cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.w6m905qvh
title: Data from: A novel protein-based fruit fly trap in melon flies Bactrocera cucurbitae for effective pest control management

description: Agriculture remains a major source of subsistence for local communities in
 India. However, agricultural yield can be strongly affected by
 agricultural pest outbreaks. This can result in economic losses for
 small-scale farmers who already experience socioeconomic challenges, such
 as lack of appropriate infrastructure and subsidies. Sophisticated pest
 management techniques (e.g., sterile insect technique) are less accessible
 to small farmers in developing countries and therefore, alternative
 cost-effective approaches for pest management are needed. Here, we report
 our findings of a three-year-long field trial (2018 to 2020) in India
 which was designed to test for the potential effectiveness of a novel,
 slow-release formulation protein-based trap, compared to standard Cuelure
 traps against melon flies Bactrocera cucurbitae (Diptera: Tephritidae).
 Protein-bait traps can attract flies from both sexes (as opposed to
 males-only, chemical traps), bearing the potential to have greater
 long-term impact on pest populations by decreasing future reproductive
 potential of trapped individuals. We found that Cuelure had overall higher
 trapping performance, while protein-bait traps, despite trapping at lower
 efficiency, were equally effective for males and females. Simulations with
 our field data revealed that protein-bait traps can have an ‘inclusive’
 advantage by trapping females and thereby preventing future individuals.
 Overall, our study highlights the potential benefits of using this
 alternative trapping technique to supplement pest management in developing
 countries.
description: Indian field trials. Data was collected by checking the number
 and sex of flies trapped into Cuelure and protein-bait traps every 15
 days. Data were processed using standard linear mixed models in R
 (<em>lmerTest</em> package). Plots were done using
 <em>ggplot2</em>. 
description: R Statistical Software. Excel or TextEdit to read CSV files.
DOI: 10.5061/dryad.cvdncjt8n
title: Data from: Evaporation induced acoustic emissions in microfluidic vessels

description: Fluid flow processes such as drainage and evaporation in porous media are
 crucial in geological and biological systems. The motion of the
 displacement front of a moving fluid through multi-phase interfaces is
 often associated with abrupt mechanical energy release, detectable as
 acoustic emissions. The exact origin of these pulses and their damping
 mechanisms are still subjects of debate. Here, we study the
 characteristics of such acoustic emissions during evaporation of water
 from artificial microfluidic vessels, inspired by the physiology of
 vascular water-transport in plants. From the extracted settling times of
 the recorded acoustic emissions, we identify three pulse types and
 attribute their origins to bubble formation, snap-off events and rapid
 pore invasion. We also show that the resonance frequencies between 10 and
 70 kHz present in specific pulse types decrease with increasing vessel
 radius (ranging from 0.25 to 1.0 mm) and length (ranging from 2.5 to 10.0
 mm). Our findings provide insight into evaporation-induced acoustic
 emissions from microfluidic systems, both natural and artificial, and
 their potential use in non-invasive inspection or vascular health
 monitoring.
description: See methods folder in data and paper.
description: Most scripts can be opened with Matlab
 R2022a.<br>Simulation were performed with Comsol
 5.6.<br>Figures were made with Adobe Illustrator 2021.
DOI: 10.15468/gyhbzz
title: Reidentification of historical specimens assigned to Cupiennius oculifer (Karsch, 1879) (Araneae: Trechaleidae)

description: This dataset contains the digitized treatments in Plazi based on the original journal article Sherwood, Danniella, Cobo, Stephany Arizala, Dunlop, Jason A., Tsavalas, Alexis Tinker-, Geci, Donard, Lucas, Sylvia M., Brescovit, Antonio D. (2025): Reidentification of historical specimens assigned to Cupiennius oculifer (Karsch, 1879) (Araneae: Trechaleidae). Zootaxa 5723 (1): 138-142, DOI: 10.11646/zootaxa.5723.1.8, URL: https://doi.org/10.11646/zootaxa.5723.1.8
DOI: 10.21223/p3/dcqb18
title: Dataset for: Participatory Varietal Selection of 20 frost resistant clones in the locality of Chaquicocha in La Libertad, Peru

