Find research datasets worth reusing

FULFILL dataset - diet policy acceptability - efficacy and acceptability framing Denmark

This dataset represents survey data on sufficiency-oriented policy acceptability in regard to dietary consumption. The study was part of the second round surveys in Denmark in 2023 within the FULFILL project - Fundamental Decarbonisation Through Sufficiency By Lifestyle Changes. As part of Work Package 3 (WP3) in the FULFILL project, we collected quantitative data from two countries: Denmark and Germany, with representative sampling (age, income, gender, current region). In this survey on the acceptability of sufficiency-oriented diet policies we recruited a representative sample with approximately 800 participants from Denmark and Germany, taking into account primarily the individual perspective, added by some questions on the household level. The central part of the survey includes a framing experiment including three groups with participants being randomly assigned to. We were interested in peoples' acceptability on three majorly discussed and sufficiency-relevant policies, i.e. meat tax, carbon label or meat-free day at public canteens. We investigated if an information on either the efficacy of the measures or a combination of information with acceptance information or none of these information could influence people's acceptability (overall, self vs. others perspective). We measured several control variables (socio-economics such as age, gender, income, education, household size, life stage, ideological measures such as political orientation or attitudinal measures such as sufficiency orientation and climate change denial). A quantitative assessment of the carbon footprint in the food consumption domain was also included.

opencc-by-4.0Jul 2022View details →

Barn owl diet and prey fluctuations in the Jura mountains, eastern France

Based on pellet collection, the diet of the Barn Owl (Tyto alba) was studied over a 8-year period in the Jura mountains, eastern France, during two population surges of its main prey (common vole, Microtus arvalis and montane water vole, Arvicola amphibius); Small mammals were sampled by trapping and index methods. Results have been published in the Canadian Journal of Zoology (<a href="http://doi.org/10.1139/z10-011">Bernard et al. 2010</a>). Dominique Michelat collected Barn Owl pellets and identified prey items, Pierre Delattre, Jean-Pierre Quéré Jean-Pierre Damange and Patrick Giraudoux sampled small mammals. Patrick Giraudoux managed the data. <a href="https://zenodo.org/record/6945677/files/Small_mammals_trapping.txt?download=1">Small_mammals_trapping.txt  </a>is the file of the raw trapping results for small mammals (instant abundance index it in the article) <a href="https://zenodo.org/record/6945677/files/diet_smm.txt?download=1">diet_smm.txt</a> is a file with: <ul> <li>the small mammal  density computed by season (dt in the article, rough estimate of densities in number of individuals per ha for Apodemus spp., Myodes glareolus, Microtus arvalis, or weighted interpolated it for the other species)</li> <li>the ratios of each category of prey items on the total number of items collected in the church tower of three sites, <a href="https://www.openstreetmap.org/#map=16/46.9536/6.1189">Levier</a>, <a href="https://www.openstreetmap.org/search?whereami=1&query=46.9321%2C6.1666#map=16/46.9321/6.1666">Chapelle d'Huin</a> and <a href="https://www.openstreetmap.org/search?whereami=1&query=46.9382%2C6.1976#map=16/46.9382/6.1976">Le Souillot</a>.