cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.t76hdr801
title: Data from: Lodato et al. (2021) Functional importance and diversity of fungi during standing grass litter decomposition

description: Although microbial participation in litter decomposition is widely known
 within terrestrial soils, the role and significance of microorganisms
 during the aerial standing litter phase of decomposition remains poorly
 investigated. We examined the fungi inhabiting standing leaf litter of
 Schizachyrium scoparium and Schizachyrium tenerum in a Longleaf Pine
 savanna ecosystem and estimated their contribution to litter
 decomposition. We identified fungal phylotypes associated with leaf litter
 and quantified leaf C mass loss, fungal biomass production, and microbial
 respiration during decomposition. These data were used to construct
 budgets estimating C flow into and through fungi. Significant losses in S.
 scoparium (55%) and S. tenerum (67%) leaf C mass were observed during
 standing decomposition along with concomitant increases in fungal biomass,
 which reached a maximum of 36 and 33 mgC/g detrital C, respectively.
 Cumulative fungal production during decomposition totaled 99±6 mgC/g
 initial detrital C in S. scoparium and 73±5 mgC/g initial detrital C in S.
 tenerum, indicating that 18 and 11% of the litter C was converted into
 fungal biomass, respectively. Corresponding estimates of cumulative fungal
 respiration totaled 106±7 and 174±11 mgC/g initial detrital C in S.
 scoparium and S. tenerum, respectively. Next generation sequencing
 identified several fungal phylotypes, with the majority of sequences
 belonging to the Ascomycota (Dothideomycetes) and Basidiomycota
 (Agaricomycetes). Fungal phylotypes were similar between litter species
 and changed over time, showing a successional pattern. These findings
 extend our understanding of fungal processes to standing litter in
 terrestrial ecosystems, and highlight the quantitative importance of fungi
 in C cycling processes.
description: This Excel document includes the raw data for all analyses
 presented in the manuscript and supplemental materials including: litter
 mass loss, fungal biomass (from ergosterol), glucosamine,
 fungal production rates, microbial respiration, bulk litter nitrogen and
 phosphorus concentrations, and carbon:nitrogen and carbon:phosphorus
 ratios.  The Excel document also includes relative sequence abundance for
 the major fungal groups presented in figure 5 within the manuscript, the
 antibiotic data presented in the supplemental material and the raw model
 data used in the Monte Carlo Simulation Analysis presented in Table
 1.  Oecologia_Schizachyrium_Grass_Decay_DryadData.xlsx
DOI: 10.7272/q6mp51hk
title: Altered cerebellar white matter in sensory processing dysfunction is associated with impaired multisensory integration and attention

description: Sensory processing dysfunction (SPD) is characterized by a behaviorally
 observed difference in the response to sensory information from the
 environment. While the cerebellum is involved in normal sensory
 processing, it has not yet been examined in SPD. Diffusion tensor imaging
 scans of children with SPD (n=42) and typically developing controls (TDC;
 n=39) were compared for fractional anisotropy (FA), mean diffusivity (MD),
 radial diffusivity (RD) and axial diffusivity (AD) across the following
 cerebellar tracts: the middle cerebellar peduncles (MCP), superior
 cerebellar peduncles (SCP), and cerebral peduncles (CP). Compared to TDC,
 children with SPD show reduced microstructural integrity of the SCP and
 MCP, which correlates with abnormal auditory behavior, multisensory
 integration, and attention, but not tactile behavior or direct measures of
 auditory discrimination. In contradistinction, decreased CP
 microstructural integrity in SPD correlates with abnormal tactile and
 auditory behavior and direct measures of auditory discrimination, but not
 multisensory integration or attention. Hence, altered cerebellar white
 matter organization is associated with complex sensory behavior and
 attention in SPD, which prompts further consideration of diagnostic
 measures and treatments to better serve affected individuals.
description: ReadMe file with information about database variables is
 included
DOI: 10.5061/dryad.rn8pk0p8f
title: Data from: Ontogenetic shape trajectory of Trichomycterus areolatus varies in response to water velocity environment

