cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.1619515
title: Data from: Effects of forestry-driven changes to groundcover and soil moisture on amphibian desiccation, dispersal, and survival

description: Over 80% of amphibian species that are declining are forest dependent.
 Forestry practices are a major cause of forest alterations globally, and
 it is well documented that clearcutting can contribute to amphibian
 declines. However, there might be adverse effects of forestry practices
 other than clearcutting. For example, planting overstory trees in rows
 (plantations) can change groundcover microhabitats and soil moisture
 levels, but the effects of this common practice on amphibian populations
 are not well studied. We compared the impacts of common intensive pine
 plantation operations to naturally regenerated pine forests on the
 desiccation, movement rates, behavior, and survival of &gt; 900
 juvenile Southern toads (Anaxyrus terrestris). Pine plantations had
 significantly more accumulation of conifer needles and less exposed soil,
 herbaceous groundcover, broadleaf litter, and soil moisture than natural
 pine forests despite the greater canopy cover at plantations. Litter cover
 explained 85% of groundcover microhabitat variance among forest types and
 predicted minimum soil moisture levels. When toads were held in small
 outdoor enclosures that constrained microhabitat selection, 24-h
 desiccation rates and 72-h mortality were significantly greater in pine
 plantation than in naturally regenerated pine forest because of lower soil
 moisture, especially during low rainfall periods. In large outdoor pens
 where juvenile amphibians could select microhabitats, movement was
 strongly directed down slope and increased with precipitation. However,
 initial speeds were positively associated with pine density, likely
 because toads were trying to evacuate from the drier high-pine-density
 areas. High-intensity silviculture practices that eliminate herbaceous or
 vegetative groundcover, such as roller chopping and scalping, increase
 amphibian desiccation because planted conifers dry the upper soil layer.
 Our study highlights the importance of prioritizing lower intensity
 silviculture practices or lower pine densities to retain groundcover
 microhabitat that serves as amphibian refugia from dry conditions that are
 predicted to increase in frequency with climate change.
description: READ_METhis file explains all of the variables in each of the datasets that accompany the manuscriptabiotic_datas_no_silvi_forestype.csvAbiotic measurements among forest types at desiccation enclosuresbinary24h and 72h toad survival at desiccation enclosuresgroundcover_dessiVisual estimates of groundcover at desiccation enclosures and soil moisture dataloggy24h water loss from toads among forest types at desiccation enclosuresmovement_ratesMovement rates of toads captured within runway experimentrunway_dataProportion of toads captured within runway experimentAnalysesThis file provides the statistical code used with each dataset in the manuscript
DOI: 10.5281/zenodo.17339789
title: Dataset & Code for: A Low-Cost and Do-It-Yourself Device for Pumping Monitoring in Deep Aquifers

description: This Zenodo record contains the dataset, source code, and hardware design files associated with the article



“A Low-Cost and Do-It-Yourself Device for Pumping Monitoring in Deep Aquifers”,published in Electronics, Volume 11, Issue 22, November 2022 (ISSN 2079-9292, MDPI).DOI: 10.3390/electronics11223788


The repository includes:





Firmware and source code used to control and collect data from the monitoring device.




Electronic schematics, hardware designs, and assembly documentation.




Experimental datasets collected during field validation campaigns.




Calibration scripts and data analysis notebooks used in the publication.



The device was developed as an open-source, low-cost monitoring platform for tracking pumping activity in deep aquifers.It measures parameters such as electrical power consumption, flow rate, and water level using affordable sensors and LoRa-based long-range wireless communication.This open hardware solution aims to support sustainable groundwater management and low-power IoT monitoring in remote areas.

