cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.51482
title: Data from: Animals alter precipitation legacies: trophic and ecosystem engineering effects on plant community temporal dynamics

description: 1. Multi-year precipitation ‘legacies’ can have stronger effects on plant
 community composition than rainfall in the current growing season, but
 variation in the magnitude of these effects is not fully understood.
 Direct interactions between plants and animals, such as herbivory, and
 indirect interactions, such as ecosystem engineering (via changes in the
 physical environment), may influence precipitation legacies by altering
 mechanisms of lagged effects. However, the role of direct and indirect
 plant-animal interactions in determining the strength of precipitation
 legacies remains largely unexplored. 2. Here, we investigated effects of
 current growing season rainfall and precipitation legacies on grassland
 composition, and the influence of herbivory and ecosystem engineering
 interactions on these temporal dynamics. From 2009 to 2014, a period
 spanning high and low rainfall, we recorded plant cover in kangaroo rat
 exclosures and paired control plots that included both burrow and
 inter-burrow areas. We used linear mixed effects modeling and analysis of
 community dissimilarities to evaluate plant composition responses to
 current and previous growing season rainfall and kangaroo rat herbivory
 (presence of seed foraging) and ecosystem engineering (burrowing). 3. We
 found that community composition was more strongly affected by
 precipitation legacies than by current growing season rainfall. Greater
 precipitation in the previous growing season enhanced grass cover and
 reduced forb and legume cover. Kangaroo rat trophic and engineering
 interactions had counteracting effects on these legacies. While burrowing
 increased grass cover and thereby amplified the effects of previous
 growing season rainfall on community composition, legacies were suppressed
 by the presence of kangaroo rat foraging, which decreased grass cover.
 Further analysis revealed that kangaroo rat foraging and burrowing had
 conflicting effects on residual plant biomass prior to the growing season,
 suggesting that precipitation legacies were influenced by altered litter
 dynamics. 4. Synthesis. Our study demonstrates that animals can impact the
 strength of precipitation legacies through direct and indirect
 interactions with the plant species that drive lag effects. The influence
 of multiple types of plant-animal interactions on precipitation legacies
 may be important to consider for ecosystem management and when generating
 predictions of community composition and productivity in future
 ecosystems.
description: Plant_Data_Grinath_et_al_2018_JoEPlant cover data from 2009 to 2014 at the Carrizo Plain, California. The data are from 1 meter square quadrats within an experiment assessing the effects of kangaroo rat foraging and burrowing on plants. Plant litter cover and residual aboveground biomass are also included in this data file.Rodent_Data_Grinath_et_al_2018_JoERodent abundances per hectare from 2007 to 2014 at the Carrizo Plain, California.
DOI: 10.15482/usda.adc/28518353
title: Data from: Fungicide efficacy and duration of protection against coffee leaf rust (<i>Hemileia vastatrix</i>) on commercial coffee farms in Hawaii

description: These data are from a study that characterized fungicide efficacy and duration of protection against coffee leaf rust (CLR, <i>Hemileia vastatrix</i>) on Hawaii Island. Field trials were conducted on three commercial coffee farms in 2022 and five commercial farms in 2023. We included four commercially available fungicides approved for coffee in Hawaii in 2022, and six fungicides in 2023. The preventative fungicides (two copper-based, two <i>Bacillus</i>-based, and one botanical-based fungicide) were applied twice during the field trial, at week 0 and week 5. The translaminar fungicide was applied once (week 0) or twice (week 0 and week 6) in combination with a copper fungicide (week 3) during the field trial. Data was collected on CLR incidence (presence of infection) and leaf retention (leaves per branch) for 12 (2022) to 15 (2023) trees per treatment on a weekly (2022) or bi-weekly (2023) basis. The cost of application was also estimated based on labor (USD$/hour), gas and oil used for the sprayer, and product cost (USD$/pound or Fl oz) and rate (amount of product/acre). Our results suggest that conventional coffee farms can control CLR by alternating applications of translaminar and copper-based fungicides, aiming to apply a total of 4-6 sprays between flowering and harvest to reduce impacts on leaf retention and yield. Without the option to use translaminar fungicides, organic farms will need to aim for 5-8 sprays, alternating between copper and biological fungicides to control CLR.
DOI: 10.15482/usda.adc/28518353.v1
title: Data from: Fungicide efficacy and duration of protection against coffee leaf rust (<i>Hemileia vastatrix</i>) on commercial coffee farms in Hawaii