description: Body and head shape among fishes both vary between environments influenced
 by water velocity and across ontogeny. Although the shape changes
 associated with variation in average water velocity and ontogeny are well
 documented, few studies have tested for the interaction between these two
 variables (i.e., does ontogenetic shape variation differ between velocity
 environments). We use geometric morphometrics to characterize shape
 differences in Trichomycterus areolatus, a freshwater catfish found in
 high and low-velocity environments in Chile. We identify a significant
 interaction between velocity environment and body size (i.e., ontogeny).
 Ontogenetic patterns of shape change are consistent with other studies,
 but velocity environment differentially affects the ontogenetic trajectory
 of shape development in T. areolatus. Shape change over ontogeny appears
 more constrained in high-velocity environments compared to low-velocity
 environments.
description: All collections were done under the auspices of Dirección de
 Investigación, Universidad de Concepción (Collections were made before
 IACUC protocols were required for field studies in Chile, but we followed
 the Guidelines for The Use of Fishes in Research provided by The American
 Fisheries Society, the American Institute of Fisheries Research
 Biologists, and the American Society of Ichthyologists and
 Herpetologists). <i>Trichomycterus areolatus </i>were
 collected from the Andalién River and two of its tributaries
 (Nonguén and Queule
 Rivers) in summer 2003 and spring 2004 using electrofishing
 backpack equipment. Each specimen was euthanized with an overdose of BZ-20
 (20% ethyl p-aminobenzoate), assigned an ID number and preserved in ethyl
 alcohol. The right laterval view of the body and dorsal view of the head
 of each specimen were photographed at Brigham Young University. 
 Landmark-based geometric morphometrics were used to quantify body
 and head shape in Trichomycterus areolatus. Landmarks and semi-landmarks
 were digitized using tpsDig
 (http://www.sbmorphometrics.org/soft-dataacq.html). tpsRelW
 (http://www.sbmorphometrics.org/index.html) was used to generate shape
 variables (i.e. relative warps) from the landmark data. Relative warps
 were used for all subsequent analyses. These
 methodologies are clearly outlined in the manuscript.
description: ReadMe file titled Searle2021_ReadMe.txt contains the necessary
 information for re-use.
DOI: 10.25338/b88635
title: Catastrophes, connectivity and Allee effects in the design of marine reserve networks

description: Catastrophic events, like oil spills and hurricanes, occur in many marine
 systems. One potential role of marine reserves is buffering populations
 against disturbances, including the potential for disturbance-driven
 population collapses under Allee effects. This buffering capacity depends
 on reserves in a network providing rescue effects, setting up a trade-off
 where reserves need to be connected to facilitate rescue, but also
 distributed in space to prevent simultaneous extinction. We use a set of
 population models to examine how dispersal ability and the disturbance
 regime interact to determine the optimal reserve spacing. We incorporate
 fishing in a spatially-explicit model to understand the effect of
 objective choice (e.g., conservation versus fisheries yield) on the
 optimal reserve spacing. We show that the optimal spacing between reserves
 increases when accounting for catastrophes with larger spacing needed when
 Allee effects interact with catastrophes to increase the probability of
 extinction. We also show that classic tradeoffs between conservation and
 fishing objectives disappear in the presence of catastrophes.
 Specifically, we found that at intermediate levels of disturbance, it is
 optimal to spread out reserves in order to increase both population
 persistence and to maximize spillover into non-reserve areas.
description: This repository contains R markdown files and scripts to produce
 the figures and supplementary material for a paper at Oikos: https://doi.org/10.1111/oik.07770 The R markdown files run simulations and create figures. Therefore, it takes a long time (several days on a typical laptop) to compile the file. Please contact Easton White (eastonrwhite@gmail.com) with any concerns or feedback. The code will also be maintained at: https://github.com/eastonwhite/MPA-disturbances.
description: ReadMe file is included
DOI: 10.6084/m9.figshare.31152406
title: Data and code associated with paper: "Why are ornithological studies so focused on the breeding stage? A test of hypotheses"

