cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.tqjq2bw55
title: Cryptic community structure and metabolic interactions among the heritable facultative symbionts of the pea aphid

description: Most insects harbor influential, yet non-essential heritable microbes in
 their hemocoel. Communities of these symbionts exhibit low diversity. But
 their frequent multi-species nature raises intriguing questions on roles
 for symbiont-symbiont synergies in host adaptation, and on the stability
 of the symbiont communities, themselves. In this study, we build on
 knowledge of species-defined symbiont community structure across United
 States populations of the pea aphid, Acyrthosiphon pisum. Through
 extensive symbiont genotyping, we show that pea aphids’ microbiomes can be
 more precisely defined at the symbiont strain level, with strain
 variability shaping ~5 out of 9 previously reported co-infection trends.
 Field data provide a mixture of evidence for symbiont-symbiont synergies,
 and symbiont hitchhiking, revealing causes and consequences of these
 co-infection trends. To test whether within-host metabolic interactions
 predict common versus rare strain-defined communities, we leveraged the
 high relatedness of our dominant, community-defined symbiont strains vs.
 twelve pea aphid-derived Gammaproteobacteria with sequenced genomes.
 Genomic inference, using metabolic complementarity indices, revealed high
 potential for cooperation among one pair of symbionts – Serratia
 symbiotica and Rickettsiella viridis. Applying the expansion network
 algorithm, through additional use of pea aphid and obligate Buchnera
 symbiont genomes, Serratia and Rickettsiella emerged as the only symbiont
 community requiring both parties to expand holobiont metabolism. Through
 their joint expansion of the biotin biosynthesis pathway, these symbionts
 may span missing gaps within a multi-party mutualism, within their
 nutrient-limited phloem-feeding hosts. Recent, complementary gene
 inactivation, within the biotin pathways of Serratia and Rickettsiella,
 raise further questions on the origins of mutualisms and host-symbiont
 interdependencies.
description: Data were obtained from Sanger sequencing of symbionts harbored
 by pea aphids, collected from North America. Additional data included
 published genomes, with various analyses being run on these to assess
 metabolic complementarity among symbiots.
DOI: 10.5061/dryad.qbzkh18pk
title: Data from: Effects of arbuscular mycorrhizal fungi on plant invasion success driven by nitrogen fluctuations

description: Both enemies and mutualists play crucial roles in shaping plant
 invasion processes. Recent studies have suggested that resource
 fluctuations could indirectly promote plant invasion through higher
 trophic levels, such as enemies. However, the influence of mutualists like
 arbuscular mycorrhizal fungi (AMF) on plant invasion under nitrogen
 fluctuations remains untested. We conducted a pot-mesocosm experiment
 using a three-factorial experimental design to assess the individual and
 interactive effects of nitrogen availability, nitrogen fluctuation and AMF
 on invasive success of alien plants. We grew nine invasive alien species
 alongside five different native communities in pot-mesocosms. These were
 then subjected to varied nitrogen availabilities (low vs high), nitrogen
 fluctuations (constant vs pulsed), and AMF presence or absence within a
 sterile substrate. We found that pulsed nitrogen supply increased the
 dominance of invasive alien species in low-nitrogen availability,
 regardless of the presence or absence of AMF inoculation. However, in
 high-nitrogen availability, pulsed nitrogen supply only enhanced this
 dominance in pots without AMF-inoculation. This was tentatively evidenced
 by the three-way interaction among nitrogen-availability,
 nitrogen-fluctuation and AMF-inoculation treatments. Furthermore, the
 dominance promotion by nitrogen addition was greater than that by AMF
 inoculation. Synthesis and applications: Our findings present, for the
 first time, evidence that AMF may play a crucial role in mediating the
 promotion effects of nitrogen fluctuations on alien plant invasion. To
 better understand the invasion process of alien plants and evaluate their
 impact on native communities, future research should integrate abiotic and
 biotic drivers into a single framework. Furthermore, our findings
 underscore the importance of prioritizing habitats with higher nutrient
 availability and variability for protection against alien plant invasions.
description: We conducted a pot-mesocosm experiment using a three-factorial
 experimental design to assess the individual and interactive effects of
 nitrogen availability, nitrogen fluctuation and AMF on invasive success of
 alien plants. We grew nine invasive alien species alongside five different
 native communities in pot-mesocosms. These were then subjected to varied
 nitrogen availabilities (low <em>vs</em> high), nitrogen
 fluctuations (constant <em>vs</em> pulsed), and AMF presence
 or absence within a sterile substrate. All data were collected from the
 pot-mesocosm experiment.
DOI: 10.5061/dryad.xgxd254nh
title: Data from: A theoretical model for host-controlled regulation of symbiont density

