexual species, given the possibility for experimental replication at the
 level of true genotypes (rather than populations) and the possibility of
 using molecular markers to assess genotype-environment associations in the
 field (neither of which is possible for most sexual species). Here we
 tested for G×E in asexual dandelions (Taraxacum officinale) by subjecting
 six genotypes to experimental drought, mown, and benign (control)
 conditions, and subsequently using microsatellites to assess
 genotype-environment associations in the field. We found strong G×E, with
 genotypes that performed poorly under benign conditions showing the
 highest performance under stressful conditions (drought or mown). Our six
 focal genotypes comprise &gt;80% of plants in local populations. The
 most common genotype in the field showed its highest relative performance
 under mown conditions (the most common habitat in our study area), and
 almost all plants of this genotype in the field were found growing in
 mowed lawns. Genotypes performing best under benign experimental
 conditions were found most frequently in unmown conditions in the field.
 These results are strongly indicative of local adaptation at a very small
 scale, with unmown microsites of only a few square meters typically
 embedded within larger mown lawns. By studying an asexual species we were
 able to map genotypes with known ecological characteristics to
 environments with high spatial precision.
description: Results of Taraxacum
 officinale genotyping and Genotype by Environment field
 experimentRecord of T. officinale
 genotypes identified in sampling of Vancouver populations. Results of T.
 officinale Genotype by Environment (GxE) field experiment conducted at
 Totem Field, University of British Columbia, Vancouver, B.C., Canada. GxE
 results include leaf area of the control treatment at 5 and 8 weeks, root
 and total biomass of the mow treatment, and number of days to partial and
 full wilting of the drought treatment.McLeod_etal_DRYAD_data.xlsx
DOI: 10.15468/dl.tupgts
title: Occurrence Download

description: A dataset containing 39 species occurrences available in GBIF matching the query:
{
 "and" : [
 "CoordinateUncertaintyInMeters 0.0-5000.0",
 "TaxonKey is Dalbergia lanceolaria"
 ]
}

 The dataset includes 39 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001298-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.278n1
title: Data from: The effect of static versus dynamic stimuli on visual processing of sexual cues in androphilic women and gynephilic men

description: Models of sexual response posit that attentional processing of sexual cues
 is requisite for sexual responding. Despite hypothesized similarities in
 the underlying processes resulting in sexual response, gender differences
 in sexual arousal patterns are abundant. One such gender difference
 relates to the stimulus features (e.g., gender cues, sexual activity cues)
 that elicit a response in men and women. In the current study, we examined
 how stimulus modality (static visual images versus dynamic audiovisual
 films) and stimulus features (gender, sexual activity, and nonsexual
 contextual cues) influences attentional (i.e., gaze) and elaborative
 (i.e., self-reported attraction, self-reported arousal) processing of
 sexual stimuli. Men's initial and controlled attention was
 consistently gender-specific (i.e., greater attention towards female
 targets), and this was not influenced by stimulus modality or the presence
 of sexual activity cues. In contrast, gender-specificity of women's
 attention patterns differed as a function of attentional stage, stimulus
 modality, and the features within the stimulus. Degree of specificity was
 positively predictive of self-reported attraction in both genders;
 however, it was not significantly predictive of self-reported arousal.
 These findings are discussed in the context of gendered processing of
 visual sexual information, including a discussion of implications for
 research designs.
description: RSOS Data
 Submission_revisedLimited demographic data
 (to reduce identifying individual participants), all gaze and self-report
 data.
DOI: 10.15468/dl.dvrw2d
title: Occurrence Download

description: A dataset containing 486 species occurrences available in GBIF matching the query:
{
 "and" : [
 "CoordinateUncertaintyInMeters 0.0-5000.0",
 "TaxonKey is Dalbergia sissoo"
 ]
}

