cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.js08q
title: Data from: Genomic landscape of early ecological speciation initiated by selection on nuptial colour

description: Ecological speciation is the evolution of reproductive isolation as a
 consequence of direct divergent natural selection or ecologically mediated
 divergent sexual selection. While the genomic signature of the former has
 been extensively studied in recent years, only few examples exist for
 genomic differentiation where environment-dependent sexual selection has
 played an important role. Here, we describe a very young (~90 years old)
 population of threespine sticklebacks exhibiting phenotypic and genomic
 differentiation between two habitats within the same pond. We show that
 differentiation among habitats is limited to male throat colour and nest
 type, traits known to be subject to sexual selection. Divergence in these
 traits mirrors divergence in much older benthic and limnetic stickleback
 species pairs from North American west coast lakes, which also occur in
 sympatry but are strongly reproductively isolated from each other. We
 demonstrate that in our population, differences in throat colour and
 breeding have been stable over a decade, but in contrast to North American
 benthic and limnetic stickleback species, these mating trait differences
 are not accompanied by divergence in morphology related to feeding,
 predator defence or swimming performance. Using genomewide SNP data, we
 find multiple genomic islands with moderate differentiation spread across
 several chromosomes, whereas the rest of the genome is undifferentiated.
 The islands contain potential candidate genes involved in visual
 perception of colour. Our results suggest that phenotypic and
 multichromosome genomic divergence of these morphs was driven by
 environment-dependent sexual selection, demonstrating incipient speciation
 after only a few decades of divergence in sympatry.
description: JordeweiherDataCollection date, ecotype and colortype assignment, color measurements, stable isotope, stomach content, nest depth, linear morphometric and geometric morphometric data.
DOI: 10.5061/dryad.82c67
title: Data from: To quiver or to shiver: increased melanisation benefits thermoregulation, but reduces warning signal efficacy in the wood tiger moth

description: Melanin production is often considered costly, yet beneficial for
 thermoregulation. Studies of variation in melanization and the opposing
 selective forces that underlie its variability contribute greatly to
 understanding natural selection. We investigated whether melanization
 benefits are traded off with predation risk to promote observed local and
 geographical variation in the warning signal of adult male wood tiger
 moths (Parasemia plantaginis). Warning signal variation is predicted to
 reduce survival in aposematic species. However, in P. plantaginis, male
 hindwings are either yellow or white in Europe, and show continuous
 variation in melanized markings that cover 20 to 90 per cent of the
 hindwing. We found that the amount of melanization increased from 40 to 59
 per cent between Estonia (58° N) and north Finland (67° N), suggesting
 melanization carries thermoregulatory benefits. Our thermal measurements
 showed that more melanic individuals warmed up more quickly on average
 than less melanic individuals, which probably benefits flight in cold
 temperatures. With extensive field experiments in central Finland and the
 Alpine region, we found that more melanic individuals suffered increased
 predation. Together, our data suggest that warning signal efficiency is
 constrained by thermoregulatory benefits. Differences in relative costs
 and benefits of melanin probably help to maintain the geographical warning
 signal differences.
description: Melanin cline
 datasetData on the hindwing
 melanin across Estonia and up through Finland.Thermal
 dataData used in the
 thermoregulation study showing the temperature change after being under a
 radiant heat source.PredationThe number of attacks on artificial moth models on each transect.
DOI: 10.5061/dryad.s7b92
title: Data from: Indirect estimates of natal dispersal distance from genetic data in a stream-dwelling fish (Mogurnda adspersa)