description: There is growing empirical evidence that hosts (such as insects and
 corals) actively control the density of their mutualistic symbionts
 according to their requirements. Such active regulation can be facilitated
 by compartmentalisation of symbionts within host tissues, which confers a
 high degree of control of the symbiosis to the host. Here, we build a
 general theoretical framework to predict the underlying ecological drivers
 and evolutionary consequences of host-controlled endosymbiont density
 regulation for a mutualistic association between a host and a
 compartmentalised, vertically transmitted symbiont. Building on the
 assumption that the costs and benefits of hosting a symbiont population
 increase with symbiont density, we use state-dependent dynamic programming
 to determine an optimal strategy for the host, i.e., that which maximises
 host fitness, when regulating the density of symbionts. Simulations of
 active host-controlled regulation governed by the optimal strategy predict
 that the density of the symbiont should converge to a constant level
 during host development, and following perturbation. However, a similar
 trend also emerges from alternative strategies of symbiont regulation. The
 strategy which maximises host fitness also promotes symbiont fitness
 compared to alternative strategies, suggesting that active host-controlled
 regulation of symbiont density could be adaptive for the symbiont as well
 as the host. Adaptation of the framework allowed the dynamics of symbiont
 density to be predicted for other host-symbiont ecologies, such as for
 non-essential symbionts, demonstrating the versatility of this modelling
 approach.
description: R code is used for dynamic programming and model
 simulations.
description: # A theoretical model for host-controlled regulation of symbiont density
 --- Code used to generate model output and visualisations for the
 manuscript "A theoretical model for host-controlled regulation of
 symbiont density" Code was written by M Whittle ## Description of the
 file structure Each script must be saved in the same folder. To reproduce
 the model output and visualisations used in the manuscript the only script
 which needs to be run is "MANUSCRIPT_CODE", which will source
 the other scripts as necessary. For each version of the model, a folder
 will be created into which all files produced will be saved. ##
 Code/Software Code written in R version 4.2.1 The following packages are
 required: rstudioapi dplyr reshape2 ggplot2 RColorBrewer gridExtra sjmisc
DOI: 10.5061/dryad.5mkkwh7c4
title: Effect of the common palm civet’s gut passage on seed germination of fleshy fruits in Pachmarhi Wildlife Sanctuary, Central India

description: Frugivorous carnivores like civets consume fruits of many species and play
 an important role in their seed dispersal by virtue of depositing their
 scats farther away from the parent tree. This study was conducted to
 understand the role of the common palm civet in affecting the seed
 germination rate of three plant species (i.e., Syzygium cumini, Phoenix
 sylvestris, and Ficus racemosa) in a tropical moist deciduous forest. We
 collected scats of common palm civets in Pachmarhi Wildlife Sanctuary,
 Central India, and monitored the germination rate of these species for 90
 days. Further, to understand the patters of seed selection (if there are
 any), for seeds of a specific size, we compared the length, width, and
 mass of the civet-ingested seeds with those of the control seeds. We had
 to discard the analyses on F. racemosa as none of its seeds in any
 treatment group germinated even after 50 days. Our results show a
 differential impact of gut passage: civet-ingested P. sylvestris seeds
 experienced a higher germination percentage compared to the control seeds,
 whilst gut passage did not alter the seed germination of S. cumini.
 However, seed germination speed (proportion of seeds germinated per day)
 for both species, P. sylvestris and S. cumini, was faster for
 civet-ingested seeds compared to their respective controls. Our findings
 also show that civets preferred seeds that were lesser in length and width
 and weighed lesser in the case of P. sylvestris, however, no such
 statistically significant difference was found for seed selection in the
 case of S. cumini. Thus, our study shows that civets act as a legitimate
 seed disperser of plant species and exert a differential impact on
 altering the germination rate.
description: The scat samples of civets were collected at Pachmarhi Wildlife
 Sanctuary, Central India. All the seeds were retrieved by washing the scat
 samples in running water. For control samples, fruits were manually
 harvested from the plant species. For seed morphological characteristics,
 length, width and mass of all the seeds, civet-ingested and control, were
 quantified. For seed viability, floating test was carried out. Then, civet
 ingested as well as control seeds for both the studied plant species,
 i.e., date palm and java plum, were sown to check the speed of germination
 as well as germination rate.
DOI: 10.5061/dryad.sf7m0cgc7
title: Data from: Methane emissions from abandoned oil and gas wells in Colorado

