cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.r974n41
title: Data from: Variation in host plant usage and diet breadth predict sibling preference and performance in the neotropical tortoise beetle Chelymorpha alternans (Coleoptera: Chrysomelidae: Cassidinae)

description: Specialized interactions between insects and the plants that they consume
 are one of the most ubiquitous and consequential ecological associations
 on the plant. Decades of investigation suggest that a narrow diet favors
 an individual phytophagous insect’s performance relative to a dietary
 generalist. However, this body of research has tended to approach
 questions of diet breadth and host usage from the perspective of temperate
 plant – insect associations. Relationships between diet breadth, host
 usage and variation in tropical insect preference and performance remain
 largely uninvestigated. Here we characterize how variation in diet breadth
 and host usage affect oviposition preference, development, survival, and
 gain in mass of a Neotropical tortoise beetle Chelymorpha alternans
 Boheman 1854 (Coleoptera: Chrysomelidae), using a split-brood, sibling
 experimental design. Host performance was measured after splitting broods
 among four no-choice host diets. Groups consuming single hosts varied
 among themselves in developmental time and survival from larva to adult.
 Performance did not vary among groups consuming multiple and single hosts.
 Oviposition preference was measured in choice and no-choice tests. Females
 displayed preference for the original host in both experiments.
 Developmental time and survival of offspring sourced from the no-choice
 experiment was measured for two complete generations to explore
 correlations with female oviposition preference. Preference for the
 original host correlated with high survivorship and an intermediate
 developmental time. Survivorship and time to develop were also high on an
 alternative host that was less preferred. Departures from predictions of
 prevailing preference-performance hypotheses suggest that host usage
 presents C. alternans with fitness trade-offs.
description: Host.Plant.Usage.analysis_MSR script for data analysis.split.developSplit development csv data file for figure 3, 4 and supplemental table 1 and 3.split.survivalSplit survival csv data file for figure 3, 4 and supplemental table 1 and 3.pp.survivalPreference-performance survival csv data file for figure 7 and supplemental table 2.pp.development.seasonalityANDgroupPreference-performance development csv data file for figure 7 and supplemental table 2.Host.Plant.Usage.plots_MSR scripts for plots in the manuscript.pp.larval.eclosureData for egg hatching success.pp.larval.eclosure.F1generation2Data for F1 mother preference comparison.pp_mumbData for supplemental figure 6.pp_iphilData for supplemental figure 6.pp_ibatData for supplemental figure 6.diet.massData for supplemental figure 2.pp.egg.development.all.generationsData for egg developmental time analysis.pp.larval.eclosion.parental.FoneData for figure 5 analysis.C.alternans_choice.testData for C. alternans choice test.
DOI: 10.5061/dryad.3nb259pq
title: Data from: Resurrecting an extinct salmon evolutionarily significant unit: archived scales, historical DNA, and implications for restoration

description: Archival scales from 603 sockeye salmon (Oncorhynchus nerka), sampled from
 May to July 1924 in the lower Columbia River, were analyzed for genetic
 variability at 12 microsatellite loci, and compared to 17 present-day O.
 nerka populations—exhibiting either anadromous (sockeye salmon) or
 non-anadromous (kokanee) life histories—from throughout the Columbia River
 Basin, including areas upstream of impassable dams built subsequent to
 1924. Statistical analyses identified four major genetic assemblages of
 sockeye salmon in the 1924 samples. Two of these putative historical
 groupings were found to be genetically similar to extant evolutionarily
 significant units (ESUs) in the Okanogan and Wenatchee rivers (pairwise
 FST = 0.004 and 0.002, respectively) and assignment tests were able to
 allocate 77% of the fish in these two historical groupings to the
 contemporary Okanogan River and Lake Wenatchee ESUs. A third historical
 genetic grouping was most closely aligned with contemporary sockeye salmon
 in Redfish Lake, Idaho, although the association was less robust (pairwise
 FST = 0.060). However, a fourth genetic grouping did not appear to be
 related to any contemporary sockeye salmon or kokanee population, assigned
 poorly to the O. nerka baseline, and had distinctive early return
 migration-timing suggesting that this group represented a putative
 historical ESU originating in headwater lakes in British Columbia that was
 likely extirpated sometime after 1924. The lack of a contemporary O. nerka
 population possessing the genetic legacy of this extinct ESU indicates
 that efforts to reestablish early-migrating sockeye salmon to the
 headwater lakes region of the Columbia River will be difficult.
description: Genotype Data_Pop
 NumbersSample location and DNA
 microsatellite variation for 17 contemporary and 4 provisional historical
 populations at 12 loci. Sockeye salmon (Oncorhynchus
 nerka)
DOI: 10.15468/dl.qw9heu
title: Occurrence Download