Authors: Carles Aliagas Castell, Agustí Pérez-Foguet, Pere Millán, Roc Meseguer, and Carlos Molina.Affiliations: Universitat Rovira i Virgili (URV) and Universitat Politècnica de Catalunya (UPC).License: Creative Commons Attribution (CC BY 4.0) unless otherwise stated in individual files.Related publication: https://doi.org/10.3390/electronics11223788Keywords: groundwater monitoring, low-cost device, do-it-yourself, IoT, LoRa, edge computing, aquifer management
DOI: 10.5061/dryad.95p86c0
title: Data from: No evidence that gut microbiota impose a net cost on their butterfly host

description: Gut microbes are believed to play a critical role in most animal life, yet
 fitness effects and cost benefit-tradeoffs incurred by the host are poorly
 understood. Unlike most hosts studied to date, butterflies largely acquire
 their nutrients from larval feeding, leaving relatively little opportunity
 for nutritive contributions by the adult’s microbiota. This provides an
 opportunity to measure whether hosting gut microbiota comes at a net
 nutritional price. Since host and bacteria may compete for sugars, we
 hypothesized that gut flora would be nutritionally neutral to adult
 butterflies with plentiful food, but detrimental to semi-starved hosts,
 especially when at high density. We held field-caught adult Speyeria
 mormonia under abundant or restricted food conditions. Since antibiotic
 treatments did not generate consistent variation in their gut microbiota,
 we leveraged inter-individual variability in bacterial loads and OTU
 abundances to examine correlations between host fitness and the abdominal
 microbiota present upon natural death. We detected strikingly few
 relationships between microbial flora and host fitness. Neither total
 bacterial load nor the abundances of dominant bacterial taxa were related
 to butterflies’ fecundity, egg mass, or egg chemical content. Increased
 abundance of a Commensalibacter species did correlate with longer host
 lifespan, while increased abundance of a Rhodococcus species correlated
 with shorter lifespan. Contrary to our expectations, these relationships
 were unchanged by food availability to the host and were unrelated to
 reproductive output. Our results suggest the butterfly microbiota comprise
 parasitic, commensal, and beneficial taxa that together do not impose a
 net reproductive cost, even under caloric stress.
description: Ravenscraft2019_DataqPCR data (bacterial 16S and butterfly ef1a), microbiome data (16S OTU tables; bacterial taxonomy, phylogenetic tree, and representative fasta sequences of the OTUs), cumulative butterfly metadata (over the lifespan) and daily butterfly metadata in .csv and .txt formats. See README file for detailed descriptions of individual files.
DOI: 10.5061/dryad.gc974r7
title: Data from: District-level health management and health system performance

description: Strengthening district-level management may be an important lever for
 improving key public health outcomes in low-income settings; however,
 previous studies have not established the statistical associations between
 better management and primary healthcare system performance in such
 settings. To explore this gap, we conducted a cross-sectional study of 36
 rural districts and 226 health centers in Ethiopia, a country which has
 made ambitious investment in expanding access to primary care over the
 last decade. We employed quantitative measure of management capacity at
 both the district health office and health center levels and used multiple
 regression models, accounting for clustering of health centers within
 districts, to estimate the statistical association between management
 capacity and a key performance indicator (KPI) summary score based on
 antenatal care coverage, contraception use, skilled birth attendance,
 infant immunization, and availability of essential medications. In
 districts with above median management capacity, health center management
 capacity was strongly associated (p &lt; 0.05) with KPI performance
 whereas in districts with below median management capacity, health center
 management capacity was not associated with KPI performance. Having more
 staff at the district health office was also associated with better KPI
 performance (p &lt; 0.05) but only in districts with above median
 management capacity. The results suggest that district-level management
 may provide an opportunity for improving health system performance in
 low-income country settings.
description: PTIBaselineSupportingDataMSExcel file showing data on management and health systems performance collected by the project team working in each of the 36 intervention districts, based on existing administrative records at the health center and district level.
DOI: 10.7927/18s4-a866
title: IPCC AR6 Synthesis Report LR Figure 3.1 (a): Simulated annual maximum daily temperature change

description: These maps are based on model simulations and illustrate the change in annual multi-model mean temperatures at a global warming level of 1°C. The data represents the 20-year average global surface temperature change relative to the 1850–1900 baseline, expressed per degree of global warming (°C) over the period 1850–2020.
DOI: 10.5061/dryad.48pt6jd
title: Data from: Neuronal morphologies built for reliable physiology in a rhythmic motor circuit