description: Recent studies indicate emission factors used to generate bottom-up
 methane inventories may have considerable regional variability. The
 US's Environmental Protection Agency's emission factors for
 plugged and unplugged abandoned oil and gas wells are largely based on
 measurement of historic wells and estimated at 0.4 g and
 31 g CH4 well−1 h−1, respectively. To
 investigate if these are representative of wells more recently abandoned,
 methane emissions were measured from 128 plugged and 206 unplugged
 abandoned wells in Colorado, finding the first super-emitting abandoned
 well (76 kg CH4 well−1 h−1) and average
 emissions of 0 and 586 g CH4 well−1 h−1,
 respectively. Combining these with other states' measurements, we
 update the US emission factors to 1 and 198 g
 CH4 well−1 h−1, respectively. Correspondingly, annual
 methane emissions from the 3.4 million abandoned wells in the US are
 estimated at between 2.6 Tg, following current methodology, and 1.1 Tg,
 where emissions are disaggregated for well-type. In conclusion, this study
 identifies a new abandoned well-type, recently-producing orphaned, that
 contributes 74 % to the total abandoned wells methane emissions. Including
 this new well-type in the bottom-up inventory suggests abandoned well
 emissions equate to between 22 and 49 % of total emissions from US active
 oil and gas production operations.
description: The dataset was collected during the field
 measurements of abandoned wells in Colorado. Each site was screened using
 an ABB Micro-portable Greenhouse Gas
 Analyzer.  Screening included
 the wellhead, wellbore, and any still-attached flow lines that may leak
 some distance away from the well head. 
 When a methane enhancement was
 detected, emission was quantified using either a chamber method or a
 downwind dispersion method.
description: # Methane emissions from abandoned oil and gas wells in Colorado Dataset
 [https://doi.org/10.5061/dryad.sf7m0cgc7](https://doi.org/10.5061/dryad.sf7m0cgc7) ## Description of the data and file structure This data is for methane emissions from 128 plugged and 206 unplugged wells in Colorado showing average emissions of between 0 and 586 g CH4 well-1 h-1 ### Files and variables #### File: Abandoned\_wells\_data.csv **Description:**  ##### Variables * ID: Well identification number * Type: Unplugged or plugged * Emission(g/h): Measured methane emission in g/h ## Code/software The data is available in .csv format.
DOI: 10.82294/dvnf62ijy
title: Replication Data for: Citas testimoniales: Maestros con aulas transformadas y transformadoras. Territorio: Todos. Sector: Todos. Año: 2023

description: Esta integración de códigos es la principal de toda la estrategia, pues desarrolla tres elementos centrales de la apuesta de transformación de las prácticas educativas, artísticas y culturales de los educadores artísticos involucrados; como también, propone para futuras intervenciones e investigaciones, un escenario de transformación concreto alrededor de: entender la educación como un fenómeno social, donde la educación artística se reconozca como una apuesta para construir comunidades más democráticas; entender la práctica docente alrededor de un fenómeno educativo, donde se discutan los paradigmas de la enseñanza y el aprendizaje; y por último, reconocer el fenómeno cultural que sucede alrededor de dicha práctica.
DOI: 10.5061/dryad.zcrjdfnjn
title: Using geometric wing morphometrics to distinguish Aedes japonicus japonicus and Aedes koreicus

description: Background: Aedes japonicus japonicus (Theobald, 1901) and Aedes koreicus
 (Edwards, 1917) have rapidly spread in Europe over the last decades. Both
 species are very closely related and occur in sympatry. Females are
 difficult to distinguish, and no distinctive morphological characters are
 known for males. However, accurate species discrimination is important as
 both species may differ in their vectorial capacity and spreading
 behaviour. In this study, we assessed the potential of geometric wing
 morphometrics as an alternative to distinguish the two species. 
 Methods: A total of 147 Ae. japonicus specimens (77 females and 70 males)
 and 124 Ae. koreicus specimens (67 females and 57 males) were collected in
 South-West Germany. The left wing of each specimen was removed, mounted
 and photographed. The coordinates of 18 landmarks on the vein crosses were
 digitalised by a single observer. The resulting two-dimensional dataset
 was used to analyse the differences in the wing size (i.e., centroid size)
 and wing shape between Ae. japonicus and Ae. koreicus by means of
 geometric morphometrics. To analyse the reproducibility of the analysis,
 the landmark collection was repeated for 20 specimens per sex and species
 by two additional observers. Results: The wing size in female Ae. koreicus
 was significantly greater than in Ae. japonicus but did not differ
 significantly for males. However, the strong overlap in wing size for the
 females would not allow for discriminating the two species. In contrast,
 the wing shape clustered species-specific and a leave-one-out validation
 resulted in a reclassification accuracy of 95% for the females and 91% for
 the males. The data collected by different observers resulted in a similar
 accuracy, indicating a low observer bias for the landmark
 collection.  Conclusions: Geometric wing morphometrics provide a
 reliable and robust tool to distinguish female and male specimens of Ae.
 japonicus and Ae. koreicus.
description: In total, 147 <em>Ae.
 japonicus</em> specimens (77 females and 70 males) and 124
 <em>Ae. koreicus</em> specimens (67 females and 57 males) were
 included in the study. The left wing of each mosquito was removed and
 mounted in Euparal (Carl Roth, Karlsruhe, Germany) on microscopic slides,
 and dried. Subsequently, the mounted wings were photographed (Olympus
 DP23, Olympus GmbH, Tokyo, Japan) under 20x magnification with a
 stereomicroscope (Olmypus SZ61, Olympus GmbH, Tokyo, Japan).
DOI: 10.5061/dryad.xwdbrv1k3
title: Propensity for selfing varies within a population of hermaphroditic snails: coexistence of selfers, outcrossers, and mixed-mating individuals