description: A dataset containing 37179 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Belgium",
 "TaxonKey is one of (Crassula helmsii, Lithobates catesbeianus, Misgurnus mohoity, Myriophyllum aquaticum, Procambarus clarkii, Procambarus virginalis, Xenopus laevis, Zizania latifolia)",
 "OccurrenceStatus is Present",
 "Year is greater than or equal to 2000"
 ]
}

 The dataset includes 37179 records from 39 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000701-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.7855
title: Data from: Early and Middle Triassic trends in diversity, evenness, and size of foraminifers on a carbonate platform in south China: Implications for tempo and mode of biotic recovery from the end-Permian mass extinction

description: Delayed biotic recovery from the end-Permian mass extinction has long been
 interpreted to result from environmental inhibition. Recently, evidence of
 more rapid recovery has begun to emerge, suggesting the role of
 environmental inhibition was previously overestimated. However, there have
 been few high-resolution taxonomic and ecological studies spanning the
 full Early and Middle Triassic recovery interval, leaving the precise
 pattern of recovery and underlying mechanisms poorly constrained. In this
 study, we document Early and Middle Triassic trends in taxonomic
 diversity, assemblage evenness, and size distribution of benthic
 foraminifers on an exceptionally-exposed carbonate platform in south
 China. We observe gradual increases in all metrics through Early Triassic
 and earliest Middle Triassic time, with stable values reached early in the
 Anisian. There is little support in our dataset for a substantial Early
 Triassic lag interval during the recovery of foraminifers or for a
 step-wise recovery pattern. The recovery pattern of foraminifers on the
 GBG corresponds well with available global data for this taxon and appears
 to parallel that of many benthic invertebrate clades. Early Triassic
 diversity increase in foraminifers was more gradual than in ammonoinds and
 conodonts. However, foraminifers continued to increase in diversity, size,
 and evenness into Middle Triassic time, whereas diversity of ammonoids and
 conodonts declined. These contrasts suggest decoupling of recovery between
 benthic and pelagic environments; it is unclear whether these
 discrepancies reflect inherent contrasts in their evolutionary dynamics or
 the differential impact of Early Triassic ocean anoxia or associated
 environmental parameters on benthic ecosystems.
description: payne_occurrence_sizetab delimited text file containing list of occurrences and specimen sizes for each samplepayne_abundancetab delimited text file containing list of specimen counts by genus for each sample
DOI: 10.5061/dryad.9kv23s3
title: Data from: Metabolic theory and the temperature-size rule explain the temperature dependence of population carrying capacity