description: The Mother and Baby (M&B) trial methodology was adapted by CIP for Participatory Variety Selection (PVS) through decentralized evaluation networks and multi-year evaluations in potato growing areas in the Andean region. The M&B trial design encourages active participation of farmers through the application of treatments through systematic evaluations and selections of treatments in their own plots called "Baby trials" (i.e. farmer managed trials) and in fields with an experimental design called "Mother trials" (i.e. researcher managed trials). Objective: Analyze characteristics, attributes and preferences that men and women have when selecting a new potato variety at the phase of flowering and harvesting. A M&B trial was performed to evaluate 20 clones with frost resistance at the locality of Chaquicocha, in Pataz province, in La Libertad department, Peru. The trial design was a Randomized Complete Block Design (RCBD) with 2 replicates during 2009. In this experiment, characteristics of plant (size, type of foliage) and resistance to diseases during flowering and harvesting were evaluated.
DOI: 10.5061/dryad.rfj6q57gm
title: Movement patterns and habitat use for the sympatric species: Gambelia wislizenii and Aspidoscelis tigris

description: Background: Movement is an important characteristic of an animal’s
 ecology, reflecting perception of and response to environmental
 conditions. To effectively search for food, movement patterns likely
 depend on habitat characteristics and the sensory systems used to find
 prey. We examined movements associated with foraging for two sympatric
 species of lizards inhabiting the Great Basin Desert of southeastern
 Oregon. The two species have largely overlapping diets but find prey via
 different sensory cues, which link to their differing foraging strategies
 — the long-nosed leopard lizard, Gambelia wislizenii, is a
 visually-oriented predator, while the western whiptail, Aspidoscelis
 tigris, relies more heavily on chemosensory cues to find prey. Methods:
 Using detailed focal observations, we characterized the habitat use and
 movement paths of each species. We placed markers at the location of focal
 animals every minute for the duration of each 30-min observation.
 Afterwards, we recorded whether each location was in the open or in
 vegetation, as well as the movement metrics of step length, path length,
 net displacement, straightness index, and turn angle, and then made
 statistical comparisons between the two species. Results: The visual
 forager spent more time in open areas, moved less frequently over shorter
 distances, and differed in patterns of plant use compared to the
 chemosensory forager. Path characteristics of step length and turn angle
 differed between species. Conclusions: The visual predator moved in a way
 that was consistent with the notion that they require a clear visual path
 to stalk prey whereas the movement of the chemosensory predator increased
 their chances of detecting prey by venturing further into vegetation.
 Sympatric species can partition limited resources through differences in
 search behavior and habitat use. 
description: Data were collected in the field during 30-minute focal animal
 observations. Markers were placed every minute, and then data generated on
 movement paths and habitat use. We anaylzed data using Minitab and R (for
 circular statistics).
description: Data are saved in XML spreadsheet format and as Microsoft Excel
 (.xlsx) spreadsheets.
DOI: 10.5061/dryad.0cfxpnw7r
title: Supplementary data to translate ages across humans and great apes

description: We have generated a large dataset consisting of 573 time points from
 various behavioral, anatomical, and transcriptional changes across human
 and eight non-human primate species. This dataset includes diverse human
 populations to capture within-species variations. We aligned ages across
 humans and great apes across their lifespan. Our findings indicate that
 human lifespan is unusually extended lifespan compared to other primates,
 suggesting a unique phase of life without a clear counterpart in great
 apes.
description: The dataset includes scripts used to translate ages across humans
 and great apes. These include the age alignments as well as models used to
 generate corresponding time points from structural and transcriptional
 variation. 
description: The scripts rely on the programming language R.
DOI: 10.5061/dryad.c2fqz61fj
title: Plasticity and the adaptive evolution of switchlike reaction norms under environmental change

