cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.467km
title: Data from: Nutritional complexity and the structure of bee foraging bouts

description: How foragers cope with complexity in both needs and resources is a major
 question in behavioral ecology. When faced with nutritionally diverse
 resources, or when foraging for offspring with divergent nutritional
 needs, animals must meet the challenge of how to structure their foraging
 bouts, including what resources to forage for and in what order (how) to
 collect them. We investigated how nutritional variation in resources and
 requirements shapes the structure of bumble bee foraging bouts. Bumble bee
 workers collect 2 nutritionally distinct resources for consumers with
 different nutritional needs, floral nectar (largely carbohydrates) for
 their own needs and that of larvae, and pollen (largely protein) that is
 used primarily by larvae. We maintained colonies of the Eastern Bumble Bee
 (Bombus impatiens) in the laboratory on either protein-rich or
 protein-limited diets and assessed bees’ foraging bout structure on
 artificial flowers that offered low, medium, or high ratios of pollen to
 nectar. We analyzed bout structure using both traditional floral constancy
 metrics as well as hierarchical Bayesian analyses. Bees from
 pollen-satiated colonies responded to variation in floral pollen:nectar
 ratios, tending to collect pollen consecutively when nectar volumes were
 high. In contrast, foragers from pollen-limited colonies were relatively
 insensitive to floral reward ratio, tending to collect pollen in long runs
 regardless of nectar volume. We discuss the implications of these findings
 for the pollination services that bees provide plants.
description: Reward_constancy_dataThese data were collected in a behavioral experiment using 101 captive reared Bombus impatiens workers foraging on 'single species' arrays of artificial flowers that offer pollen and nectar as a reward. Bees came from two colony diet treatments (limited and ample) and artificial flowers offered ~2mg of pollen and wither 2,4, or 8 ul of sucrose solution. The amount of nectar and pollen load size of each bee are in the file, as well as the sequence of pollen and nectar collections.Francisetal_2016.csv
DOI: 10.5281/zenodo.18381405
title: Precision conservation: Fine-scale UAV modelling of planted pine expansion to protect the endangered Astragalus physocalyx

description: This repository includes the environmental data for Pinus pinea occurrence points, the derived environmental raster layers, and the MaxEnt model configuration for the modelling of the natural spread of P. pinea at the Important Plant Area "Bogdanci" in North Macedonia.
DOI: 10.5281/zenodo.18381406
title: Precision conservation: Fine-scale UAV modelling of planted pine expansion to protect the endangered Astragalus physocalyx

description: This repository includes the environmental data for Pinus pinea occurrence points, the derived environmental raster layers, and the MaxEnt model configuration for the modelling of the natural spread of P. pinea at the Important Plant Area "Bogdanci" in North Macedonia.
DOI: 10.5061/dryad.nc57r1s
title: Data from: Testes mass in the livebearing fish Brachyrhaphis rhabdophora (Poeciliidae) varies hypoallometrically with body size but not between predation environments

description: In this study, we considered potential causes of variation in testis size
 in the livebearing fish Brachyrhaphis rhabdophora. We evaluated variation
 in testes mass among individual males and among populations that occupy
 different selective environments. First, we predicted that small males
 should allocate more to testes mass than large males (i.e., hypoallometric
 pattern) based on a sperm competition argument. Second, based on life
 history theory and associated differences in mortality rates between
 populations that co-exist with many fish predators and those with few
 predators, we predicted that males in high-predation environments should
 allocate more to testes mass than males in habitats with few predators.
 Small males allocated proportionally more to testes mass than larger males
 (slope of testes mass to body mass was hypoallometric). However, there was
 no effect of predator environment on testes mass independent of body size
 differences. In this system, size-specific patterns of reproductive
 allocation in males (hypoallometry) differ from that seen in females
 (hyperallometry). Allocation to testes mass may respond to differences in
 mortality rate through selection on body size.
description: Male B rhabdophora
 testes mass dataThese data are from
 samples collected in the field in northwestern Costa Rica from
 Brachyrhaphis rhabdophora (Poeciliidae) collected in 1996 and 1997.
 Similar collections and remaining samples that were not destroyed in
 processing are located in the Monte L. Bean Life Sciences Museum. Column
 headings are for population number, fish identification number, predator
 presence, standard length, gonopodium length, dry testes mass, and dry
 somatic mass.male B rhabdophora testes mass
 data.xlsx
DOI: 10.5061/dryad.s7j42
title: Data from: Persistence and resistance as complementary bacterial adaptations to antibiotics