</li> </ul> For details see the material and methods of the article. FILE DESCRIPTION <a href="https://zenodo.org/record/6945677/files/diet_smm.txt?download=1">diet_smm.txt</a> <ul> <li>date, year and season: year on two digits, then P, E, A, H respectively for Printemps (Spring), Été (Summer), Automne (Autumn), Hiver (Winter)</li> <li>at_t, abundance index of Arvicola amphibius (ex A. terrestris)</li> <li>ap_t, rough density estimate of Apodemus sp.</li> <li>cg_t, rough density estimate of Myodes glareolus</li> <li>ma_t, rough density estimate of Microtus arvalis</li> <li>sa_t, relative abundance of Sorex spp.</li> <li>n_l, number of prey items at Levier</li> <li>ma_p_l, ratio of M. arvalis prey items at Levier</li> <li>at_p_l, ratio of A. amphibius prey items at Levier</li> <li>apcg_p_l, ratio of Apodemus spp. or Myodes glareolus prey items at Levier</li> <li>sa_p_l, ratio of Sorex spp. prey items at Levier</li> <li>au_p_l, ratio of other prey items at Levier</li> <li>n_ch, number of prey items at Chapelle d'Huin</li> <li>map_ch, ratio of M. arvalis prey items at Chapelle d'Huin</li> <li>at_p_ch, ratio of A. amphibius prey items at Chapelle d'Huin</li> <li>apcg_p_ch, ratio of Apodemus spp. or Myodes glareolus prey items at Chapelle d'Huin</li> <li>sa_p_ch, ratio of Sorex spp. prey items at Chapelle d'Huin</li> <li>au_p_ch, ratio of other prey items at Chapelle d'Huin</li> <li>n_ls, number of prey items at Le Souillot</li> <li>ma_p_ls, ratio of M. arvalis prey items at Le Souillot</li> <li>at_p_ls, ratio of A. amphibius prey items at Le souillot</li> <li>apcg_p_ls, ratio of Apodemus spp. or Myodes glareolus prey items at Le Souillot</li> <li>sa_p_ls, ratio of Sorex spp. prey items at Le Souillot</li> <li>au_p_ls, ratio of other prey items at Le Souillot</li> </ul> <a href="https://zenodo.org/record/6945677/files/Small_mammals_trapping.txt?download=1">Small_mammals_trapping.txt </a> <ul> <li>date, trapping period: digit 1-2, year; digit 3-4, month. Example: 8704 = April 1987.</li> <li>n_traplines_f, number of traplines in forest</li> <li>ap_f, average number of Apodemus spp. captured in forest</li> <li>cg_f, average number of Myodes glareolus captured in forest</li> <li>sa_f, average number of Sorex spp. captured in forest</li> <li>n_traplines_hfb, number of traplines in hedges and forest borders</li> <li>ap_hfb, average number of Apodemus spp. captured in hedges and forest borders</li> <li>cg_hfb, average number of Myodes glareolus captured in hedges and forest borders</li> <li>sa_hfb, average number of Sorex spp. captured in hedges and forest borders</li> <li>n_traplines_g, number of traplines in grassland</li> <li>ma_g, average number of Microtus arvalis captured in grassland</li> <li>sa_g, average number of Sorex spp. captured in grassland</li> </ul> <a href="https://zenodo.org/record/6945677/files/SmallMammalSamplingArea.kml?download=1">SmallMammalSamplingArea.kml</a> kml file locating the small mammal sampling area