description: This dataset contains information from field-based studies published in the journal <i>Ornithology</i> from 1960-2024. Information collected includes annual cycle stages examined, regions of study, migratory strategies of focal species, fields of study, and author affiliation for each paper. The R script contains code to organize data, analyze why the breeding stage is overrepresented as well as general trends in study attributes over time, and generate figures.
DOI: 10.6084/m9.figshare.31152406.v1
title: Data and code associated with paper: "Why are ornithological studies so focused on the breeding stage? A test of hypotheses"

description: This dataset contains information from field-based studies published in the journal <i>Ornithology</i> from 1960-2024. Information collected includes annual cycle stages examined, regions of study, migratory strategies of focal species, fields of study, and author affiliation for each paper. The R script contains code to organize data, analyze why the breeding stage is overrepresented as well as general trends in study attributes over time, and generate figures.
DOI: 10.5061/dryad.rbnzs7h9r
title: Crustose coralline algae metabolome datamatrix

description: The resilience of coral reefs is dependent on the ability of corals to
 settle after disturbances. While crustose coralline algae (CCA) are
 considered important substrates for coral settlement, it remains unclear
 whether coral larvae respond to CCA metabolites and microbial cues when
 selecting sites for attachment and metamorphosis. This study tested the
 settlement preferences of an abundant coral species (Acropora cytherea)
 against six different CCA species from three habitats (exposed, subcryptic
 and cryptic), and compared these preferences with the metabolome and
 microbiome characterizing the CCA. While all CCA species induced
 settlement, only one species (Titanoderma prototypum) significantly
 promoted settlement on the CCA surface, rather than on nearby dead coral
 or plastic surfaces. This species had a very distinct bacterial community
 and metabolomic fingerprint. Furthermore, coral settlement rates and the
 CCA microbiome and metabolome were specific to the CCA preferred habitat,
 suggesting that microbes and/or chemicals serve as environmental
 indicators for coral larvae. Several amplicon sequence variants and two
 lipid classes - glycoglycerolipids and betaine lipids - present in T.
 prototypum were identified as potential omic cues influencing coral
 settlement. These results support that the distinct microbiome and
 metabolome of T. prototypum may promote the settlement and attachment of
 coral larvae.
DOI: 10.15468/dl.uharca
title: Occurrence Download

description: A dataset containing 13 species occurrences available in GBIF matching the query:
{
 "and" : [
 "OccurrenceStatus is Present",
 "TaxonKey is Vatica guangxiensis"
 ]
}

 The dataset includes 13 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002694-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.xd2547dfx
title: Chimpanzee identification and social Network construction through an online citizen science platform

description: Citizen science has grown rapidly in popularity in recent years due to its
 potential to educate and engage the public while providing a means to
 address a myriad of scientific questions. However, the rise in popularity
 of citizen science has also been accompanied by concerns about the quality
 of data emerging from citizen science research projects. We assessed data
 quality in the online citizen scientist platform Chimp&See, which
 hosts camera trap videos of chimpanzees (Pan troglodytes) and other
 species across Equatorial Africa. In particular, we compared detection and
 identification of individual chimpanzees by citizen scientists to that of
 experts with years of experience studying those chimpanzees. We found that
 citizen scientists typically detected the same number of individual
 chimpanzees as experts, but assigned far fewer identifications (IDs) to
 those individuals. Those IDs assigned, however, were nearly always in
 agreement with the IDs provided by experts. We applied the data sets of
 citizen scientists and experts by constructing social networks from each.
 We found that both social networks were relatively robust and shared a
 similar structure, as well as having positively correlated individual
 network positions. Our findings demonstrate that, although citizen
 scientists produced a smaller data set based on fewer confirmed IDs, the
 data strongly reflect expert classifications and can be used for
 meaningful assessments of group structure and dynamics. This approach
 expands opportunities for social research and conservation monitoring in
 great apes and many other individually identifiable species. 
description: We installed camera traps throughout the home range of a
 community of habituated western chimpanzees for a period of approximately
 nine months. The nearly 600 chimpanzee videos recorded during that period
 were viewed by two experts who studied those chimpanzees, and they noted
 the total number of individuals detected as well as assigning individual
 IDs. Chimpanzee videos from this dataset were also viewed and annotated by
 citizen scientists using the online citizen science platform
 Chimp&See. We compared the data produced by both
 groups. 
description: We used a set a 305 1-min videos for direct comparison of
 individual detection and identification between experts and citizen
 scientists. This dataset provides IDs and detection data for that
 comparison.
DOI: 10.5061/dryad.gb5mkkwnw
title: Carbon allocation to the rhizosphere is affected by drought and nitrogen addition