description: Bacterial persistence represents a simple of phenotypic heterogeneity,
 whereby a proportion of cells in an isogenic bacterial population can
 survive exposure to lethal stresses such as antibiotics. In contrast,
 genetically based antibiotic resistance allows for continued growth in the
 presence of antibiotics. It is unclear, however, whether resistance and
 persistence are complementary or alternative evolutionary adaptations to
 antibiotics. Here, we investigate the co-evolution of resistance and
 persistence across the genus Pseudomonas using comparative methods that
 correct for phylogenetic nonindependence. We find that strains of
 Pseudomonas vary extensively in both their intrinsic resistance to
 antibiotics (ciprofloxacin and rifampicin) and persistence following
 exposure to these antibiotics. Crucially, we find that persistence
 correlates positively to antibiotic resistance across strains. However, we
 find that different genes control resistance and persistence implying that
 they are independent traits. Specifically, we find that the number of type
 II toxin–antitoxin systems (TAs) in the genome of a strain is correlated
 to persistence, but not resistance. Our study shows that persistence and
 antibiotic resistance are complementary, but independent, evolutionary
 adaptations to stress and it highlights the key role played by TAs in the
 evolution of persistence.
description: Vogwill JEB persistence
 resistanceAll relevant data should
 be on first two tabs.
DOI: 10.5061/dryad.49g6g
title: Data from: Response of non-grassland avian guilds to adjacent herbaceous field buffers: testing hypotheses about configuration of targeted conservation practices in agricultural landscapes

description: 1. A substantial part of the world's land base is dominated by
 agriculture, and forest habitat often consists of discrete patches of
 forest and linear woody corridors. These natural components provide
 habitat for some forest birds, but make conservation of these species
 difficult. In-field practices applied outside forest patches, such as
 specific juxtapositions of herbaceous field buffers adjacent to forest
 habitat, could increase avian diversity contributions of existing forest
 without creation of additional forest habitat. Our prediction was that
 herbaceous field buffers would increase bird richness in adjacent forest,
 and we evaluated four potential mechanisms. 2. We used bird count data
 from a conservation buffer monitoring program and hierarchical community
 models to estimate species richness of forest generalist, forest interior,
 and shrubland (edge) species near forest edges with and without adjacent
 herbaceous field buffers. We accounted for heterogeneity in detection
 probabilities and forest cover in surrounding landscapes when estimating
 species- and guild-level responses. 3. Consistent with the drift fence
 hypothesis, adjacent herbaceous buffers were associated with a modest
 increase in richness of forest interior birds in woody corridors, but not
 in forest blocks. Consistent with resource complementation, adjacent
 herbaceous buffers were associated with modest increases in richness of
 shrubland (edge) birds in both woody corridors and forest blocks. 4.
 Across all species and guilds, adjacent buffers generally associated with
 greater abundance (e.g. 28 of 39 species), but these increases were also
 relatively small and highly variable (i.e. overlapping 95% credible
 intervals). Corroborating existing research, effects of adjacent
 herbaceous buffers are likely real, but neither pervasive nor strong. 5.
 Synthesis and applications. Conservation practices targeted to grassland
 species often produce measurable conservation benefits for target species.
 However, biodiversity return for investment would be further increased if
 targeted practices could be deployed in ways that also produce benefits
 for non-target species in adjacent habitats. Our results suggest that
 additional benefits for non-target species using adjacent forest habitat
 are likely to be modest, so conservation planning should focus on species
 targeted by the conservation practices and avoidance of potential negative
 impacts on those species when positive benefits to adjacent habitat are
 weak or lacking.
description: Riffell_etal_2015Data used in the hierarchical community model in "Response of non-grassland avian guilds to adjacent herbaceous field buffers: testing the configuration of targeted conservation practices in agricultural landscapes" by Riffell et al. Stored as a R data object.
DOI: 10.5061/dryad.4c77r
title: Data from: Genetic architecture underlying morning and evening circadian phenotypes in fruit flies Drosophila melanogaster