description: These data are from a study that characterized fungicide efficacy and duration of protection against coffee leaf rust (CLR, <i>Hemileia vastatrix</i>) on Hawaii Island. Field trials were conducted on three commercial coffee farms in 2022 and five commercial farms in 2023. We included four commercially available fungicides approved for coffee in Hawaii in 2022, and six fungicides in 2023. The preventative fungicides (two copper-based, two <i>Bacillus</i>-based, and one botanical-based fungicide) were applied twice during the field trial, at week 0 and week 5. The translaminar fungicide was applied once (week 0) or twice (week 0 and week 6) in combination with a copper fungicide (week 3) during the field trial. Data was collected on CLR incidence (presence of infection) and leaf retention (leaves per branch) for 12 (2022) to 15 (2023) trees per treatment on a weekly (2022) or bi-weekly (2023) basis. The cost of application was also estimated based on labor (USD$/hour), gas and oil used for the sprayer, and product cost (USD$/pound or Fl oz) and rate (amount of product/acre). Our results suggest that conventional coffee farms can control CLR by alternating applications of translaminar and copper-based fungicides, aiming to apply a total of 4-6 sprays between flowering and harvest to reduce impacts on leaf retention and yield. Without the option to use translaminar fungicides, organic farms will need to aim for 5-8 sprays, alternating between copper and biological fungicides to control CLR.
DOI: 10.5061/dryad.8686
title: Data from: Gizzard vs. teeth, it’s a tie: food-processing efficiency in herbivorous birds and mammals and implications for dinosaur feeding strategies

description: Particle size reduction is a primary means of improving efficiency in
 herbivores. The mode of food particle size reduction is one of the main
 differences between herbivorous birds (gizzard) and mammals (teeth). For a
 quantitative comparison of the efficiency of food comminution, we
 investigated mean fecal particle sizes (MPS) in 14 herbivorous bird
 species and compared these with a data set of 111 non-ruminant herbivorous
 mammal species. In general MPS increased with body mass, but there was no
 significant difference between birds and mammals, suggesting a comparable
 efficiency of food processing by gizzards and chewing teeth. The results
 lead to the intriguing question of why gizzard systems have evolved
 comparatively rarely among amniote herbivores. Advantages linked to one of
 the two food comminution systems must, however, be sought in different
 effects other than size reduction itself. In paleoecological scenarios,
 the evolution of "dental batteries," for example in ornithopod
 dinosaurs, should be considered an advantage compared to absence of
 mastication, but not compared to gizzard-based herbivory.
description: rev fritz
 10031_appendixData from sieve analyses
 of faeces from mammals, reptiles and birds (mean particles sizes) (captive
 wild animals)
DOI: 10.5061/dryad.vb06d3k
title: Data from: Low dose of neonicotinoid insecticide reduces foraging motivation of bumblebees