description: The temperature dependence of highly conserved subcellular metabolic
 systems affects ecological patterns and processes across scales, from
 organisms to ecosystems. Population density at carrying capacity plays an
 important role in evolutionary processes, biodiversity and ecosystem
 function, yet how it varies with temperature dependent metabolism remains
 unclear. Though the exponential effect of temperature on intrinsic
 population growth rate, r, is well known, we still lack clear evidence
 that population density at carrying capacity, K, declines with increasing
 per-capita metabolic rate, as is often assumed in the metabolic theory of
 ecology (MTE). We experimentally tested whether temperature effects on
 photosynthesis propagate directly to population carrying capacity in a
 model species, the mobile phytoplankton Tetraselmis tetrahele. After
 maintaining populations at constant resource supply and temperatures (6
 levels) for 43 days, we found that density declined with increasing
 temperature in a manner quantitatively consistent with predictions when
 models included temperature-dependent metabolic rates and
 temperature-associated body size shifts. Our results demonstrate that
 warming reduces carrying capacity, and that temperature effects on body
 size and metabolic rate interact to determine how temperature affects
 population dynamics. These findings bolster efforts to relate metabolic
 temperature dependence to population and ecosystem patterns via MTE.
description: Bernhardt-2018-nitrate-finalNitrate concentrations (in uM) remaining in the water at carrying capacity in experimental populations Tetraselmis tetrahele grown over a temperature gradient.Bernhardt-2018-K-estimates-biomassCarrying capacity of experimental populations of Tetraselmis tetrahele grown over a temperature gradient, estimated in terms of biomass.Bernhardt-2018-k-estimates-abundancesCarrying capacity estimates for experimental populations of Tetraselmis tetrahele grown over a temperature gradient.Bernhardt-2018-flux-ratesPer-capita metabolic rates of Tetraselmis tetrahele over a temperature gradient.Bernhardt-2018-abundances-time-seriesCell sizes in experimental populations of Tetraselmis tetrahele grown over a temperature gradient.Bernhardt-2018-cell-sizes-time-series.csvBernhardt-2018-abundances-time-seriesTime series of population abundances in experimental populations of Tetraselmis tetrahele grown over a temperature gradient.
DOI: 10.5061/dryad.h6q26
title: Data from: Evolution of static allometries: adaptive change in allometric slopes of eye span in stalk-eyed flies

description: Julian Huxley showed that within-species (static) allometric (power-law)
 relations can arise from proportional growth regulation with the exponent
 in the power law equaling the factor of proportionality. Allometric
 exponents may therefore be hard to change and act as constraints on the
 independent evolution of traits. In apparent contradiction to this, many
 empirical studies have concluded that static allometries are evolvable.
 Many of these studies have been based, however, on a broad definition of
 allometry that includes any monotonic shape change with size, and do not
 falsify the hypothesis of constrained narrow-sense allometry. Here, we
 present the first phylogenetic comparative study of narrow-sense
 allometric exponents based on a reanalysis of data on eye span and body
 size in stalk-eyed flies (Diopsidae). Consistent with a role in sexual
 selection, we found strong evidence that male slopes were tracking
 "optima" based on sexual dimorphism and relative male trait
 size. This tracking was slow, however, with estimated times of 2-3 million
 years for adaptation to exceed ancestral influence on the trait. Our
 results are therefore consistent with adaptive evolution on million-year
 time scales, but cannot rule out that static allometry may act as a
 constraint on eye-span adaptation at shorter time scales.
description: Data_malesExcel version of Table 1 (males) in paper. Data originally published in Baker, R. H. and G. S. Wilkinson. 2001. Phylogenetic analysis of sexual dimorphism and eye-span allometry in stalk-eyed flies (Diopsidae). Evolution 55: 1373-1385.Data_femalesExcel version of table 1 (females) in our paper. Data was originally published in Baker, R. H. and G. S. Wilkinson. 2001. Phylogenetic analysis of sexual dimorphism and eye-span allometry in stalk-eyed flies (Diopsidae). Evolution 55: 1373-1385.complete_alignmentAlignment used in the Bayesian inference analysis to create the phylogenetic tree used in the comparative method. Sequences originally published in Baker R.H., G. S. Wilkinson, and R. DeSalle. 2001. Phylogenetic utility of different types of molecular data used to infer evolutionary relationships among stalk-eyed flies (Diopsidae). Systematic Biology 50: 87-105. All sequences are available in GenBank.
DOI: 10.5061/dryad.q64b0n2
title: Data from: Plasticity in nesting adaptations of a tidal marsh endemic bird