description: It is often assumed that highly-branched neuronal structures perform
 compartmentalized computations. However, previously we showed that the
 Gastric Mill (GM) neuron in the crustacean stomatogastric ganglion (STG)
 operates like a single electrotonic compartment, despite having thousands
 of branch points and total cable length &gt;10 mm (Otopalik et al.,
 2017a; 2017b). Here we show that compact electrotonic architecture is
 generalizable to other STG neuron types, and that these neurons present
 direction-insensitive, linear voltage integration, suggesting they pool
 synaptic inputs across their neuronal structures. We also show, using
 simulations of 720 cable models spanning a broad range of geometries and
 passive properties, that compact electrotonus, linear integration, and
 directional insensitivity in STG neurons arise from their neurite
 geometries (diameters tapering from 10-20 µm to &lt; 2 µm at their
 terminal tips). A broad parameter search reveals multiple morphological
 and biophysical solutions for achieving different degrees of passive
 electrotonic decrement and computational strategies in the absence of
 active properties.
description: Lab Notebook
 (Metadata)This compressed file is
 a digital lab notebook for all electrophysiology and photo-uncaging
 experiments in Otopalik, Pipkin, and Marder (2019).LabNotebook.zipLASU ImagesThis compressed folder contains images taken with the Laser Applied Stimulation and Uncaging (LASU) system (Scientifica) during electrophysiology and glutamate photo-uncaging experiments. In brief: for each dye-filled neuron, there is a folder (same AGO_### code used in metadata) with images of its neurite tree, individual branches, and associated photo-stimulation region of interest.LASUImages.zipElectrophysiology and Photo-uncaging ExperimentsThis compressed folder contains raw time-series recordings for all electrophysiology and photo-uncaging experiments included in the paper. Recordings are the .abf format (acquired with Clampex software (Axon Instruments) and can be opened and viewed with either Clampfit Software (Axon Instruments) or another computing platform (e.g. MATLAB (Mathworks) using the AbfLoad function, see the Marder Lab GitHub).ElectrophysiologyRecordings.zipSpinning Disk ImagesSpinning disk image stacks for neurons displayed in Figure 2C. These files can be opened in ImageJ/FIJI.SpinningDiskImages.zip
DOI: 10.5061/dryad.5t065bb
title: Data from: Diagnosis of crop secondary and micro-nutrient deficiencies in sub-Saharan Africa

description: Crop production in sub-Saharan Africa has numerous biotic and abiotic
 constraints, including nutrient deficiencies. Information on crop response
 to macronutrients is relatively abundant compared with secondary and
 micronutrients (SMN). Data from 1339 trial replicates of 280 field trials
 conducted from 2013 to 2016 in 11 countries were analyzed for the
 diagnosis of SMN deficiencies. The diagnostic data included relative yield
 response (RYR) and soil and foliar test results. The RYR to application of
 a combination of Mg, S, Zn, and B (Mg-S-Zn-B) relative to a comparable
 N-P-K treatment was a &gt;5% increase for 35% of the legume blocks and
 60% of the non-legume blocks. The frequencies of soil test Zn, Cu, and B
 being below their critical level were 28, 2 and 10% for eastern and
 southern Africa, respectively, and 55, 58 and 89% for western Africa,
 while low levels for other SMN were less frequent. The frequency of foliar
 results indicating low availability were 58% for Zn, 16% for S and less
 for other SMN. The r2 values for relationships between soil test, foliar
 test and RYR results were &lt;0.035 with little complementarity except
 for soil test Zn and B with cassava (Manihot esculenta L. Crantz) RYR in
 Ghana, and foliar Zn with cereal RYR in Uganda. Positive RYR is powerful
 diagnostic information and indicative of good profit potential for
 well-targeted and well-specified SMN application. Geo-referenced RYR, soil
 analysis and foliar analysis results for diagnosis of SMN deficiencies in
 11 countries of sub-Saharan Africa were generally not complementary.
description: Tropical Africa Crop
 Nutrient Diagnosis data set Jan 2019The data are from 1339
 trial replicates of 280 field trials conducted from 2013 to 2016 in 11
 countries of tropical Africa. The data were analyzed for the diagnosis of
 secondary and micronutrient deficiencies. The diagnostic data included
 relative yield response to application of a combination of Mg, S, Zn, and
 B (Mg-S-Zn-B) relative to a comparable N-P-K treatment. Soil and foliar
 sample data is also included. The data is in an Excel file with seven
 worksheets plus a ReadMe worksheet.
DOI: 10.5061/dryad.2d58rr0
title: Data from: Reconstructing the mass and thermal ecology of North American Pleistocene tortoises