description: Widespread use of neonicotinoid insecticides, such as imidacloprid, is
 often associated with diminishing populations of bees; this loss of
 pollinators presents a concern for food security and may cause
 unpredictable changes in ecological networks. However, little is known
 about the potential behavioral mechanisms behind the
 neonicotinoid-associated pollinator decline. We quantified the effects of
 low dose (1 ppb) imidacloprid exposure on the foraging behaviour of
 bumblebees (Bombus terrestris). Individual bumblebees were released into a
 flight arena containing three patches of robotic flowers whose colour
 (yellow, orange, blue) indicated whether the flower delivered a reward
 (sugar solution). Exposure to imidacloprid had no significant effect on
 measures of bumblebee physical performance (such as flight speed) or
 learning (identifying rewarding flowers). However, pesticide treated
 bumblebees had reduced foraging motivation compared with the control
 bumblebees, as they visited fewer robotic flowers, were slower to start
 foraging and did not visit all three flower colours as often.
 Neonicotinoid concentrations of 1 ppb, often reported in plant nectar near
 agricultural lands, can thus affect the foraging behaviour of bumblebees.
 Even without a notable impact on flight performance and learning, a
 reduction in foraging motivation could explain the poor performance of
 colonies of bumblebees exposed to neonicotinoids.
description: Summary dataset with one
 value per bumblebeeSummary dataset of
 bumblebee behaviour exposed to 1 ppb imidacloprid in sugar solution and
 none in pollen. Rawdata is collected via a robotic flower system (Kuusela
 & Lämsä 2016) and the data is collapsed into a CSV file allowing easy
 import to statistical software, such as R.data_onevalueperbee.csvDataset with the whole foraging sequence (multiple values per bumblebee)The whole foraging sequence of bumblebees exposed to 1 ppb imidacloprid in sugar solution and none in pollen. Rawdata was collected via a robotic flower system (Kuusela & Lämsä 2016) and was collapsed into a CSV file to allow easy import to statistical software, such as R. The dataset can be used to analyse i.e. difference in learning rates.data_visitationsequence.csvspectraRelative spectral reflectance of used colours (maximum reflectance = 1, maximum illumination = 1). nm = wavelenght, hue30=orange, used only in the nest cage, hue35=used both in flight arena and nest cage (quinine in the flight arena, the difficult learning task), hue43=yellow, used both in flight arena and nest cage (sugar solution in the flight arena, the rewarding flower), flightarenablue=used both in flight arena and nest cage (quinine in the flight arena, the easy learning task), nestcageblue= blue, used only in the nest cage, floor=floor reflectance, illumination=illumination spectra, relative values (highest value=1).
DOI: 10.5061/dryad.51bf1j3
title: Data from: Density‐dependent and phenological mismatch effects on growth and survival in lesser snow and Ross's goslings

description: Strong seasonality of high‐latitude environments imposes temporal
 constraints on forage availability and quality for keystone herbivores in
 terrestrial arctic ecosystems, including hyper‐abundant colonial geese.
 Changes in food quality due to intraspecific competition, or food
 availability relative to the breeding phenology of birds, may have
 consequences for growth and survival of young. We used long‐term data
 (1993‐2014) from the Karrak Lake nesting colony in the Canadian central
 arctic to study relative roles of density and phenological mismatch (i.e.
 days between seasonal peaks in vegetation quality and hatching) as drivers
 of annual variations in gosling survival among lesser snow (Anser
 caerulescens caerulescens) and Ross's geese (A. rossii). Survival of
 Ross's goslings was consistently higher compared to snow geese. For
 both species, annual gosling survival was greatest when phenological
 mismatch was minimal and when nesting population size was low. We also
 examined gosling structural size (1999‐2014) in relation to density and
 mismatch hypotheses to understand whether changes in survival were
 preceded by a parallel response in growth stemming from a
 density‐dependent effect on annual forage conditions. After controlling
 for sex, age and random effects of capture group and year × species,
 structural size of both snow and Ross's goslings was reduced in years
 when phenological mismatch was greater. However, there was no significant
 evidence that body size of goslings was negatively related to breeding
 population size at the colony. Our results lend support to the notion that
 both broad‐scale changes in seasonality from observed and predicted
 warming in the arctic and, to a lesser extent, density‐dependence on
 brood‐rearing areas may result in changes to offspring quality or
 survival, with implications for population recruitment
description: Ross et al. Gosling
 Survival and Size DataExcel file with 4
 sheets: Gosling size data, gosling size metadata, gosling survival data
 and gosling survival metadataRoss et al.
 JAB_Data.xlsx
DOI: 10.5061/dryad.56cg8
title: Data from: Geosmithia associated with bark beetles and woodborers in the western USA: taxonomic diversity and vector specificity