FULFILL dataset - diet policy acceptability - health information provision France

This dataset represents survey data on sufficiency-oriented policy acceptability in regard to dietary consumption. The study was part of the second round surveys in France in 2023 within the FULFILL project - Fundamental Decarbonisation Through Sufficiency By Lifestyle Changes. As part of Work Package 3 (WP3) in the FULFILL project, we collected quantitative data from three countries: France, Italy, and Latvia, with representative sampling (age, income, gender, current region). In this survey on the acceptability of sufficiency-oriented diet policies we recruited a representative sample with approximately 800 participants from France, taking into account primarily the individual perspective, added by some questions on the household level. The central part of the survey includes the randomised provision of information on the health-risks associated with meat consumption. We were interested in peoples' acceptability on three majorly discussed and sufficiency-relevant policies, i.e. meat tax, carbon label or meat-free day at public canteens. We investigated if the information provision impacted people's acceptability (overall, self vs. others perspective). We measured several control variables (socio-economics such as age, gender, income, education, household size, life stage, ideological measures such as political orientation or attitudinal measures such as sufficiency orientation and climate change denial). A quantitative assessment of the carbon footprint in the food consumption domain was also included.

FULFILL dataset - diet policy acceptability - health information provision Latvia

This dataset represents survey data on sufficiency-oriented policy acceptability in regard to dietary consumption. The study was part of the second round surveys in Latvia in 2023 within the FULFILL project - Fundamental Decarbonisation Through Sufficiency By Lifestyle Changes. As part of Work Package 3 (WP3) in the FULFILL project, we collected quantitative data from two countries: France, Italy, and Latvia, with representative sampling (age, income, gender, current region). In this survey on the acceptability of sufficiency-oriented diet policies we recruited a representative sample with approximately 500 participants from Latvia, taking into account primarily the individual perspective, added by some questions on the household level. The central part of the survey includes the randomised provision of information on the health-risks associated with meat consumption. We were interested in peoples' acceptability on three majorly discussed and sufficiency-relevant policies, i.e. meat tax, carbon label or meat-free day at public canteens. We investigated if the information provision impacted people's acceptability (overall, self vs. others perspective). We measured several control variables (socio-economics such as age, gender, income, education, household size, life stage, ideological measures such as political orientation or attitudinal measures such as sufficiency orientation and climate change denial). A quantitative assessment of the carbon footprint in the food consumption domain was also included.

FULFILL dataset - diet policy acceptability - health information provision Italy

This dataset represents survey data on sufficiency-oriented policy acceptability in regard to dietary consumption. The study was part of the second round surveys in Italy in 2023 within the FULFILL project - Fundamental Decarbonisation Through Sufficiency By Lifestyle Changes. As part of Work Package 3 (WP3) in the FULFILL project, we collected quantitative data from three countries: France, Italy, and Latvia, with representative sampling (age, income, gender, current region). In this survey on the acceptability of sufficiency-oriented diet policies we recruited a representative sample with approximately 800 participants from each country, taking into account primarily the individual perspective, added by some questions on the household level. The central part of the survey includes the randomised provision of information on the health-risks associated with meat consumption. We were interested in peoples' acceptability on three majorly discussed and sufficiency-relevant policies, i.e. meat tax, carbon label or meat-free day at public canteens. We investigated if the information provision impacted people's acceptability (overall, self vs. others perspective). We measured several control variables (socio-economics such as age, gender, income, education, household size, life stage, ideological measures such as political orientation or attitudinal measures such as sufficiency orientation and climate change denial). A quantitative assessment of the carbon footprint in the food consumption domain was also included.

FULFILL dataset - diet policy acceptability - efficacy and acceptability framing Germany

<div> This dataset represents survey data on sufficiency-oriented policy acceptability in regard to dietary consumption. The study was part of the second round surveys in Germany in 2023 within the FULFILL project - Fundamental Decarbonisation Through Sufficiency By Lifestyle Changes. As part of Work Package 3 (WP3) in the FULFILL project, we collected quantitative data from two countries: Denmark and Germany, with representative sampling (age, income, gender, current region). In this survey on the acceptability of sufficiency-oriented diet policies we recruited a representative sample with approximately 800 participants from Denmark and Germany, taking into account primarily the individual perspective, added by some questions on the household level. The central part of the survey includes a framing experiment including three groups with participants being randomly assigned to. We were interested in peoples' acceptability on three majorly discussed and sufficiency-relevant policies, i.e. meat tax, carbon label or meat-free day at public canteens. We investigated if an information on either the efficacy of the measures or a combination of information with acceptance information or none of these information could influence people's acceptability (overall, self vs. others perspective). We measured several control variables (socio-economics such as age, gender, income, education, household size, life stage, ideological measures such as political orientation or attitudinal measures such as sufficiency orientation and climate change denial). A quantitative assessment of the carbon footprint in the food consumption domain was also included. </div>

openCC (other)Jan 2025View details →

edi52/100

Minnesota Department of Natural Resources Yellow Perch and Bluegill Diet Study, Lower Pool 4 Mississippi River, 2018-2019

To assess potential dietary overlap and predation between bluegill and yellow perch, we examined stomach content of both species in three backwater contiguous lakes of Lower Pool 4 in the Mississippi River from May 2018 through January 2019. In this area, bluegill have been common for decades, but yellow perch only became abundant following an ecological shift to a clear-water, macrophyte dominated state that occurred from 2007 - 2007. We used daytime electrofishing to collect fish during open-water sampling (spring, summer, and fall) and ice angling during ice-covered sampling (winter). The dataset documents the diet content of one hundred and eighty-nine yellow perch and sixty-one bluegill. Stomach contents were extracted via gastric lavage in the spring, summer, and fall and via stomach removal in the winter. All prey items were categorized to lowest identifiable taxonomic level and quantified via volumetric displacement.