description: Researchers often interpret the presence of tortoises in Pleistocene
 assemblages as evidence of an interglacial age, based on an assumption
 that these fossils indicate thermic climates, as modern giant tortoises
 require. Since the Paleocene, tortoises have been common components of
 terrestrial fossil assemblages and have repeatedly evolved species of
 giant size. Whereas extant giant tortoises are found only on islands off
 the coasts of South America and Africa, at least two species persisted in
 North America until the terminal Pleistocene. These tortoises,
 Hesperotestudo crassiscutata and Gopherus ‘hexagonatus,’ both of which
 reached carapace lengths of &gt;1m, were distributed across the
 southern United States. This study provides new metrics to derive
 quantitative weight estimates from measurements of the tortoise shell. The
 linear measurement of 69 anatomical features of the shell of 108 live
 tortoises indicate that the regression between straight carapace length
 and weight is most significant, with a maximum r2 &gt; 0.99. This
 regression is useful for tortoises that weigh between 1.8 and 339 kg. This
 mass estimate coupled with a heat dissipation rate derived from
 thermoregulation modeling provides estimates of how long tortoises can
 maintain a viable body temperature at low ambient temperatures. Depending
 on size, a tortoise can survive a maximum of 2.3 to 33 hours of freezing
 temperatures, which corresponds to a mean annual temperature ≥ 22° C and a
 mean winter low temperature ≥ 7.5° C. This analysis infers warmer
 temperatures at Pleistocene sites with fossil tortoise occurrences than
 previous qualitative estimates.
description: EskerSupTable1A table containing all linear measurements that were used in this study.EskerSupTable2A series of tables of linear measurement versus weight regressions for live tortoises.EskerSupTable3A document file containing instructions on measuring tortoise shells and explaining the abbreviations for the shell measurements seen in Fig. 8.EskerSupTable4A table containing all of the live tortoise temperature measurements, along with the results of the thermal model for each. Also includes thermal models for fossil tortoises.SupFig01A map showing North American Pleistocene tortoise sites (yellow circles), selected Texas Pleistocene tortoise sites (magenta stars), and the distribution of modern North American tortoises (orange shaded areas). Data from: (Behrensmeyer & Turner 2017; Czaplewski et al. 2013; Parris & Daeschler 1995).
DOI: 10.15468/dl.fen8fr
title: Occurrence Download

description: A dataset containing 8 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "GadmGid is BRA.9_1",
 "TaxonKey is Ctenidae"
 ]
}

 The dataset includes 8 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001569-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.v3t4k0m
title: Data from: A trait-based approach to predict population genetic structure in bees

description: Understanding population genetic structure is key to developing
 predictions about species susceptibility to environmental change, such as
 habitat fragmentation and climate change. It has been theorized that
 life-history traits may constrain some species in their dispersal and lead
 to greater signatures of population genetic structure. In this study, we
 use a quantitative comparative approach to assess if patterns of
 population genetic structure in bees are driven by three key species-level
 life-history traits: body size, sociality, and diet breadth. Specifically,
 we reviewed the current literature on bee population genetic structure, as
 measured by the differentiation indices Nei’s GST, Hedrick’s G`ST, and
 Jost’s D. We then used phylogenetic generalised linear models to estimate
 the correlation between the evolution of these traits and patterns of
 genetic differentiation. Our analyses revealed a negative and significant
 effect of body size on genetic structure, regardless of differentiation
 index utilized. For Hedrick’s G`ST and Jost’s D, we also found a
 significant impact of sociality, where social species exhibited lower
 levels of differentiation than solitary species. We did not find an effect
 of diet specialization on population genetic structure. Overall, our
 results suggest that physical dispersal or other functions related to body
 size are among the most critical for mediating population structure for
 bees. We further highlight the importance of standardizing population
 genetic measures to more easily compare studies and to identify the most
 susceptible species to landscape and climatic changes.
description: Lopez-Uribe et al - Raw
 DataThis text file contains
 all the raw data values that we used for the generalized mixed linear
 models. This file includes all the population genetic parameter summary
 statistics, body size values, level of sociality, degree of diet
 specialization, expected heterozygosity, mean geographic distance of each
 study, and other information specific to the studies that we included in
 the analysis.Lopez-Uribe_etal_data_FINAL.txtLopez-Uribe et al - R codeThis file contains the R code used to analyze all the data. To run the code, it is necessary to use two files: (1) Lopez-Uribe_etal_data_FINAL.txt, AND (2) Lopez-Uribe_RAxML_Hedtke_bestTree.result.tre.Lopez-Uribe_etal_RCode.RLopez-Uribe et al - ML Phylogenetic TreeThis file contains the best maximum likelihood phylogenetic tree obtained from an analysis in RAxML using a modified dataset from Hedtke et al 2013.Lopez-Uribe_RAxML_Hedtke_bestTree.result.tre
DOI: 10.5061/dryad.3rk7b80
title: Data from: Unravelling the macro-evolutionary ecology of fish-jellyfish associations: life in the ‘gingerbread house’