 The dataset includes 486 records from 37 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001300-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.7q804
title: Data from: Solution of the Generalized Noah's Ark Problem

description: The phylogenetic diversity (PD) of a set of species is a measure of the
 evolutionary distance among the species in the collection, based on a
 phylogenetic tree. Such a tree is composed of a root, of internal nodes
 and of leaves that correspond to the set of taxa under study. With each
 edge of the tree is associated a non-negative branch length (evolutionary
 distance). If a particular survival probability is associated with each
 taxon, the PD measure becomes the expected PD measure. In the Noah’s Ark
 Problem (NAP) introduced by Weitzman (1998), these survival probabilities
 can be increased at some cost. The problem is to determine how best to
 allocate a limited amount of resources to maximize the expected PD of the
 considered species. It is easy to formulate the NAP as a (difficult)
 nonlinear 0-1 programming problem. The aim of this article is to show that
 a general version of the NAP (GNAP) can be solved simply and efficiently
 with any set of edge weights and any set of survival probabilities by
 using standard mixed-integer linear programming software. The crucial
 point to move from a nonlinear program in binary variables to a
 mixed-integer linear program, is to approximate the logarithmic function
 by the lower envelope of a set of tangents to the curve. Solving the
 obtained mixed-integer linear program provides not only a near-optimal
 solution but also an upper bound on the value of the optimal solution. We
 also applied this approach to a generalization of the Nature Reserve
 Problem (GNRP) that consists of selecting a set of regions to be conserved
 so that the expected phylogenetic diversity of the set of species present
 in these regions is maximized. In this case, the survival probabilities of
 different taxa are not independent of each other. Computational results
 are presented to illustrate potentialities of the approach. Near-optimal
 solutions with hypothetical phylogenetic trees comprising about 4,000 taxa
 are obtained in a few seconds or minutes of computing time for the GNAP,
 and in about 30 minutes for the GNRP. In all the cases the average
 guarantee varies from 0% to 1.20%.
description: Script-GNAP-CPLEX-AMPL-PROGRAM (P5)This file contains four files AMPL (A Mathematical Programming Language) associated with the mixed 0-1 linear program (P5): GNAP.mod (file corresponding to the program(P5)), GNAP.dat (file corresponding to an example of data), GNAP.run (file corresponding to the list of commands for AMPL to follow in solving the program (P5) using CPLEX) and GNAP.txt (file corresponding to the results obtained using CPLEX).Script-GNAP-CPLEX-AMPL-V2.pdf
DOI: 10.15468/dl.spa6wq
title: Occurrence Download

description: A dataset containing 28 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "TaxonKey is Micrurus averyi"
 ]
}

 The dataset includes 28 records from 8 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001299-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.3qq21
title: Data from: Evolutionary history as a driver of ecological networks: a case study of plant-hummingbird interactions

description: Multiple factors drive species interactions in ecological networks, such
 as morphological barriers, spatio-temporal distribution, abundances and
 evolutionary histories of species. Novel methods are making it possible to
 evaluate the relative importance of each of these drivers. However, the
 lack of appropriate methods has prevented evaluating the extent to which
 interaction networks are shaped by species’ evolutionary histories. This
 study includes the evolutionary histories of species among the potential
 drivers of interactions, allowing the comparative analysis of its
 importance in structuring ecological networks. We hypothesized different
 possible phylogenetic scenarios to predict frequencies of interactions
 between species by combining concepts from the fields of ecological
 networks and ecophylogenetics. The usage of these scenarios is illustrated
 in a plant-hummingbird interaction network database from the Atlantic
 Forest, southeastern Brazil. We first evaluated which phylogenetic
 hypotheses better predict the observed network; subsequently, we evaluated
 the relative importance of species evolutionary histories, abundances, and
 matching on species morphologies and phenologies as drivers of their
 frequencies of interactions. The results suggest that the evolutionary
 histories of hummingbirds are more important than the species abundances
 in structuring the studied plant-hummingbird network but less important
 than the morphological and phenological matching among species. The
 approach developed here offers the potential to advance our understanding
 of the multiple factors structuring ecological networks.
description: plants.hummingbirds
 OIK-04344 - DryadList of plant and
 hummingbird species of the Serra do Mar State Park (southeastern Brazil)
 observed interacting according to the literature, and the estimates of
 evolutionary isolation for each species based on Rao's quadratic
 entropy, fair proportion, and equal splits.plants-hummingbirds OIK-04344 -
 Dryad.xlsx
DOI: 10.5061/dryad.7ns38
title: Data from: Profound genetic divergence and asymmetric parental genome contributions as hallmarks of hybrid speciation in polyploid toads