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Puma diet in a high Andean ecosystem, 2012-2022

We analyzed 45 puma scats collected between 2012 and 2022, identified in the field based on size, shape, and hair content. Scats were dissected, and prey remains (bones, teeth, claws) were soaked in soapy water, rinsed, air-dried, and stored with silica gel to prevent fungal or bacterial contamination. All processed material was deposited in the Ichnology Collection of the Colecciones Biológicas de la Universidad CES (CBUCES-J), Medellín. Prey remains were photographed with a Canon EOS T7i camera and macro lens, using focus stacking in Helicon Focus 8.2.3 to produce fully focused composite images. Specimens were identified to the lowest possible taxonomic level by comparison with reference material housed at CBUCES, the Museo de Ciencias Naturales de La Salle (CNS), the Museum of Southwestern Biology (MSB), and the Colección Teriológica de la Universidad de Antioquia (CTUA). Diet was quantified using frequency of occurrence (FO) and relative biomass consumed (RBC). RBC was used to estimate the proportion of total prey biomass represented by each species. Published mean adult body masses were assigned to prey species, while unidentified sigmodontine rodents were estimated using dental allometry. Statistical analyses was used to evaluate sample completeness, and Kruskal–Wallis tests to assess variation across three time bins (2012–2016, 2018–2020, 2021–2022). Diet breadth was measured using Levins’ standardized niche breadth (Bsta). Diet similarity between study sites and previous research was assessed using Jaccard distance. Mean human disturbance values were extracted from raster data to derive effects of anthropogenic pressure.

openCC (other)Sep 2025View details →

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Diet composition for small pelagic fishes across the Northeast U.S. Continental Shelf for NES-LTER, ongoing since 2013

These data represent the diet composition of small pelagic fishes assessed by the Northeast U.S. Shelf Long-Term Ecological Research (NES-LTER) project. The six species of fish in this dataset represent a subset of the species collected in bottom trawls conducted by the NOAA Fisheries Northeast Ecosystems Surveys from Cape Hatteras to the Gulf of Maine. Sampling occurred in the Spring and Fall seasons. Fish were frozen and stomach content analyses were conducted by the Fisheries Oceanography and Larval Fish Ecology Lab at the Woods Hole Oceanographic Institution. Data are counts and length measurements for prey items examined under a dissecting microscope. Prey species were matched to the lowest taxonomic level in the Integrated Taxonomic Information System (ITIS) for scientific name and taxonomic serial number. The dataset was supplemented with geospatial and temporal information from NOAA Fisheries trawl databases.

openCC (other)Mar 2022View details →

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Inter-Chemical Correlation results for the study: HHEARx2017-1863 (Investigating Overweight/Obesity and Poor Diet as Susceptibility Factors for Secondhand Smoke in Childhood Asthma)

Title: Investigating Overweight/Obesity and Poor Diet as Susceptibility Factors for Secondhand Smoke in Childhood Asthma Species: Homo sapiens Number of samples: 960 Number of named analytes: 37 Datasource url: https://hheardatacenter.mssm.edu/PublicFile/ViewPublicFile?projectid=29

opencc-zeroMay 2024View details →

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Density independent prey choice, taxonomy, life history and web characteristics determine the diet and biocontrol potential of spiders (Linyphiidae and Lycosidae) in cereal crops - Dataset