description: If individuals can perceive and manage risks, they may alter their
 behaviors based on prior experience. This expectation may apply to nest
 site selection of breeding birds, for which adaptive behavioral responses
 may enhance fitness. Birds that nest in tidal marshes have adapted to the
 challenges posed primarily by periodic, monthly tidal flooding and
 secondarily, by predation. We investigated adaptive responses in nesting
 behavior of the saltmarsh sparrow (Ammodramus caudacutus), an obligate
 tidal-marsh-breeding bird, using 536 nests monitored across five years.
 Using linear mixed effects models, we tested whether nest characteristics
 differed among nests that were successful, depredated, or flooded, and we
 investigated if females made changes in nest structure and placement
 according to outcome of their previous nesting attempt. Nest
 characteristics differed among females with different nest fates. Fledged
 and depredated nests were built higher in the vegetation and in higher
 elevation areas of the marsh than those that flooded. Successful nests had
 more canopy cover and were comprised of a lower proportion of high marsh
 vegetation (Spartina patens) than those that were flooded or depredated.
 Females with nests that failed due to flooding constructed subsequent
 nests higher in the vegetation and at higher elevation than those that
 were successful in their prior attempt, consistent with a response to
 previous experience. 85% of females renested within the average core home
 range distance (77 m), indicating a high degree of nest placement
 fidelity. Females for which nests were depredated in their prior nesting
 attempt renested at a greater distance than females for which the previous
 nesting attempts were successful. Our findings suggest saltmarsh sparrows
 exhibit plasticity in nesting behavior, which may be important for
 balancing selective pressures in a dynamic environment. This plasticity,
 however, is insufficient to enable them to adapt to the increased flooding
 predicted with sea-level rise.
description: Nest Structure
 DataNest structure
 characteristics and measurements for each nest, along with its ultimate
 fate.Benvenuti_Plasticity_Data1_NestStructures.xlsxChanges in nest structure in renesting sparrowsNest structure measurements for first and subsequent nesting attempt and changes in these measurements for renesting sparrows.Benvenuti_Plasticity_Data2_NestStructureChanges.xlsxRenesting distancesData on the distance between two subsequent nest locations for renesting sparrows, by ultimate fate of the first nest.Benvenuti_Plasticity_Data3_RenestDistance.xlsx
DOI: 10.5061/dryad.qs1h4
title: Data from: Striking phenotypic variation yet low genetic differentiation in sympatric lake trout (Salvelinus namaycush)

description: The study of population differentiation in the context of ecological
 speciation is commonly assessed using populations with obvious
 discreteness. Fewer studies have examined diversifying populations with
 occasional adaptive variation and minor reproductive isolation, so factors
 impeding or facilitating the progress of early stage differentiation are
 less understood. We detected non-random genetic structuring in lake trout
 (Salvelinus namaycush) inhabiting a large, pristine, postglacial lake
 (Mistassini Lake, Canada), with up to five discernible genetic clusters
 having distinctions in body shape, size, colouration and head shape.
 However, genetic differentiation was low (FST = 0.017) and genetic
 clustering was largely incongruent between several population- and
 individual-based clustering approaches. Genotype- and
 phenotype-environment associations with spatial habitat, depth and fish
 community structure (competitors and prey) were either inconsistent or
 weak. Striking morphological variation was often more continuous within
 than among defined genetic clusters. Low genetic differentiation was a
 consequence of relatively high contemporary gene flow despite large
 effective population sizes, not migration-drift disequilibrium. Our
 results suggest a highly plastic propensity for occupying multiple habitat
 niches in lake trout and a low cost of morphological plasticity, which may
 constrain the speed and extent of adaptive divergence. We discuss how
 factors relating to niche conservatism in this species may also influence
 how plasticity affects adaptive divergence, even where ample ecological
 opportunity apparently exists.
description: MARIN_Mistassini_lake
 troutAll genetic,
 morphological and ecological data used for analyses in Striking Phenotypic
 Variation Yet Low Genetic Differentiation in Sympatric Lake Trout
 (<i>Salvelinus namaycush<i>). The file contains genotypes,
 relative warp scores, total length (mm), mass (g), colour, depth (m below
 surface), basin and sector.</i></i>
DOI: 10.5061/dryad.8065
title: Data from: Worldwide patterns of genetic differentiation imply multiple "domestications" of Aedes aegypti, a major vector of human diseases