description: Phenotypic plasticity is often posited as an avenue for adaptation to
 environmental change, whereby environmental influences on phenotypes could
 shift trait expression toward new optimal values. Conversely, plastic
 trait expression may inhibit adaptation to environmental change by
 reducing selective pressure on ill-adapted traits. While plastic responses
 are often assumed to be linear, non-linear phenotype-environment
 relationships are common, especially in thermally-sensitive traits. Here
 we examine non-linear plasticity in a trait with great ecological and
 evolutionary significance: sexual phenotype in species with environmental
 sex determination (ESD). In species with ESD development switches between
 male and female at an environmental threshold (the inflection point). The
 inflection point is a key trait for adaptive responses to changing
 environments and should evolve toward the new optimum in order to maintain
 evolutionarily stable sex ratios. We used an individual-based theoretical
 model to investigate how two forms of plasticity in the ESD reaction norm
 – the non-linear slope of the reaction norm and a linear shift in the
 inflection point – influence the evolution of the inflection point under
 climate warming. We found that steeper reaction norm slopes (high
 non-linear plasticity) promoted evolution toward new optimal phenotypes
 (higher inflection points). In contrast, increased linear plasticity in
 the inflection point (shift) hindered adaptive evolution. Additionally,
 populations in moderate warming scenarios showed greater adaptive
 evolution of the inflection point compared with extreme warming scenarios,
 suggesting that the proximity of existing phenotypes to new optimal
 phenotypes influences evolutionary outcomes. Unexpectedly, we found
 greater population persistence under high climate variability, due to the
 increased production of rare-sex individuals in unusually cold years. Our
 results demonstrate that different forms of phenotypic plasticity have
 crucially different effects on adaptive evolution. Plasticity that
 prevented sex ratio bias hindered the evolution of the inflection point,
 while plasticity that exacerbated sex ratio bias promoted adaptation to
 environmental change.
DOI: 10.5061/dryad.pzgmsbcsn
title: Data from: Mutations in yeast are deleterious on average regardless of the degree of adaptation to the testing environment

description: The role of spontaneous mutations in evolution depends on the distribution
 of their effects on fitness. Despite a general consensus that new
 mutations are deleterious on average, a handful of mutation accumulation
 experiments in diverse organisms instead suggest that of beneficial and
 deleterious mutations can have comparable fitness impacts, i.e., the
 product of their respective rates and effects can be roughly equal. We
 currently lack a general framework for predicting when such a pattern will
 occur. One idea is that beneficial mutations will be more evident in
 genotypes that are not well adapted to the testing environment. We tested
 this prediction experimentally in the laboratory yeast Saccharomyces
 cerevisiae by allowing nine replicate populations to adapt to novel
 environments with complex sets of stressors. After &gt;1000 asexual
 generations interspersed with 41 rounds of sexual reproduction, we
 assessed the mean effect of induced mutations on yeast growth in both the
 environment to which they had been adapting and the alternative novel
 environment. The mutations were deleterious on average, with the severity
 depending on the testing environment. However, we find no evidence that
 the adaptive match between genotype and environment is predictive of
 mutational fitness effects.
description: # Data from: Mutations in yeast are deleterious on average regardless of
 the degree of adaptation to the testing environment Bao et al yeast
 adaptation data \[[Access this dataset on
 Dryad](https://doi.org/10.5061/dryad.pzgmsbcsn)] In this dataset we have
 the raw reads from our growth rate assays. These assays were performed by
 placing 96-well plates into the Biotek assay reader which read OD over a
 period of time and at regular intervals. OD is used as a proxy for cell
 concentration and thus growth. Description of the data and file structure:
 All files provided are raw read data from the machine. Each column
 represents a well and the rows are the ODs over time. Each Regular Fitness
 Assay file is named with the date that a given assay was performed.
 Crossing Assays and Mutant fitness assays were the assays done to
 determine local adaptation and the fitness of mutagenized lines
 respectively. Each well's associated identity is marked in a *ref.csv
 file which has the well number in the first column, and the identity of
 what is in that well in the second.  Some other axillary data is also
 provided. adaptracker.csv tracks the adaptation over time. Petite counts
 shows the results of the test for respiration negative yeast in a 2x2
 table.  Code is provided that is able to read this data, but has not been
 cleaned up. Growth rate was measured as the maximum growth rate over time
 achieved in the assay machine.
DOI: 10.5061/dryad.5qfttdzbz
title: Is my model fit for purpose? Validating a population model for predicting freshwater fish responses to flow management