description: Photosynthetic carbon (C) allocated below-ground can be shared with
 mycorrhizal fungi in exchange for nutrients, but also added into soil as
 rhizodeposits that potentially increases plant nutrient supply by
 supporting microbial nutrient mineralization from organic matter. How
 water and nitrogen (N) availabilities affect plant C allocation to the
 rhizosphere, including both arbuscular mycorrhizal fungi (AMF) symbionts
 and rhizodeposits, remains largely unknown. We used a 13CO2 pulse
 labelling experiment to assess effects of drought and N addition on
 below-ground allocation of C to soils and roots (quantified as excess 13C)
 and tested their relationships with AMF colonization in an Australian
 grassland. We also examined relationships between AMF and previously
 reported root respiration and decomposition of rhizodeposits in this
 study. We found that drought decreased the absolute amount of excess 13C
 allocated to both soils and roots, likely due to less photosynthetic C
 fixation. In contrast, proportionally more excess 13C was allocated to
 soils but less to root biomass with drought, suggesting that relatively
 more C was allocated to rhizodeposits and to AMF hyphal growth and
 extension. However, N addition reversed drought effects on below-ground C
 allocation by retaining proportionally more excess 13C in roots and less
 in soils, congruent with higher soil N and phosphorus availabilities, root
 biomass, and number of root tips compared to drought without N addition.
 This suggests that alleviation of nutrient limitation promoted plants to
 expend relatively more C on root growth and root trait adjustment, but
 less C on rhizodeposition and mycorrhizal symbiosis. Synthesis.
 Mycorrhizal colonization related negatively to rhizodeposit decomposition
 rate but positively to both excess 13C in root biomass and root
 respiration, suggesting a possible tradeoff in C allocation between
 mycorrhizal symbiosis and rhizodeposition. We conclude that below-ground C
 allocation in this grassland can be mediated by mycorrhizal colonization
 and is strongly affected by water and nutrient availability.
DOI: 10.5061/dryad.866t1g1pm
title: Genomic vulnerability to rapid climate warming in a tree species with a long generation time

description: The ongoing increase in global temperature affects biodiversity,
 especially in mountain regions where climate change is exacerbated. As
 sessile, long-lived organisms, trees are especially challenged in terms of
 adapting to rapid climate change. Here, we show that low rates of allele
 frequency shifts in Swiss stone pine (Pinus cembra) occurring near the
 treeline result in high genomic vulnerability to future climate warming,
 presumably due to the species’ long generation time. Using exome
 sequencing data from adult and juvenile cohorts in the Swiss Alps, we
 found an average rate of allele frequency shift of 1.23×10-2/generation
 (i.e. 40 years) at presumably neutral loci, with similar rates for
 putatively adaptive loci associated with temperature
 (0.96×10-2/generation) and precipitation (0.91×10-2/generation). These
 recent shifts were corroborated by forward-in-time simulations at neutral
 and adaptive loci. Additionally, in juvenile trees at the colonisation
 front we detected alleles putatively beneficial under a future warmer and
 drier climate. Notably, the observed past rate of allele frequency shift
 in temperature-associated loci was decidedly lower than the estimated
 average rate of 6.29×10-2/generation needed to match a moderate future
 climate scenario (RCP4.5). Our findings suggest that species with long
 generation times may have difficulty keeping up with the rapid climate
 change occurring in high mountain areas and thus are prone to local
 extinction in their current main elevation range.
description: Please refer to the Materials and Methods section of the
 published manuscript.
DOI: 10.15468/dl.gb8sjh
title: Occurrence Download