description: Fungi in the genus Geosmithia (Ascomycota: Hypocreales) are frequent
 associates of bark beetles and woodborers that colonize hardwood and
 coniferous trees. One species, Geosmithia morbida, is an economically
 damaging invasive species. The authors surveyed the Geosmithia species of
 California and Colorado, USA, to (i) provide baseline data on taxonomy of
 Geosmithia and beetle vector specificity across the western USA; (ii)
 investigate the subcortical beetle fauna for alternative vectors of the
 invasive G. morbida; and (iii) interpret the community composition of this
 region within the emerging global biogeography of Geosmithia. Geosmithia
 was detected in 87% of 126 beetle samples obtained from 39 plant species.
 Twenty-nine species of Geosmithia were distinguished, of which 13 may be
 new species. Bark beetles from hardwoods, Cupressus, and Sequoia appear to
 be regular vectors, with Geosmithia present in all beetle gallery systems
 examined. Other subcortical insects appear to vector Geosmithia at lower
 frequencies. Overall, most Geosmithia have a distinct level of vector
 specificity (mostly high, sometimes low) enabling their separation to
 generalists and specialists. Plant pathogenic Geosmithia morbida was not
 found in association with any other beetle besides Pityophthorus
 juglandis. However, four additional Geosmithia species were found in P.
 juglandis galleries. When integrated with recent data from other
 continents, a global pattern of Geosmithia distribution across continents,
 latitudes, and vectors is emerging: of the 29 Geosmithia species found in
 the western USA, 12 have not been reported outside of the USA. The most
 frequently encountered species with the widest global distribution also
 had the broadest range of beetle vectors. Several Geosmithia spp. with
 very narrow vector ranges in Europe exhibited the similar degree of
 specialization in the USA. Such strong canalization in association could
 reflect an ancient origin of each individual association, or a recent
 origin and a subsequent diversification in North America.
description: Geosmithia
 sp_16_multigene datasetMultigene sequence
 dataset of Geosmithia sp. 16 species complex
 (ITS+RPB2+TEF1a+TUB2)Geosmithia langdonii and
 sp. 26 complex, multigeneMultigene sequence
 dataset of Geosmithia langdonii and Geosmithia sp. 26 species complex
 (TEF1a+RPB2+TUB2)Geosmithia_langdonii_Sp26_multigene.nexGeosmithia_pallida_complex_multigeneMultigene DNA sequence dataset of Geosmithia pallida species complex (TEF1a+RPB2+TUB2)ITS rDNA of GeosmithiaAlignment of ITS rDNA sequences of Geosmithia (excluding Geosmithia sp. 26 species complex)USAITS.nexITS rDNA, Geosmithia sp. 26 species complexITS rDNA alignment of Geosmithia sp. 26 species complexSp26_only.nex
DOI: 10.5061/dryad.7886
title: Data from: The local-clock permutation test: a simple test to compare rates of molecular evolution on phylogenetic trees

description: Rates of molecular evolution vary substantially between lineages, and a
 growing research effort is directed at uncovering the causes and
 consequences of this variation. Comparing local-clocks (rates of molecular
 evolution estimated from sets of branches of a phylogenetic tree) is a
 common tool in this research effort. Here, I show that a commonly used
 test (the Likelihood Ratio Test, LRT) will not be statistically valid for
 comparing local-clocks in most cases. Instead, I propose the local-clock
 permutation test (LCPT), a simple test which can be used to test the
 significance of differences between local-clocks. The LCPT could also be
 used to test for differences between any parameter that can be assigned to
 individual branches on a phylogenetic tree. Using simulated data, I show
 that the LCPT has good power to detect differences between local-clocks.
description: LCPT_simulation_filesThis zipfile will unzip to produce a folder which contains all the files and python script necessary to run all the simulations in the paper. Detailed instructions on how to replicate the analyses in the paper are provided in the README, and at the top of the python script in the file (open it in a text editor).
DOI: 10.15468/dl.ujjcrh
title: Occurrence Download

description: A dataset containing 1491 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is one of (Observation, Machine Observation, Human Observation, Material sample, Material citation, Occurrence evidence)",
 "Country is Mexico",
 "OccurrenceStatus is Present",
 "TaxonKey is Panthera onca"
 ]
}