description: The evolutionary causes and consequences of allopolyploidization, an
 exceptional pathway to instant hybrid speciation, are poorly investigated
 in animals. In particular, when and why hybrid polyploids versus diploids
 are produced, and constraints on sources of paternal and maternal
 ancestors, remain underexplored. Using the Palearctic green toad radiation
 (including bisexually reproducing species of three ploidy levels) as
 model, we generate a range-wide multi-locus phylogeny of 15 taxa and
 present four new insights: (i) At least five (up to seven) distinct
 allo-triploid and allo-tetraploid taxa have evolved in the Pleistocene;
 (ii) All maternal and paternal ancestors of hybrid polyploids stem from
 two deeply diverged nuclear clades (6 Mya, 3.1-9.6 Mya), with distinctly
 greater divergence than the parental species of diploid hybrids found at
 secondary contact zones; (iii) Allotriploid taxa possess two conspecific
 genomes and a deeply-diverged allospecific one, suggesting that genomic
 imbalance and divergence are causal for their partly clonal reproductive
 mode; (iv) Maternal vs. paternal genome contributions exhibit asymmetry,
 with the maternal nuclear (and mitochondrial) genome of polyploids always
 coming from the same clade, and the paternal genome from the other. We
 compare our findings with similar patterns in diploid/polyploid
 vertebrates, and suggest deep ancestral divergence as a precondition for
 successful allopolyploidization.
description: Three alignments (1
 mtDNA, 2 nuDNA)Alignments (Nexus
 format) for the mitochondrial D-loop and the concatenated nuclear
 sequences for phylogeny and maternal ancestry cladeAlignmentsForDryad.zip
DOI: 10.5061/dryad.7017n
title: Data from: Helminth interaction with the host immune system: short-term benefits and costs in relation to the infectious environment

description: Chronic infections imply that the parasite and the host immune system
 closely interact for a long time without a fatal outcome. Environmental
 changes encountered by hosts and parasites, such as coinfections, can
 deeply affect the stability of this apparent equilibrium. Our study aimed
 to determine the effect of the infectious environment on the costs and
 benefits of chronic infection with the gut nematode Heligmosomoides
 polygyrus in mice. Heligmosomoides polygyrus is known for its capacity to
 actively interfere with the host immune response by secreting molecules
 that can dampen immunity. We simulated bacterial coinfection of H.
 polygyrus-infected CBA-strain mice during the chronic phase of the
 infection by injecting them with Escherichia coli lipopolysaccharide. We
 found that infection by H. polygyrus induced only weak costs for the host
 (in terms of reproductive investment) and was characterized by the
 upregulation of both Th1 (interferon-γ) and anti-inflammatory
 (transforming growth factor-β) cytokines, which is favorable to parasite
 persistence. However, when co-occurring with the simulated bacterial
 infection, H. polygyrus infection was associated with a pronounced shift
 toward a pro-inflammatory status, which was deleterious to both the
 parasite and the host. Our study highlights the dynamic equilibrium
 reached during chronic infection, where a rapid environmental change, such
 as a concomitant bacterial infection, can deeply affect the outcome of the
 host-parasite interaction.
description: Dryad-data1-Am
 Nat-GuivierHost life history
 traitsDryad-data2-Am
 Nat-GuivierImmunological
 data
DOI: 10.5061/dryad.3c5r9
title: Data from: Insights into the introduction history and population genetic dynamics of the Nile monitor (Varanus niloticus) in Florida

description: Invasive species are widely recognized as important drivers of the ongoing
 biodiversity crisis. The US state of Florida is especially susceptible to
 the proliferation of invasive reptiles, and nonnative lizards currently
 outnumber native lizard species. At present, there are three documented
 breeding populations of the Nile monitor (Varanus niloticus) in different
 regions of Southern Florida, and these populations are considered
 potential dangers to threatened, fossorial endemics, such as burrowing
 owls, American crocodiles, and gopher tortoises. Nevertheless, at present,
 both the introduction histories of these populations and the degree to
 which they are connected by gene flow are not known. To address these
 issues, we genotyped V. niloticus from Cape Coral, Homestead Air Reserve
 Base, and West Palm Beach at 17 microsatellite loci and conducted a
 variety of analyses to assess both intra-population genetic diversity, the
 degree of gene flow between populations, and the most likely introduction
 scenario. The results of our analyses demonstrate that all three
 populations have limited genetic diversity (mean number of effective
 alleles across loci in all three populations ~ 2.00) and are highly
 differentiated from one another (GST = 0.268; G’’ST = 0.628). Our results
 also suggest that these populations resulted from independent introduction
 events that occurred within the past few decades. Consequently, we advise
 that wildlife managers focus management efforts on containment of existing
 populations and intensification of monitoring efforts on potential
 migration corridors.
description: Wood_et_al_V niloticus
 genotypes_GENALEX input fileGenotypes used by Wood
 et al. to analyze the genetic structure of Varanus niloticus populations
 in Florida. Data is formatted as a GenAlEx input file.
DOI: 10.15468/dl.4dtrk2
title: Occurrence Download