Materials and Methods Fieldwork Money spiders (Araneae: Linyphiidae) and wolf spiders (Araneae: Lycosidae) were the two most common families present in these field surveys, so were prioritised for collection. Spiders were visually located along transects in two adjacent barley fields at Burdons Farm, Wenvoe in South Wales (51°26'24.8"N, 3°16'17.9"W) and collected from occupied webs and the ground, between April and September 2018. Surveys and sampling were conducted five days per week across this period. Each transect was adjacent to a randomly selected tramline and they were distributed across the entire field. The areas searched were 4 m2 quadrats at least 10 m apart and all observed linyphiids and lycosids were collected in approximately 15-minute searches. The spiders included in this study were taken from 64 locations across 24 days (Supplementary Table 3) along the aforementioned transects. Spiders were individually placed into 1.5 ml microcentrifuge tubes containing 100 % ethanol using an aspirator, regularly changing meshing, at least every five spiders, to limit potential cross-contamination between spiders (spiders were also subsequently washed during transferral to fresh ethanol at the identification and, separately, dissection stages). Linyphiids occupying webs were prioritised for collection, but ground-active linyphiid spiders were also collected. For each spider taken from a web, the height of the web from the ground and its approximate dimensions were recorded, the latter calculated as approximate web area. Spiders were taken to Cardiff University, transferred to fresh ethanol, adults identified to species-level and juveniles to genus, and stored at -80 °C in 100 % ethanol until subsequent DNA extraction. To obtain data on local prey density, 4 m2 of ground and crop stems were suction sampled using a ‘G-vac’ for 30 seconds at each quadrat from which spiders were collected, with the collected material emptied into a bag, any organisms immediately killed with ethyl-acetate and material frozen for storage before sorting into 70 % ethanol in the lab. All invertebrates were identified to family level due to the restriction of many of the metabarcoding-derived dietary data to this level, and the difficulty associated with finer taxonomic resolution of many taxa. Exceptions included springtails of the superfamily Sminthuroidea (Sminthuridae and Bourletiellidae, which were often indistinguishable following suction sampling and preservation due to the fine features necessary to distinguish them) which were left at super-family, mites (many of which were immature or in poor condition) which were identified to order level and wasps of the superfamily Ichneumonoidea (which were identified no further due to obscurity of wing venation due to damage).   Extraction and high-throughput sequencing of spider gut DNA Given their prevalence in field collections, dietary analysis was carried out for the linyphiid genera Erigone, Tenuiphantes, Bathyphantes and Microlinyphia (Araneae: Linyphiidae), and the Lycosidae genus Pardosa. Spiders were transferred to and washed in fresh 100 % ethanol to reduce external contaminants prior to identification via morphological key 1. Abdomens were removed from spiders and again washed in and transferred to fresh 100 % ethanol. DNA was extracted from the abdomens via Qiagen TissueLyser II and DNeasy Blood & Tissue Kit (Qiagen) as per the manufacturer protocol, but with an extended lysis time of 12 hours to account for the complex and branched gut system in spider abdomens 2. At least one extraction negative (blank tubes treated identically to samples) was included per 12 spiders (each extraction typically contained 24 spiders, thus two extraction negatives), which was included in subsequent PCR and high-throughput sequencing to detect instances of lab/reagent contamination. For amplification of DNA, two primer pairs were used. BerenF-LuthienR 3 amplified a broad range of invertebrates including spiders, and TelperionF-LaureR, amplified a range of invertebrates but fewer spiders (modified from TelperionF-LaurelinR 3 via one base-pair change from Laurelin; 5’-ggrtawacwgttcawccagt-3’). Primers were labelled with unique 10 bp molecular identifier tags (MID-tags) so that each individual had a unique pairing of forward and reverse tags for identification of each spider post-sequencing. PCR reactions of 25 µl contained 12.5 µl Qiagen PCR Multiplex