description: Recent work has highlighted the need to account for hierarchical patterns
 of genetic structure when estimating evolutionary and ecological
 parameters of interest. This caution is particularly relevant to studies
 of riverine organisms, where hierarchical structure appears to be
 commonplace. Here we indirectly estimate dispersal distance in a
 hierarchically structured freshwater fish, Mogurnda adspersa.
 Microsatellite and mitochondrial (mtDNA) data were obtained for 443
 individuals across 27 sites separated by an average of 1.3 kilometers
 within creeks of southeastern Queensland, Australia. Significant genetic
 structure was found among sites (mtDNA ΦST = 0.508; microsatellite FST =
 0.225, F′ST = 0.340). Various clustering methods produced congruent
 patterns of hierarchical structure reflecting stream architecture. Partial
 mantel tests identified contiguous sets of sample sites where
 isolation-by-distance (IBD) explained FST variation without significant
 contribution of hierarchical structure. Analysis of mean natal dispersal
 distance (σ) within sets of IBD-linked sample sites suggested most
 dispersal occurs over &lt;1 km and the average effective density (De)
 was estimated at 11.5 individuals.km-1; indicating sedentary behaviour and
 small effective population size are responsible for the remarkable
 patterns of genetic structure observed. Our results demonstrate that
 Rousset’s regression-based method is applicable to estimating the scale of
 dispersal in riverine organisms, and that identifying contiguous
 populations which satisfy the assumptions of this model is achievable with
 genetic clustering methods and partial correlations.
description: Mogurnda adspersa
 microsatellite dataPlease refer to the
 ReadMe file.
DOI: 10.5061/dryad.43vk5fm
title: Data from: Deep-sea ostracod faunal dynamics in a marginal sea: Biotic response to oxygen variability and mid-Pleistocene global changes

description: Deep-sea benthic ostracod assemblages covering the last two million years
 were investigated in IODP Site U1426 (at 903 m water depth) in the
 southern Sea of Japan. Results show that (1) orbital-scale faunal
 variability have been influenced by eustatic sea level fluctuations and
 oxygen variability, and (2) secular-scale faunal transitions are likely
 associated with the Mid-Brunhes Event (MBE, ~0.43 Ma) and the onset of the
 Tsushima Warm Current (TWC, ~1.7 Ma). Krithe, Robertsonites, and
 Acanthocythereis are the three most abundant genera throughout the core,
 accounting for 78.5 % of total specimens. Multiple Regression Tree
 analysis indicated that the TWC, the MBE, and oxygen content are the
 significant controlling factors of ostracod dominance. Changes in
 assemblages exhibit decline and recovery patterns corresponding to orbital
 scale cyclicity of sea level changes. In the Sea of Japan marginal ocean
 setting, this cyclicity shows a close relationship with bottom-water
 oxygen variability since the onset of the TWC influx. The MBE amplified
 the influence of the TWC and oxygen variability to the deep-sea ecosystem
 through larger sea level fluctuations. Acanthocythereis dunelmensis, a
 circumpolar species, dominates before the onset of the TWC. After the
 onset of the Tsushima Warm Current and during the Mid-Pleistocene
 Transition (MPT, ~1.2-0.7 Ma) Krithe spp., known for their low oxygen
 tolerance, substantially increase under moderate oxygen depletion. At the
 end of the MPT, the dominance of Krithe diminishes and is replaced by
 Robertsonites hanaii and Propontocypris spp. after the MBE. The Post-MBE
 assemblage, characterized by Robertsonites hanaii, suggests a slightly
 warmer environment under the development of the Tsushima Warm Current. In
 addition to this, the Post-MBE high-amplitude climate system may cause the
 increased abundance of active swimming Propontocypris spp. with their high
 migration ability. Benthic ecosystems in marginal seas are sensitive and
 vulnerable to both short-term and long-term climatic changes.
description: Supplementary Text
 1This
 is a text file showing exactly how the statistical analysis, Cascade
 Multivariate Regression Tree (CMRT), in this paper was done. The
 statistical analysis was done in R. The file includes (1) a short guide to
 accessing the R package, MVPARTwrap, and (2) an R script showing the codes
 and the outputs that could be operated in the R
 console.Supplementary Tables
 1,2,3,4This is a excel file
 containing 4 tables separately in 4 tabs. Table 1 is the age-depth model
 for IODP U1426 samples. Table 2 is the full list of ostracod data
 collected from the IODP Site U1426. Table 3 is the list of combined
 samples that are within the same 10,000-year age window. Table 4 is the
 list of data points that were used in the statistical analysis in this
 paper.Supplementary
 Table1,2,3,4.xlsx
DOI: 10.5061/dryad.9ph5c
title: Data from: Hosts of avian brood parasites have evolved egg signatures with elevated information content