 The dataset includes 1491 records from 29 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000570-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.pbqvd7
title: Occurrence Download

description: A dataset containing 613 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Aphthona cyparissiae",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 613 records from 63 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000571-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.rh01m
title: Data from: Tsunami-driven rafting: transoceanic species dispersal and implications for marine biogeography

description: The 2011 East Japan earthquake generated a massive tsunami that launched
 an extraordinary transoceanic biological rafting event with no known
 historical precedent. We document 289 living Japanese coastal marine
 species from 16 phyla transported over 6 years on objects that traveled
 thousands of kilometers across the Pacific Ocean to the shores of North
 America and Hawai‘i. Most of this dispersal occurred on nonbiodegradable
 objects, resulting in the longest documented transoceanic survival and
 dispersal of coastal species by rafting. Expanding shoreline
 infrastructure has increased global sources of plastic materials available
 for biotic colonization and also interacts with climate change–induced
 storms of increasing severity to eject debris into the oceans. In turn,
 increased ocean rafting may intensify species invasions.
description: Japanese Tsunami Marine
 Debris Objects and Their Associated TaxaA single CSV file
 containing descriptions of Japanese tsunami debris objects (object type,
 date intercepted, location found, size) and the unique taxa found on each.
 Please see the README.txt for detailed descriptions of each
 column.JTMD_Data.csv
DOI: 10.34740/kaggle/dsv/14631638
title: Peer-to-Peer Boliviano (BOB) Exchange Data
DOI: 10.5061/dryad.g3h56b3
title: Data from: De novo synthesis of chemical defences in an aposematic moth

description: Many animals protect themselves from predation with chemicals, both
 self-made or sequestered from their diet. The potential drivers of the
 diversity of these chemicals have been long studied, but our knowledge
 them, and their acquisition mode, is heavily based on specialist
 herbivores that sequester their defences. The wood tiger moth (Arctia
 plantaginis, Linnaeus, 1758) is a well-studied aposematic species, but the
 nature of its chemical defences has not been fully described. Here we
 report the presence of two methoxypyrazines, 2-sec-butyl-3-methoxypyrazine
 and 2-isobutyl-3-methoxypyrazine, in the moths’ defensive secretions. By
 raising larvae on an artificial diet, we confirm, for the first time, that
 their defensive compounds are produced de novo rather than sequestered
 from their diet. Pyrazines are known for their defensive function in
 invertebrates due to their distinctive odour, inducing aversion and
 facilitating predator learning. While their synthesis has been suspected,
 it has never previously been experimentally confirmed. Our results
 highlight the importance of considering de novo synthesis, in addition to
 sequestration, when studying the defensive capabilities of insects and
 other invertebrates.
description: Pooled samples pyrazine
 detectionDetails of moths
 included in pooled samples for pyrazine detectionMoth
 infoDetails of moths
 included in studyArtificial diet 1
 hourResults of Select Ion
 Monitoring of artificial diet after 1 hour at room
 temperatureArtificial diet 2
 hoursResults of Select Ion
 Monitoring of artificial diet after 2 hours at room
 temperatureP3.3 ion chromatograms
 from individual mothExample Ion
 chromatograms from a moth sampleion chromatograms from
 standardsIon chromatograms from
 pyrazine standards1 NG SBMP
 standardResults of Select Ion
 Monitoring of ions 124.1, 151.1 and 138.1 on 1 NG of
 2-sec-butyl-3-methoxypyrazine standard1 NG IBMP
 standardResults of Select Ion
 Monitoring of ions 124.1, 151.1 and 138.1 on 1 NG of
 2-isobutyl-3-methoxypyrazine standardIndividual dandelion
 C6.5Results of Select Ion
 Monitoring of ions 124.1, 138.1 and 151.1 of moth C6.5Artificial diet
 individual P4.2Results of Select Ion
 Monitoring of ions 124.1, 138.1 and 151.1 of moth P4.2Artificial diet
 individual P3.3Results of Select Ion
 Monitoring of ions 124.1, 138.1 and 151.1 of moth P3.3Artificial diet
 individual P1.1Results of Select Ion
 Monitoring of ions 124.1, 138.1 and 151.1 of moth P1.1Individual dandelion
 C2.3Results of Select Ion
 Monitoring of ions 124.1, 138.1 and 151.1 of moth C2.3Individual dandelion
 C6.3Results of Select Ion
 Monitoring of ions 124.1, 138.1 and 151.1 of moth C6.3