description: Models based on ecological processes (“process-explicit models”) are often
 used to predict ecosystem responses to environmental changes or management
 scenarios. However, models are imperfect and need to be validated, ideally
 by testing their assumptions and outputs against independent empirical
 data sets. Examples of validation of process-explicit models are rare.
 Recently, stochastic population models have been developed to predict the
 likely responses (over 10-120 years) of a riverine fish (golden perch,
 Macquaria ambigua) to flow management in the Murray-Darling Basin (MDB) in
 eastern Australia, one of the world’s most regulated river basins.
 Declines of golden perch (and other species) are a direct consequence of
 altered hydrology, and managers require information to predict how fish
 will respond to possible future hydrological conditions to guide the
 substantial investments in flow management. Here, we use two independent
 field data sets to validate our population model. We compared model
 predictions to observed trends to ask: (1) how do predicted population
 sizes and growth rates compare to observed data? (2) does the correlation
 between predicted and observed population sizes and growth rates vary
 among populations? (3) does the correlation between predicted and observed
 population sizes and growth rates vary across observed hydrological
 conditions? and (4) how do modelled and observed fish movement rates
 compare? We found reasonable correlations between fish population sizes
 and growth rates as predicted by the model and observed in independent
 data sets for several populations (Aim 1) but the strength of these
 correlations varied among populations (Aim 2) and hydrological conditions
 (Aim 3). Predicted and observed fish movement rates were strongly
 correlated (Aim 4). Population models are frequently used in conservation
 decision-making but are rarely validated. We demonstrate that: (1)
 validation can identify model strengths and weaknesses; (2) observed data
 sets often have inherent limitations that can preclude robust validations;
 (3) validation is likely be more common if appropriate observed data sets
 are available; and (4) validation should consider the purpose of
 modelling. Wider consideration of these messages would contribute to more
 critical examinations of models so they can be most appropriately used in
 conservation decision-making.
description: Dataset includes predictions of Golden Perch numbers from a
 stochastic population model, and observed population sizes from
 independent datasets.
DOI: 10.5281/zenodo.18362641
title: Silicate Weathering in Marine Sediments Trapp-Muller et al. 2026, Supplementary data sets

description: This folder contains supplementary Data Set S1-S2 belonging to the publication 'Silicate Weathering in Marine Sediments' by G. Trapp-Muller et al. 2026. 

Data Set S1. Geospatial database of silicate weathering products in marine surface and subsurface sediments, containing each one excel spreadsheet and .csv file for surface (< 10 m) and subsurface (> 10 m) sediments, as well as a .csv file with the porewater data from Kau Bay. 

Data Set S2. MATLAB scripts to calculate reaction balances and weathering fluxes for various marine sediment types.
DOI: 10.5281/zenodo.18362642
title: Silicate Weathering in Marine Sediments Trapp-Muller et al. 2026, Supplementary data sets

description: This folder contains supplementary Data Set S1-S2 belonging to the publication 'Silicate Weathering in Marine Sediments' by G. Trapp-Muller et al. 2026. 

Data Set S1. Geospatial database of silicate weathering products in marine surface and subsurface sediments, containing each one excel spreadsheet and .csv file for surface (< 10 m) and subsurface (> 10 m) sediments, as well as a .csv file with the porewater data from Kau Bay. 