description: Hosts of brood-parasitic birds must distinguish their own eggs from
 parasitic mimics, or pay the cost of mistakenly raising a foreign chick.
 Egg discrimination is easier when different host females of the same
 species each lay visually distinctive eggs (egg ‘signatures’), which helps
 to foil mimicry by parasites. Here, we ask whether brood parasitism is
 associated with lower levels of correlation between different egg traits
 in hosts, making individual host signatures more distinctive and
 informative. We used entropy as an index of the potential information
 content encoded by nine aspects of colour, pattern and luminance of eggs
 of different species in two African bird families (Cisticolidae
 parasitized by cuckoo finches Anomalospiza imberbis, and Ploceidae by
 diederik cuckoos Chrysococcyx caprius). Parasitized species showed
 consistently higher entropy in egg traits than did related, unparasitized
 species. Decomposing entropy into two variation components revealed that
 this was mainly driven by parasitized species having lower levels of
 correlation between different egg traits, rather than higher overall
 levels of variation in each individual egg trait. This suggests that
 irrespective of the constraints that might operate on individual egg
 traits, hosts can further improve their defensive ‘signatures' by
 arranging suites of egg traits into unpredictable combinations.
description: Egg
 PhenotypesData on egg pattern,
 colour and luminance for Cisticolidae and Ploceidae species in
 Zambia.
DOI: 10.15468/dl.dfc9jf
title: Occurrence Download

description: A dataset containing 235 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Human Observation",
 "Country is Mexico",
 "TaxonKey is Micrurus tener",
 "Year 1960-2026"
 ]
}

 The dataset includes 235 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000891-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.n946tn4
title: Data from: Ascogrammitis lehnertii (Polypodiaceae): A new and dominant understory-species from a diverse community of grammitid ferns in the Andes of Ecuador

description: In the scope of pantropical studies aimed at understanding how the
 diversity of grammitid ferns (Polypodiaceae) has evolved and is
 maintained, we studied a diverse grammitid community in treeline elfin
 forests in eight study plots of 400 m2 each at 3200 m on Cerro Toledo,
 Loja, southern Ecuador. We recorded a total of 7986 individuals of 16
 grammitid species. Ascogrammitis lehnertii is here described as a new
 species. We also recorded Mycopteris leucosticta, a species previously
 believed to be restricted to the Chocó region of Ecuador. We found that
 the grammitid species were segregated by habitat into trunk-base and trunk
 specialists, which suggests that species coexistence in these diverse
 epiphytic communities is at least partly linked to habitat segregation.
 Ascogrammitis lehnertii and M. leucosticta were the second and third most
 abundant species, respectively, and both were mostly trunk-base species.
 The new species A. lehnertii differs from its congeners by the combination
 of its relatively broad lamina, (2‐)3‐4 cm wide, fertile leaves bearing 2
 mm long reddish setae in and near the sori, and by bearing proliferous
 roots from which new plants emerge. Phylogenetic analyses of atpß, rbcL,
 rps4, trnG-trnR, and trnL-trnF DNA molecular sequences, using maximum
 likelihood, place A. lehnertii as sister to A. cuencana with strong
 support. Despite previous intensive collection efforts in Loja for the
 past 30 yr, all but one of the collections of this new species were made
 in the last three years. The discovery of A. lehnertii and the new record
 of M. leucosticta highlight the patchy distribution of some species in the
 Andes and the value of surveying habitats that potentially host
 unrecognized plant diversity. In order to facilitate further discovery, we
 provide a key to all species of Ascogrammitis.
description: Sundue et al. Alignment
 5 cp markersNexus file of aligned
 chloroplast DNA sequence data, atpB, rbcL, rps4-trnS, trnG-trnR,
 trnL-trnF
DOI: 10.5061/dryad.07nd0hc
title: Data from: Rising CO2 accelerates phosphorus and molybdenum limitation of N2-fixation in young tropical trees