description: Circadian rhythms are perhaps among the genetically best characterised
 behaviours. Several mutations with drastic effects on circadian processes
 have been identified and models developed to explain how clock genes and
 their products generate self-sustained oscillations. While natural
 variations in circadian phenotypes have been studied extensively, the
 genetic basis of such adaptive variations remains largely unknown. Here we
 report the results of a preliminary genetic analysis of adaptive
 divergence of circadian phenotypes in populations of fruit flies
 Drosophila melanogaster. Two sets of populations- early and late were
 created in a long-term laboratory selection for morning and evening
 emergence with four independent replicates each. Over the course of ~55
 generations, the early flies evolved increased morning emergence and
 shorter circadian period, while late flies evolved increased evening
 emergence and longer period. To examine the genetic basis of circadian
 phenotypes, we set-up crosses between early and late flies and monitored
 emergence and activity/rest rhythms in the F1, backcrossed and F2 progeny.
 Our analysis suggests that the genetic basis of divergent circadian
 phenotypes in early and late stocks is primarily autosomal. Line-cross
 analysis revealed that additive and non-additive genetic effects
 contribute to the divergence of circadian phenotypes in early and late
 flies.
description: Raw data for line cross
 analysisRaw data includes
 1)period of activity/rest rhythm, 2)adult emergence during morning and
 evening hours in progeny from 16 crosses set between early and late
 populations of fruit flies Drosophila melanogasterRaw
 data.rar
DOI: 10.5061/dryad.fj63q
title: Data from: Ecosystem services and disservices provided by small rodents in arable fields: effects of local and landscape management

description: 1. In agriculture, both valuable ecosystem services and unwanted ecosystem
 disservices can be produced by the same organism group. For example, small
 rodents can provide biological control through weed seed consumption but
 may also act as pests, causing crop damage. 2. We studied the hypothesised
 causal relationships between ecosystem services (removal of weed seeds)
 and disservices (removal of wheat and crop damage) derived by small
 rodents (voles and mice) at multiple spatial scales. At the landscape
 scale, we studied the effects of landscape compositional and
 configurational heterogeneity along the former inner German border in east
 and west Germany on the abundance of voles and mice and their related
 ecosystem services and disservices. At the local scale, we studied how
 this abundance and ecosystem functions are affected by management
 intensity (organic vs. conventional winter wheat), associated differences
 in crop characteristics and edge effects. 3. Linear mixed effects models
 and path analysis show that voles drive ecosystem disservices, but not
 ecosystem services, in agricultural fields. Daily wheat seed removal by
 voles was influenced by increasing wheat height and was almost three times
 higher than weed seed removal, which was not related to local or
 landscape-scale effects. 4. Abundance of voles and associated crop damage
 decreased with lower crop density and higher wheat height, which were
 associated with organic farming. Abundance of voles and crop damage were
 highest in conventional fields in west Germany. 5. Synthesis and
 applications. As the ecosystem disservice of wheat seed consumption by
 voles and mice must be considered mainly during crop sowing, management
 before harvest should focus on decreasing the pest potential of voles’ but
 not mice. Our results suggest that densities of voles and their ecosystem
 disservices could be reduced by having fields with low crop density and
 high wheat height, practices associated with organic farming. Surrounding
 landscapes with low compositional and configurational heterogeneity could
 further reduce voles’ pest potential, but with probable negative effects
 on farmland biodiversity.
description: Ecosystem functions of
 small rodentsData collected at the
 field edges, interiors and centres of organic and conventional winter
 wheat fields in East and West Germany during the crop growing season in
 2014. As response variables abundance of mice and voles, daily seed
 removal rate by rodents of G. aparine and T. aestivum, and crop damage
 were measured/calculated and as explanatory variables region (East vs.
 West), management intensity (organic vs. conventional) and edge effects
 (transect: edge, interior, centre), as well as edge length, Shannon
 habitat diversity index (SHDI), crop density and wheat height were
 used.data_JApplL-2017-00095.R2.xlsx
DOI: 10.5061/dryad.1343
title: Data from: Concordant genetic breaks, identified by combining clustering and tessellation methods, in two co-distributed alpine plant species