description: A dataset containing 6554 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasGeospatialIssue is false",
 "Geometry POLYGON ((0.0057935585740049 44.09685972199897, 0.003891563957239 44.10552121779036, -0.0003199485926059 44.11374888640382, -0.0066800102014569 44.12122624940509, -0.0149447313931648 44.127665552863384, -0.0247965943693306 44.13281888694454, -0.0358566408515714 44.13648778167455, -0.0476990893977796 44.1385308996281, -0.0598678122601501 44.13886951989679, -0.0718940211424326 44.13749059457133, -0.0833144581777396 44.13444725549425, -0.0936893661520565 44.129856750992936, -0.1026195217502179 44.12389589516363, -0.1097616568272391 44.11679421145887, -0.1148416630080364 44.10882504347125, -0.1176650702893084 44.10029498501657, -0.118124405514334 44.09153204569141, -0.1162031655812022 44.08287301463536, -0.1119762766872887 44.07465051279566, -0.105607048614741 44.06718023201299, -0.0973407663542596 44.06074884801546, -0.0874951853687575 44.05560306497118, -0.0764483075653432 44.051940203276715, -0.0646239095750713 44.049900681881425, -0.0524753711086842 44.04956267414954, -0.0404684075651756 44.05093913473702, -0.0290633468782034 44.0539773070359, -0.0186976053512133 44.05856072931498, -0.0097690107944052 44.064513665682874, -0.0026205937043138 44.071607798353384, 0.0024725811595767 44.07957093330992, 0.005314038980413 44.08809739520995, 0.0057935585740049 44.09685972199897))",
 "KingdomKey is one of (Animalia, Fungi, Plantae)",
 "Year is one of (2016, 2017, 2018, 2019, 2020, 2021, 2022, 2023, 2024, 2025, 2026)"
 ]
}

 The dataset includes 6554 records from 60 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001301-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.br50n
title: Data from: Extra molting and selection on nymphal growth in the desert locust

description: In insects, extra-molting has been viewed as a compensatory mechanism for
 nymphal growth that contributes to optimize body weight for successful
 reproduction. However, little is known on the capacity of extra-molting to
 evolve in natural populations, which limits our understanding of how
 selection acts on nymphal growth. We used a multi-generational pedigree,
 individual monitoring and quantitative genetics models to investigate the
 evolution of extra-molting and its impact on nymphal growth in a
 solitarious population of the desert locust, Schistocerca gregaria. Growth
 compensation via extra-molting was observed for 46% of the females, whose
 adult weight exceeded by 4% that of other females, at a cost of a 22%
 longer development time. We found a null heritability for body weight
 threshold only, and the highest and a strongly female-biased heritability
 for extra molting. Our genetic estimates show that (1) directional
 selection can act on growth rate, development time and extra-molting to
 optimize body weight threshold, the target of stabilizing selection, (2)
 extra-molting can evolve in natural populations, and (3) a genetic
 conflict, due to sexually antagonistic selection on extra-molting, might
 prevent its fixation. Finally, we discuss how antagonistic selection
 between solitarious and gregarious environments and/or genetic
 correlations between growth and phase traits might also impact the
 evolution of extra-molting in locusts.
description: Schistocerca gregaria
 genotypes from 10 microsatellite markers"Egg-pod ID"
 is the identity oh the egg-pod received in the lab. "Offspring
 ID" refers to individuals within each egg-pod. "Used as G2
 parents", when "yes", means that this individuals was
 successfully mated and produced G2 offspring that were analyzed in the
 present study. The rest of the headers refer to the microsatellites,
 grouped by2.genotypes.csvNymphal growth traits.Growth traits of G2 individuals analyzed in the present study. "individual" is the name of G2 individuals that were analyzed. "mother" and "father" refer to their G1 parents.growth_traits.csvPedigree file.3-generational pedigree file, containing G2 and G1's ancestors. Note that names starting by "f" or "m", at the beginning of the file, refer to G0 individuals that were inferred by parentage analysis based on microsatellites.pedigree.csv