kit, 0.2 µmol (2.5 µl of 2 µM) of each primer and 5 µl template DNA. Reactions were carried out in the same thermocycler, optimised via temperature gradient, with an initial 15 minutes at 95 °C, 35 cycles of 95 °C for 30 seconds, the primer-specific annealing temperature for 90 seconds and 72 °C for 90 seconds, respectively, followed by a final extension at 72 °C for 10 minutes. BerenF-LuthienR and TelperionF-LaureR used annealing temperatures of 52 °C and 42 °C, respectively. Within each PCR 96-well plate, 12 negative controls (extraction and PCR), 2 blank controls and 2 positive controls were included (i.e. 80 samples per plate), based on Taberlet et al. (2018). Positive controls were mixtures of invertebrate DNA comprised of non-native Asiatic species in four different proportions (Supplementary Table 1) and blanks were empty wells within each plate to identify tag-jumping into unused MID-tag combinations. PCR negative controls were DNase-free water treated identically to DNA samples. A negative control was present for each MID-tag to identify any contamination of primers. All PCR products were visualised in a 2 % agarose gel with SYBRSafe (Thermo Fisher Scientific, Paisley, UK) and placed in categories based on their relative brightness. The concentration of these brightness categories was quantified via Qubit dsDNA High-sensitivity Assay Kits (Thermo Fisher Scientific, Waltham, MA, USA) with at least three representatives of each category per plate. The PCR products were then proportionally pooled according to these concentrations. Each pool was cleaned via SPRIselect beads (Beckman Coulter, Brea, USA), with a left-side size selection using a 1:1 ratio (retaining ~300-1000 bp fragments). The concentration of the pooled DNA was then determined via Qubit dsDNA High-sensitivity Assay Kits and pooled together into one library per primer pair. Library preparation for Illumina sequencing was carried out on the cleaned libraries via NEXTflex Rapid DNA-Seq Kit (Bioo Scientific, Austin, USA) and samples were sequenced on an Illumina MiSeq via a V3 chip with 300-bp paired-end reads (expected capacity ≤25,000,000 reads). Bioinformatic analysis followed (Drake et al., 2021; Supplementary Information 1).   Statistical analysis All analyses were conducted in R v4.0.0 6. Initial multivariate analyses used binary data (i.e., presence/absence) given the various problems inherent to quantifying metabarcoding data 7,8. Prey species that occurred only once across all of the dietary samples were removed before further analyses to prevent outliers skewing the results, which is particularly problematic for non-metric multidimensional scaling. Spider diets were compared between variables using multivariate generalized linear models (MGLMs) via ‘manyglm’ in the ‘mvabund’ package 9 with a binomial error family and Monte Carlo resampling. Model independent variables included spider genus, spider life stage (juvenile or adult, the latter defined by fully developed genitalia), spider sex and all two-way interactions between these variables. Pairwise two-way interactions were also included between the aforementioned variables and Julian day to account for how seasonality may affect these relationships. Coarse dietary differences were visualised by non-metric multidimensional scaling (NMDS) via metaMDS in the ‘vegan’ package 10 with Jaccard distance in two dimensions and 999 tries. For NMDS, outliers (usually samples containing rare taxa) were identified by plotting and subsequently removed to facilitate separation of samples and achieve minimum stress. For visualisation of the effect of categorical variables against the dietary NMDS, spider plots were created using ‘ordispider’ with ‘ggplot’ and the ‘RColorBrewer’ ‘Accent’ colour palette 11. Spider diet was compared against web characteristics for spiders for which both data were available using the MGLM process outlined above, but with starting models containing web height, web area, an interaction between the two, and pairwise interactions between genus, life stage and sex with the two web variables. This model used the same binomial error family as above, but with a ‘cloglog’ link function. For visualisation of the effect of continuous variables against the NMDS, surf plots were created with scaled coloured contours using the function “ordisurf” of the “ggplot” package in R. All prey taxa were classified as agricultural pests, natural