description: Natural genetic breaks may indicate limitations to gene flow or the
 presence of contact zones of previously isolated populations. Molecular
 evidence suggests that genetic breaks have aggregated in distinct
 geographical areas. We propose a new application of well-established
 statistical methods for analyzing multilocus genetic data in order to
 identify intraspecific genetic breaks. The methodological approach
 combines Bayesian clustering with a spatially explicit maximum-difference
 algorithm to visualize and quantify breaks between clusters. We used AFLP
 data of two co-distributed, silicicolous alpine plant species, Geum
 montanum and G. reptans, exhaustively sampled on a consistent, regular
 grid over their entire range of the European Alps and the Carpathians. We
 found a distinct and highly similar allocation of genetic breaks in both
 species. The pattern of breaks did not conform to scenarios of glacial
 refugial survival, alternatively in peripheral refugia or on nunataks, as
 expected due to the species' ecologies (late successional low alpine
 vs. early successional high alpine). Our findings rather substantiated the
 postulate of a general pattern of genetic breaks in alpine plants and
 corresponded well with biogeographic regions formerly described. Our
 approach could serve as a tool for landscape genetics and comparative
 phylogeography, but also for floristics or faunistics to compare
 biogeographic with phylogeographic breaks.
description: Thiel-Egenter_etal_MolEcol2009_Data.zipAFLP scoring and sampling location information of two alpine plant species, Geum montanum and Geum reptans. Details given in separate ReadMe file.
DOI: 10.5061/dryad.ng267
title: Data from: Zoonotic infection of Brazilian primate workers with New World simian foamy virus

description: Simian foamy viruses (SFVs) are retroviruses present in nearly all
 nonhuman primates (NHPs), including Old World primates (OWP) and New World
 primates (NWP). While all confirmed human infections with SFV are from
 zoonotic transmissions originating from OWP, little is known about the
 zoonotic transmission potential of NWP SFV. We conducted a longitudinal,
 prospective study of 56 workers occupationally exposed to NWP in Brazil.
 Plasma from these workers was tested using Western blot (WB) assays
 containing NWP SFV antigens. Genomic DNA from blood and buccal swabs was
 analyzed for the presence of proviral SFV sequences by three nested PCR
 tests and a new quantitative PCR assay. Exposure histories were obtained
 and analyzed for associations with possible SFV infection. Ten persons
 (18%) tested seropositive and two persons were seroindeterminate (3.6%)
 for NWP SFV. Six persons had seroreactivity over 2-3 years suggestive of
 persistent infection. All SFV NWP WB-positive workers reported at least
 one incident involving NWP, including six reporting NWP bites. NWP SFV
 viral DNA was not detected in the blood or buccal swabs from all 12 NWP
 SFV seroreactive workers. We also found evidence of SFV seroreversion in
 three workers suggestive of possible clearance of infection. Our findings
 suggest that NWP SFV can be transmitted to occupationally-exposed humans
 and can elicit specific humoral immune responses but infection remains
 well-controlled resulting in latent infection and may occasionally clear.
description: Brazil_zookeeper_SFV_test_resultsExcel file containing specimen testing data (serology and PCR), institutions, and collection dates.SFV serology and PCR results Brazil_zookeepers_BS3_08.29.17.xlsx
DOI: 10.5061/dryad.29tj3
title: Data from: Time perception-based decision making in a parasitoid wasp