Data Set S2. MATLAB scripts to calculate reaction balances and weathering fluxes for various marine sediment types.
DOI: 10.15468/dl.hebmnu
title: Occurrence Download

description: A dataset containing 127 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Neoplecostomus paranensis",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 127 records from 15 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003587-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.ns1rn8q08
title: Validating a molecular clock for nudibranchs: No fossils to the rescue

description: Time-calibrated phylogenies are typically reconstructed with fossil
 information but for soft-bodied marine invertebrates that lack hard parts,
 a fossil record is lacking. In these cases, biogeographic calibrations or
 rates of divergence for related taxa are often used. Although nudibranch
 phylogenies have advanced with the input of molecular data, no study has
 derived a divergence rate for this diverse group of invertebrates. Here,
 we use an updated closure date for the Isthmus of Panama (2.8 ma) to
 derive the first divergence rates for chromodorid nudibranchs using
 multi-gene data from a geminate pair with broad phylogeographic sampling.
 Examining the species Chromolaichma sedna (Marcus & Marcus, 1967),
 we uncover deep divergences among eastern Pacific and western Atlantic
 clades and we erect a new species designation for the latter
 (Chromolaichma hemera sp. nov.). Next, we discover extensive
 phylogeographic structure within C. hemera sp. nov. sensu lato, thereby
 refuting the hypothesis of a recent introduction. Lastly, we derive
 divergence rates for mitochondrial and nuclear loci that exceed known
 rates for other gastropods and we highlight significant rate heterogeneity
 both among markers and taxa. Together, these findings improve
 understanding of nudibranch systematics and provide rates useful to apply
 to divergence scenarios in this diverse group.
description: # Validating a molecular clock for nudibranchs – no fossils to the rescue
 This dataset contains COI,
 16S and ANT gene alignments. ## Description of the data and file structure
 This dataset contains COI, 16S and ANT gene alignments. The naming
 convention used for each sequence is "Sample Field ID
 \_RegistrationNumber", and this data can be found in Table 1 of the
 manuscript. ## Sharing/Access information All genetic data is available on
 GenBank and accession numbers are listed in Table 1 of the manuscript. ##
 Code/Software There is no custom code needed to analyze these files. The
 following programs were used to process and/or analyze data: Geneious,
 MAFFT, RAxML, ASAP, bPTP, R (pegas package).
DOI: 10.15468/dl.7efnxm
title: Occurrence Download

description: A dataset containing 237731 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Merluccius merluccius",
 "HasCoordinate is true",
 "DecimalLatitude is greater than -90",
 "DecimalLatitude is less than 90",
 "DecimalLongitude is greater than -180",
 "OccurrenceStatus is Present",
 "Year is greater than or equal to 1950",
 "Year is less than or equal to 2014"
 ]
}

 The dataset includes 237731 records from 79 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003515-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.bg79cnpgj
title: Data for: Effects of drought, disturbance, and biotic neighborhood on experimental tree seedling performance

description: Forest biodiversity is likely maintained by a complex suite of interacting
 drivers that vary in importance across both space and time. 
 Contributing factors include disturbance, interannual variation in abiotic
 variables, and biotic neighborhood effects.  To probe ongoing
 uncertainties and potential interactions, we investigated tree seedling
 performance in a temperate mid-Atlantic forest ecosystem. We planted
 seedlings of five native tree species in mapped study plots, half of which
 were subjected to disturbance, and then monitored seedling survival,
 height growth, and foliar condition.The final year of data collection
 encompassed a drought, enabling comparison between intervals varying in
 water availability.  Seedling performance was analyzed as a
 function of canopy cover and biotic neighborhood (conspecific and
 heterospecific abundance), including interactions, with separate
 generalized linear mixed models fit for each interval. All species
 exhibited: a) pronounced declines in height growth during the drought
 year, b) detrimental effects of adult conspecifics, and c) beneficial
 effects of canopy openness. However, despite these consistencies, there
 was considerable variation across species in terms of the relevant
 predictors for each response variable in each interval. Our results
 suggest that drought may strengthen or reveal conspecific inhibition in
 some instances while weakening it or obscuring it in others, and that some
 forms of conspecific inhibition may manifest only under particular canopy
 conditions (although given the inconsistency of our findings, we are not
 convinced that conspecific inhibition is critical for diversity
 maintenance in our study system). Overall, our work reveals a complex
 forest ecosystem that appears simultaneously and interactively governed by
 biotic neighborhood structure (e.g., conspecific and/or heterospecific
 abundance), local habitat conditions (e.g., canopy cover), and interannual
 variability (e.g., drought).
description: R Statistical Software