enemies or excluded from subsequent analyses of intraguild predation and biocontrol (Supplementary Table 2). Intraguild predation and biocontrol variables were created by counting the number of natural enemy taxa, and, separately, of agriculturally relevant “pest” taxa (taxa containing species that commonly adversely affect agricultural productivity; Supplementary Table 2) in each spider’s diet. These resultant count data (effectively the diversity of pests and natural enemies predated by each individual spider) were separately analysed against spider genus, life stage and sex via GLM. “Site” (denoting the 4 m2 area from which spiders were collected within fields) was initially included as a random effect in generalized linear mixed-models, but no significant effect was observed when comparing this model against a standard GLM via a likelihood ratio test of nested models using the ‘lrtest’ command in the ‘lmtest’ package 12. Standard GLMs were thus used to avoid issues relating to singularity in the mixed models. The assumptions for the resultant Poisson error family GLMs were tested using the “testResiduals” function of the ‘DHARMa’ package 13. Intraguild predation and biocontrol differences between significant terms were visualised using violin plots with the quartiles, median and 95 % upper limit annotated using the ‘geom_violin’ function in ‘ggplot2’. In situ spider prey choice was analysed using network-based null models in the ‘econullnetr’ package 14 with the ‘generate_null_net’ command, visually represented with the ‘plot_preferences’ command. Binary dietary data were used alongside suction sample count data to represent prey availability. These suction sample data, as described above, were collected at the same sites as the spiders three days after spider collection. Prior to the taxonomic prey choice analysis, an hemipteran identified no further than order level through dietary analysis was removed due to the inability to pair it to any present prey taxa with certainty. Standardised effect sizes (SES) were extracted for all comparisons for each individual spider and compared between genera, life stages and sexes using permutational multivariate analysis of variance (PerMANOVA) using the ‘adonis’ function of the ’vegan’ package with 9999 permutations and a Euclidean distance matrix to determine overall differences in prey choice.   References 1.        Roberts, M. J. The Spiders of Great Britain and Ireland (Compact Edition). (Harley Books, 1993). 2.        Krehenwinkel, H., Kennedy, S., Pekár, S. & Gillespie, R. G. A cost-efficient and simple protocol to enrich prey DNA from extractions of predatory arthropods for large-scale gut content analysis by Illumina sequencing. Methods Ecol. Evol. 8, 126–134 (2017). 3.        Cuff, J. P. et al. Money spider dietary choice in pre- and post-harvest cereal crops using metabarcoding. Ecol. Entomol. 46, 249–261 (2021). 4.        Taberlet, P., Bonin, A., Zinger, L. & Coissac, E. Environmental DNA. (Oxford University Press, 2018). 5.        Drake, L. E. et al. An assessment of minimum sequence copy thresholds for identifying and reducing the prevalence of artefacts in dietary metabarcoding data. Methods Ecol. Evol. in press, (2021). 6.        R Core Team. R: A language and environment for statistical computing. (2020). 7.        Deagle, B. E., Thomas, A. C., Shaffer, A. K. & Trites, A. W. Quantifying sequence proportions in a DNA-based diet study using Ion Torrent amplicon sequencing: which counts count? Mol. Ecol. Resour. 13, 620–633 (2013). 8.        Deagle, B. E. et al. Counting with DNA in metabarcoding studies: How should we convert sequence reads to dietary data? Mol. Ecol. 28, 391–406 (2019). 9.        Wang, Y., Naumann, U., Wright, S. T. & Warton, D. I. mvabund – an R package for model-based analysis of multivariate abundance data. Methods Ecol. Evol. 3, 471–474 (2012). 10.      Oksanen, J. et al. vegan: Community Ecology Package. (2016). 11.      Neuwirth, E. RColorBrewer: ColorBrewer palettes. (2014). 12.      Zeileis, A. & Hothorn, T. Diagnostic checking in regression relationships. R News 2, 7–10 (2002). 13.      Hartig, F. DHARMa: residual diagnostics for hierarchical (multi-level/mixed) regression models. (2020). 14.      Vaughan, I. P. et al. econullnetr: an r package using null models to analyse the structure of ecological networks and identify resource selection. Methods Ecol. Evol. 9, 728–733 (2018).