description: To understand mating-system evolution in self-compatible hermaphrodites,
 variation in selfing rates is highly relevant. Empirical studies are
 rarely designed to capture variation between individuals, instead often
 comparing species and populations. Yet, evolution primarily occurs within
 populations, rendering among-individual variation essential. 
 Observed individual selfing rates depend on the environment (e.g.,
 differences in mate availability) and individuals’ propensity for selfing.
 We quantified individual variation in selfing propensity in the snail
 Radix balthica by conducting laboratory mating trials that manipulated
 mate availability (low vs. moderate) and estimating selfing rates from
 progeny arrays. We also measured female lifetime fitness. We found
 substantial among-individual variation in selfing propensity, including
 pure selfers (32%), pure outcrossers (31%), and mixed-mating individuals
 that selfed and outcrossed (37%). Experimental levels of mate availability
 did not significantly affect selfing rates. Selfers had reduced female
 liftetime fitness. Our results show that the propensity for selfing can
 differ considerably among individuals, with similar proportions of
 selfers, outcrossers, and mixed maters. As mate availability did not
 affect selfing, our "moderate" level might still have been too
 low to prompt selfers to outcross. This and the observed fitness
 differences also cautiously suggest that investigating the heritability of
 selfing propensities might be worthwhile in this population.
DOI: 10.5061/dryad.2bvq83bwm
title: Data from: Minority-group incubators and majority-group reservoirs for the diffusion of climate change adaptations

description: These data are part of a data portal that accompanies the special issue
 'Climate change adaptation needs a science of culture,'
 published in Philosophical Transactions of the Royal Society B in 2023. To
 access the data portal, please visit 10.5061/dryad.bnzs7h4h4. This
 repository contains code and supporting documentation for the agent-based
 model analyzed in our paper, "Minority-group incubators and
 majority-group reservoirs for climate change adaptation". We
 performed and analyzed a suite of agent-based models that simulated the
 spread of an adaptation, i.e., a beneficial behavior, in a population with
 a minority and majority group, defined by group size and tendency to
 interact with others from one's own group versus another group
 (homophily). We ran 1000 trials per parameter setting, where parameters
 were systematically varied to test different homophily levels in each
 group, and the effect of whether the minority group, majority group, or
 both groups start with one member knowing the adaptation. The adaptation
 either spread from one agent in one or both groups to the rest of the
 members of both groups in the case of adaptation success, or the
 adaptation disappeared from the entire population (adaptation failure). We
 then calculated the success rate across all 1000 trials. We also measured
 the mean time to either adaptive success or failure.
description: The data was generated through agent-based modeling of adaptation
 diffusion in a simulated population. The data is broken out into several
 CSV files from simulations that were each run on one cluster node. There
 are two main archives of CSV files: (1) `main_parts.zip` contains 30 CSV
 output files used in the main text analysis; and (2) `supp.zip` contains
 270 CSV output files used in the supplemental analyses. The R analysis
 code (`scripts/plot.R`) contains utilities for combining and processing
 this raw output. See the `Analysis` subsection in the README_Dryad.md file
 for more information on the data combination and processing
 steps.
description: All required software is free and open-source. The simulations
 were run using the Agents.jl library in the Julia programming language.
 Model output analysis was performed with the ggplot2 library in the R
 programming language.
DOI: 10.15468/dl.8tdzmw
title: Occurrence Download

description: A dataset containing 910 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Rapala iarbus"
 ]
}

 The dataset includes 910 records from 16 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003602-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.nux7gs
title: Occurrence Download

description: A dataset containing 520 species occurrences available in GBIF matching the query:
{
 "and" : [
 "OccurrenceStatus is Present",
 "TaxonKey is Pteropus vampyrus",
 "Year 1996-2026"
 ]
}

 The dataset includes 520 records from 18 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003603-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.5vkntz
title: Occurrence Download

description: A dataset containing 571 species occurrences available in GBIF matching the query:
{
 "and" : [
 "DatasetKey is iNaturalist Research-grade Observations",
 "GadmGid is CAN.11.67.8_1",
 "OccurrenceStatus is Present"
 ]
}

 The dataset includes 571 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003600-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.