description: Fish-jellyfish interactions are important factors contributing to fish
 stock success. Jellyfish can compete with fish for food resources, or feed
 on fish eggs and larvae, which works to reduce survivorship and
 recruitment of fish species. However, jellyfish also provide habitat and
 space for developing larval and juvenile fish which use their hosts as
 means of protection from predators and feeding opportunities, helping to
 reduce fish mortality and increase recruitment. Yet, relatively little is
 known about the evolutionary dynamics and drivers of such associations
 which would allow for their more effective incorporation into ecosystem
 models. Here, we found that jellyfish association is a probable adaptive
 anti-predator strategy for juvenile fish, more likely to evolve in benthic
 (fish living on the sea floor), benthopelagic (fish living just above the
 bottom of the seafloor) and reef-associating species than those adapted to
 other marine habitats. We also found that jellyfish association likely
 preceded the evolution of a benthic, benthopelagic and reef-associating
 lifestyle rather than its evolutionary consequence, as we originally
 hypothesised. Considering over two thirds of the associating fish
 identified here are of economic importance, and the wide-scale occurrence
 and diversity of species involved, it is clear the formation of
 fish-jellyfish associations is an important but complex process in
 relation to the success of fish stocks globally.
description: DonalGriffin_AnalysesDataFile_Supp File 1Jellyfish association analyses data set. Includes information on whether each species displays jellyfish association behaviour, and whether each fish is a demersal type (benthic, benthopelagic or reef-associated) or fully pelagic living. This data set was used to carry out the ancestral state reconstruction and the correlated evolution analyses in this research paper.
DOI: 10.5061/dryad.807m8v5
title: Data from: Consequences of divergent temperature optima in a host-parasite system

description: It was suggested that parasite infections become more severe with rising
 temperature, as expected during global warming. In ectothermic systems,
 the growth of a parasite and therefore its reproductive capacity is
 expected to increase with temperature. However, the outcome of the
 interaction depends on the temperature optima of both host and parasite.
 Here we used experimental infections of three-spined stickleback fish
 (Gasterosteus aculeatus) with its specific tapeworm parasite
 Schistocephalus solidus to investigate in detail the temperature optima
 for both host and parasite. We analyzed the fitness consequences thereof,
 focusing on growth and immunity of the host, and growth and offspring
 production of the parasite as fitness correlates. We checked for potential
 differences among populations, using the offspring of hosts and parasites
 derived from four study sites in Iceland, Germany and Spain that differ in
 average annual temperature ranging between 4.8 °C and 18.4 °C. We found
 differences in temperature optima of host and parasites that were quite
 consistent across the populations: while sticklebacks grew faster and had
 higher immune activity at low temperatures, the parasites did not even
 grow fast enough to reach sexual maturity in these conditions. By
 contrast, with increasing temperatures, parasite growth, egg production
 and offspring hatching increased strongly while host immunity and growth
 were impaired. Our results show that divergent temperature optima of hosts
 and parasites can have drastic fitness consequences and support the
 expectation that some parasites will benefit from global warming.
description: Data_Exp_4_Temperature_for_DryadExel file containing data of individual sticklebacks and parasites investigated in the present study. Corresponding columns indicate treatment, origin and tank of each individual.