description: A dataset containing 93 species occurrences available in GBIF matching the query:
{
 "and" : [
 "CoordinateUncertaintyInMeters 0.0-5000.0",
 "TaxonKey is Donella lanceolata"
 ]
}

 The dataset includes 93 records from 13 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002695-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.nk98sf7sc
title: Plant volatiles mediate evolutionary interactions between plants and tephritid flies and are evolutionarily more labile than non-volatile defenses

description: 1. Studies show that plant defenses influence the host-use of herbivores
 and tend to be evolutionarily more labile than herbivore traits (e.g.,
 feeding preferences). However, all previous studies have focused
 exclusively on non-volatile plant defenses thereby overlooking the roles
 of plant volatiles. 2. We hypothesized that volatiles are equally
 important determinants of herbivore host-use and are evolutionarily more
 labile than herbivore traits. To test these hypotheses, the
 following experiments were conducted. 3. We identified the
 volatiles and non-volatiles of 17 Asteraceae species and measured their
 relative contents. We also used a highly resolved bipartite trophic
 network of the 17 host species and 20 herbivorous (pre-dispersal seed
 predator) tephritid fly species to determine the evolutionary interactions
 between plants and herbivores.  4. The chemical data showed that
 interspecific similarity in volatiles—but not non-volatiles and
 phylogenetic distance—significantly accounted for the herbivore community
 across the plant species; this implies that plant volatiles—but not
 non-volatile compounds and species identity—dictate plant-tephritid fly
 interactions. Moreover, we observed phylogenetic signal for non-volatiles
 but not for volatiles; therefore closely related herbivores do not
 necessarily use closely related host species with similar non-volatiles,
 but do tend to attack plants producing similar volatiles. Thus, plant
 volatiles are evolutionarily more labile than non-volatiles and herbivore
 traits associate with host use.  5. These results show
 that the interactions between plants and herbivores are evolutionary
 asymmetric, shed light on the role of plant volatiles in plant-herbivore
 interactions, and highlight the need to include data for both volatiles
 and non-volatiles when investigating plant-animal interactions.
DOI: 10.5061/dryad.sf7m0cg50
title: Datasets used for the publication: State-dependence explains individual variation in nest defence behaviour in a long-lived bird

description: The uploaded datasets were used to test if variation in states predicts
 nest defence behaviour (a ‘risky’ behaviour) in a long-lived species, the
 barnacle goose (Branta leucopsis). Repeated measures of nest defence
 towards a human intruder (flight initiation distance or FID) of females of
 known age were collected during 15 breeding seasons. Increasing values of
 FID represent increasing shyness. Adaptive models have predicted that an
 individual’s residual reproductive value or ‘asset’ is an important state
 variable underlying variation in such risk-taking behaviour. Hence, we
 used this data to investigate how nest defence varies as a function of
 time of the season and individual age, two state variables that can vary
 between and within individuals and determine asset.  
description: Please see the published paper for detailed methods. The data are
 stored on several sheets in one Excel document.
description: Please see the ReadMe file for a detailed description of the
 contents of each dataset and the published paper for the detailed methods
 of data collection and analyses. The data are stored on several sheets in
 one Excel document. Datasets do sometimes have missing values, indicated
 by NA.