opencc-by-4.0Apr 2021View details →

openCC (other)Jan 2025View details →

Stomach contents (1977-1981) and stable isotopes (1994) from the Everglades, Florida, USA from the publication "Fishes in a seasonally pulsed wetland show spatiotemporal shifts in diet and trophic niche but not shifts in trophic position"

Stomach contents of fishes (1977-1981) and stable isotopes of fishes, invertebrates, and basal resources (1994) were collected from spikerush marsh, sawgrass ridge, and alligator pond habitats in Shark River Slough, Everglades National Park, Florida, USA. These data were used to quantify diet, trophic niche area, trophic position, basal resource use and how these metrics vary among size classes, seasons, and habitats. Data collection is complete. These data support Flood et al. (2023). Associated R code will be made available through Peter Flood's GitHub: https://github.com/pjflood/historic_everglades_aquatic_food_web. References: Flood, Peter J., William F. Loftus, and Joel C. Trexler. "Fishes in a seasonally pulsed wetland show spatiotemporal shifts in diet and trophic niche but not shifts in trophic position." Food Webs 34 (2023): e00265. https://doi.org/10.1016/j.fooweb.2022.e00265

openCC (other)Sep 2024View details →

Data and code from "Black-throated blue warblers (Setophaga caerulescens) exhibit diet flexibility and track seasonal changes in insect availability" Kaiser et al. 2024 Ecology and Evolution

Changes in leaf phenology from warming spring and autumn temperatures have lengthened the temperate zone growing ‘green’ season and breeding window for migratory birds in North America. However, the fitness benefits of an extended breeding season will depend, in part, on whether species have sufficient dietary flexibility to accommodate seasonal changes in prey availability. We used fecal DNA metabarcoding to test the hypothesis that seasonal changes in the diets of the insectivorous, migratory black-throated blue warbler (Setophaga caerulescens) track changes in the availability of arthropod prey at the Hubbard Brook Experimental Forest, New Hampshire, USA. We examined changes across the breeding season and along an elevation gradient encompassing a two-week difference in green season length. From 98 fecal samples, we identified 395 taxa from 17 arthropod orders; 242 were identified to species, with Cecrita guttivitta (saddled prominent moth), Theridion frondeum (eastern long-legged cobweaver), and Philodromus rufus (white-striped running crab spider) occurring at the highest frequency. We found significant differences in diet composition between survey periods and weak differences among elevation zones. Variance in diet composition was highest late in the season, and diet richness and diversity were highest early in the season. Diet composition was associated with changes in prey availability surveyed over the green season. However, several taxa occurred in diets more or less than expected relative to their frequency of occurrence from survey data, suggesting that prey selection or avoidance sometimes accompanies opportunistic foraging. This study demonstrates that black-throated blue warblers exhibit diet flexibility and track seasonal changes in prey availability, which has implications for migratory bird responses to climate-induced changes in insect communities with longer green seasons. These data were gathered as part of the Hubbard Brook Ecosystem Study (HB

openCC (other)Oct 2024View details →

Adelie penguin diet composition, preliminary analyses of whole samples, 1991-2024

The fundamental long-term objective of the seabird component of the Palmer LTER (PAL) has been to identify and understand the mechanistic processes that regulate the mean fitness (population growth rate) of regional penguin populations. Since the inception of PAL, Adélie penguin populations have effectively collapsed, gentoo penguin populations have increased dramatically and chinstrap penguin populations have remained relatively stable. These trends are spatially and temporally coherent with regional warming and decreasing sea ice duration. Adélie penguins are an ice-obligate polar species whose life history is intimately linked to the presence of sea ice, while chinstrap and gentoo penguins are ice-intolerant species whose life histories evolved in the sub-Antarctic, where sea ice is a less permanent feature of the marine ecosystem. The PAL study region includes five main islands on which Adélie penguin colonies have historically occurred, with each island containing a different number of spatially segregated sub-colonies. These colonies are censused to determine the total number of nests and chicks produced each year, and breeding success. Diet samples are acquired to understand diet composition (e.g., krill, fish) and krill length-frequencies. In general, krill constitute the most important component of the summer diets by mass of these three penguin species, but changes in PAL krill abundances have exhibited no long-term trends and thus far, have failed to explain the divergent patterns in penguin populations evident in our time series. Chick fledging masses are recorded as a cumulative measure of climate, weather, diet, and parental influences on chick health at the end of the breeding season. These data have provided valuable insights into the marine and terrestrial factors that influence Adélie penguin population fitness. No data were collected during the 2021-2022 season due to the Palmer Station pier rebuild.