description: Understanding the processes by which species colonize and adapt to human
 habitats is particularly important in the case of disease-vectoring
 arthropods. The mosquito species Aedes aegypti, a major vector of dengue
 and yellow fever viruses, probably originated as a wild, zoophilic species
 in sub-Saharan Africa, where some populations still breed in tree holes in
 forested habitats. Many populations of the species, however, have evolved
 to thrive in human habitats and to bite humans. This includes some
 populations within Africa as well as almost all those outside Africa. It
 is not clear whether all domestic populations are genetically related and
 represent a single ‘domestication’ event, or whether association with
 human habitats has developed multiple times independently within the
 species. To test the hypotheses above, we screened 24 worldwide population
 samples of Ae. aegypti at 12 polymorphic microsatellite loci. We
 identified two distinct genetic clusters: one included all domestic
 populations outside of Africa and the other included both domestic and
 forest populations within Africa. This suggests that human association in
 Africa occurred independently from that in domestic populations across the
 rest of the world. Additionally, measures of genetic diversity support Ae.
 aegypti in Africa as the ancestral form of the species. Individuals from
 domestic populations outside Africa can reliably be assigned back to their
 population of origin, which will help determine the origins of new
 introductions of Ae. aegypti.
description: MicrosatsforGenepop
DOI: 10.5061/dryad.bs427
title: Data from: Competitor phenology as a social cue in breeding site selection

description: 1. Predicting habitat quality is a major challenge for animals selecting a
 breeding patch, because it affects reproductive success. Breeding site
 selection may be based on previous experience, or on social information
 from the density and success of competitors with an earlier phenology. 2.
 Variation in animal breeding phenology is often correlated with variation
 in habitat quality. Generally, animals breed earlier in high quality
 habitats that allow them to reach a nutritional threshold required for
 breeding earlier or avoid nest predation. In addition, habitat quality may
 affect phenological overlap between species and thereby interspecific
 competition. Therefore, we hypothesized that competitor breeding phenology
 can be used as social cue by settling migrants to locate high quality
 breeding sites. 3. To test this hypothesis, we experimentally advanced and
 delayed hatching phenology of two resident tit species on the level of
 study plots and studied male and female settlement patterns of migratory
 pied flycatchers Ficedula hypoleuca. The manipulations were assigned at
 random in two consecutive years, and treatments were swapped between years
 in sites that were used in both years. 4. In both years, males settled in
 equal numbers across treatments, but later arriving females avoided
 pairing with males in delayed phenology plots. Moreover, male pairing
 probability declined strongly with arrival date on the breeding grounds.
 5. Our results demonstrate that competitor phenology may be used to assess
 habitat quality by settling migrants, but we cannot pinpoint the exact
 mechanism (e.g. resource quality, predation pressure, or competition) that
 has given rise to this pattern. 6. In addition, we show that opposing
 selection pressures for arrival timing may give rise to different social
 information availabilities between sexes. We discuss our findings in the
 context of climate warming, social information use, and the evolution of
 protandry in migratory animals.
description: arrivalContains all the flycatcher arrival data used in the statistical analysesswaps14data of the 2014 swaps of tit broodsswaps15Data of the 2015 tit nests used for swappingreplicatesData of every nest box and which subplot they belonged topopulationData of general breeding biology of the four most common nest box breeders in our studyarrorderData of the arrival order of flycatcher males and females in relatively "early" and "late" subplots. Used for figure 4.arrival_early_lateR script in which all the results in this study can be checked and replicated, using the data files available.