description: Background and Aims: Nitrogen fixation may be critical for supplying the
 nitrogen (N) needed to maintain the tropical carbon sink in a world of
 rising atmospheric CO2. However, we do not know whether increased CO2 acts
 to exacerbate nutrient limitation on the fixation process itself. We
 experimentally test this idea by growing N2-fixing plants in
 pre-Industrial (280 ppm), present-day (400 ppm), and doubled (800 ppm)
 atmospheric CO2. Methods: In a greenhouse experiment, we grew tree
 seedlings from N2-fixing species and a non-fixing species at three CO2
 concentrations with control, +P (phosphorus), +Mo (molybdenum), and +P+Mo
 nutrient treatments. Results: We found nutrient limitation to be minimal
 at pre-Industrial CO2, but with increasing CO2 fixer growth and fixation
 became increasingly limited by P and by a P-by-Mo interaction. At 400 ppm,
 plants with +P grew ~50% faster and fixed 10-15x more N2 based on nodule
 mass and nitrogenase activity. At 800 ppm, plants with +P+Mo grew 200%
 more, and fixed 25x more N2, suggesting Mo-P co-limitation at elevated
 CO2. Conclusion: Our findings imply that complex patterns of nutrient
 limitation can develop as CO2 rises, potentially suppressing tropical
 N2-fixation and new inputs of N needed to sustain the tropical carbon
 sink.
description: Trierweiler_2011_2012_CO2_P_Mo_growth_dataSeedling growth and fixation data collected from our CO2, P, Mo fertilization experiment. See README file for complete documentation.Trierweiler_2011_CO2_P_Mo_CN_dataLeaf tissue measurements of %N, %C and C:N from our CO2, P, Mo fertilization experiment. See README file for complete documentation.
DOI: 10.5061/dryad.j774r
title: Data from: Signatures of volcanism and aridity in the evolution of an insular pine (Pinus canariensis Chr. Sm. Ex DC in Buch)

description: Oceanic islands of volcanic origin provide useful templates for the study
 of evolution because they are subjected to recurrent perturbations that
 generate steep environmental gradients that may promote adaptation. Here
 we combine population genetic data from nuclear genes with the analysis of
 environmental variation and phenotypic data from common gardens to
 disentangle the confounding effects of demography and selection to
 identify the factors of importance for the evolution of the insular pine
 P. canariensis. Eight nuclear genes were partially sequenced in a survey
 covering the entire species range, and phenotypic traits were measured in
 four common gardens from contrasting environments. The explanatory power
 of population substrate age and environmental indices were assessed
 against molecular and phenotypic diversity estimates. In addition, neutral
 genetic variability (FST) and the genetic differentiation of phenotypic
 variation (QST) were compared in order to identify the evolutionary forces
 acting on these traits. Two key factors in the evolution of the species
 were identified: (1) recurrent volcanic activity has left an imprint in
 the genetic diversity of the nuclear genes; (2) aridity in southern slopes
 promotes local adaptation in the driest localities of P. canariensis,
 despite high levels of gene flow among populations.
description: Dryad_HDY-13-OR0304R_Survival_Growth_Data
DOI: 10.5061/dryad.ft702
title: Data from: Discrete choice modelling of natal dispersal: "choosing" where to breed from a finite set of available areas

description: 1. Classic natal dispersal studies focus mainly on distance travelled.
 Although distances capture some of the main selective pressures related to
 dispersal, this approach cannot easily incorporate the properties of the
 actual destination vs. the available alternatives. Recently, movement
 ecology studies have addressed questions on movement decisions in relation
 to availability of resources and/or availability of suitable habitats
 through the use of discrete choice models (DCMs), a widely used type of
 models within econometrics, which explains individual choices as a
 function of the properties of a finite number of alternatives. 2. In this
 contribution, we show how the dispersal discrete choice model (DDCM) can
 be used for analysing natal dispersal data in patchy environments given
 that the natal and the breeding area of the disperser are observed. We
 test this method using a case study on Great Tits (Parus major) in an
 archipelago of small woodlots. 3. Our results show that DDCMs are able to
 capture the results of classic distance-based approaches and
 simultaneously allow testing hypotheses on how departure and settlement
 are affected by variables that characterize the disperser, the natal patch
 and the breeding area, as well as their interactions. 4. DDCMs can be
 applied to any other species and system that uses some form of discrete
 breeding location or a certain degree of discretization can be applied.
description: Raw data from
 Parus.DatabaseThis an RData file with
 the raw data extract from the Parus Database that managed by Frank
 Adriaensen. For further information please contact
 frank.adriaensen@uantwerpen.berawD.Rdata
DOI: 10.15468/j5uvwq
title: TotalEnergies EP Brasil | Projeto de Caracterização Ambiental (PCA)/ Environmental Baseline Study (EBS) da Margem Equatorial Brasileira, considerando o Bloco BAR-M-346, Bacia de Barreirinhas: Zooplâncton