description: The capacity of animals to measure time and adjust their behaviors
 accordingly has been a topic of interest in vertebrates, but little
 evidence is currently available for insects. This capacity has yet to be
 properly investigated in parasitoid wasps, even though they are frequently
 used to test ecological models. Here, using associative learning between
 odors and time intervals, we show that the parasitoid wasp Microplitis
 croceipes (Hymenoptera: Braconidae) has the capacity to measure time. When
 released in a wind tunnel, females flew toward an odor associated with the
 time interval they had just experienced. We also found that reducing
 energy expenditure by restraining parasitoid wasp movement during the
 training interval prevented time perception. This serves as experimental
 evidence of time perception in a parasitoid wasp, provides both a rare
 example of learning associated to a time interval in an insect and a
 mechanism by which these animals could optimize their behaviors, as well
 as suggesting a role for energy expenditure in its time perception
 mechanism.
description: microplitis
 2016-10-28Data for Figure 1 and
 2
DOI: 10.5061/dryad.1mj01
title: Data from: High throughput sequencing of small RNAs reveals dynamic microRNAs expression of lipid metabolism during Camellia oleifera and C. meiocarpa seed natural drying

description: Background: Camellia species are ancient oilseed plants with a history of
 cultivation over two thousand years. Prior to oil extraction, natural seed
 drying is often practiced, a process affecting fatty acid quality and
 quantity. MicroRNAs (miRNA) of lipid metabolism associated with camellia
 seed natural drying are unexplored. To obtain insight into the function of
 miRNAs in lipid metabolism during natural drying, Illumina sequencing of
 C. oleifera and C. meiocarpa small-RNA was conducted. Results: A total of
 274 candidate miRNAs were identified and 3733 target unigenes were
 annotated by performing a BLASTX. Through integrated GO and KEGG function
 annotation, 23 miRNA regulating 131 target genes were identified as lipid
 metabolism, regulating fatty acid biosynthesis, accumulation and
 catabolism. We observed one, two, and four miRNAs of lipid metabolism
 which were specially expressed in C. Meiocarpa, C. oleifera, and the two
 species collectively, respectively. At 30% moisture contents, C. meiocarpa
 and C. oleifer produced nine and eight significant differentially
 expressed miRNAs, respectively, with high fatty acid synthesis and
 accumulation activities. Across the two species, 12 significant
 differentially expressed miRNAs were identified at the 50% moisture
 content. Conclusions: Sequencing of small-RNA revealed the presence of 23
 miRNAs regulating lipid metabolism in camellia seed during natural drying
 and permitted comparative miRNA profiles between C. Meiocarpa and C.
 oleifera. Furthermore, this study successfully identified the best drying
 environment at which the quantity and quality of lipid in camellia seed
 are at its maximum.
description: sequence of miRNAs of
 camellia species in seed natural drying processCamellia miRNAs related
 to lipid metabolism
DOI: 10.5061/dryad.32j0040
title: Data from: The evolution of iris colour in relation to nocturnality in owls

description: Birds, due to their multiple colourful displays, constitute a classic
 paradigm for the study of colour evolution. Although avian eyes are
 remarkably coloured, the functional basis behind inter‐specific
 variability in iris colouration remains poorly understood. Owls are an
 ideal system to shed light on the role of ecology in promoting iris colour
 evolution as they show inter‐specific variation in iris colour and in
 niche specialization with some species being strictly nocturnal and others
 active during the day. Owls perching for hunting at night might be
 unnoticed by both predators and their prey if they had dark irises, which
 would predict that dark irises were more likely to evolve in strictly
 nocturnal species than in diurnal ones. Using phylogenetic comparative
 models, we tested the camouflage hypothesis for eye colour. Ancestral
 state reconstruction revealed that the owl ancestor of the family
 Strigidae was more likely bright‐irided whereas the ancestor of the family
 Tytonidae was more likely dark‐irided. We found that iris colour and
 activity rhythm have more likely evolved in concert than independently,
 and a non‐significant trend of dark eyes to evolve more easily in owl
 species presenting strictly nocturnal habits than in diurnal species. The
 transition from diurnality to nocturnality was a previous requisite for
 the evolution of dark irises in owls. Taken together our results are only
 partly consistent with the camouflage hypothesis suggesting that dark
 irises in owls have primarily evolved to enhance concealment in nocturnal
 conditions.
description: data for
 dryadsRaw data used for
 comparative analyses on eye colour in owls