description: Dados de amostras de zooplâncton coletadas no ano de 2015, durante campanha oceanográfica no Bloco BAR-M-346, Bacia de Barreirinhas, em esforço de caracterização ambiental das bacias da margem equatorial brasileira.
DOI: 10.5061/dryad.811nr62
title: Data from: Weak population structure of the Spot-tail shark Carcharhinus sorrah and the Blacktip shark C. limbatus along the coasts of the Arabian Peninsula, Pakistan and South Africa

description: The increase in demand for shark meat and fins has placed shark
 populations worldwide under high fishing pressure. In the Arabian region,
 the Spot-tail shark Carcharhinus sorrah and the Blacktip shark
 Carcharhinus limbatus are among the most exploited species. In this study
 we investigated the population genetic structure of C. sorrah (n= 327)
 along the coasts of the Arabian Peninsula and of C. limbatus (n= 525)
 along the Arabian coasts, Pakistan and KwaZulu-Natal, South Africa using
 microsatellite markers (15 and 11 loci respectively). Our findings support
 weak population structure in both species. Carcharhinus sorrah exhibited a
 fine structure, subdividing the area into three groups. The first group
 comprises all samples from Bahrain, the second from the UAE and Yemen and
 the third from Oman. Similarly, C. limbatus exhibited population
 subdivision into three groups. The first group, comprising samples from
 Bahrain and Kuwait, was highly differentiated from the second and third
 group, comprising samples from Oman, Pakistan, the UAE and Yemen; and
 South Africa and the Saudi Arabian Red Sea, respectively. Population
 divisions were supported by pairwise FST values and Discriminant Analysis
 of Principal Components (DAPC), but not by STRUCTURE. We suggest that the
 mostly low but significant pairwise FST values in our study are suggestive
 of fine population structure, which is possibly attributable to
 behavioural traits such as residency in C. sorrah and site fidelity and
 philopatry in C. limbatus. However, for all samples obtained from the
 northern parts of the Gulf (Bahrain and/or Kuwait)in both species, the
 higher but significant pairwise FST values could possibly be a result of
 founder effects during the Tethys Sea closure. Based on DAPC and FST
 results, we suggest each population to be treated as independent
 management unit, as conservation concerns emerge.
description: Csorrah-Microsatellite-DataThis dataset includes 15 microsatellite genotypes from 327 Carcharhinus sorrah, collected during fish market surveys in the the Arabian Sea, the Gulf of Oman, and the Arabian/Persian Gulf. 0 represents missing values. Genemapper was used to read the length of each allele.Climbatus-Microsatellite-DataThis dataset includes 11 microsatellite genotypes from 525 Carcharhinus limbatus, collected during fish market surveys in the Red Sea, the Arabian Sea, the Gulf of Oman, the Arabian/Persian Gulf, and the east coast of South Africa (KwaZulu Natal). 0 represents missing values. Genemapper was used to read the length of each allele.
DOI: 10.5061/dryad.5p39s
title: Data from: Importance of mixotrophic bacterivory can be predicted by light and loss rates

description: Recent observational studies form oligotrophic waters provide ample
 evidence that mixotrophic flagellates often account for the bulk of
 bacterivory. However, we lack a general framework that allows a
 mechanistic understanding of success of mixotrophs in the competition with
 heterotrophic bacterivores. This is especially needed for integrating
 mixotrophy in models of the microbial loop. Based on general tradeoffs
 linked to the combined resource use in mixotrophs (generalist versus
 specialist), we propose a concept where mixotrophs are favored by
 conditions of high light – low losses, corresponding to the situation
 found in the surface waters of oligotrophic oceans. Under such conditions,
 they can achieve positive net growth at very low resource levels, allowing
 simultaneous competition with specialized protists. Conversely,
 heterotrophic bacterivores and photoautotrophs should be especially
 favored in more productive and low-light conditions. We show
 experimentally that the combined effect of light and loss rates (dilution)
 predicts the success of mixotrophic bacterivorous flagellates. Moreover,
 our results suggest that total bacterivory, contrary as seen in the
 traditional microbial loop concept, has a more intricate coupling to
 light.
description: Experimental Data -
 Fischer et al - OIK-03539.R2Data collected during
 the lab experiment (Raw data).