cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.nb535
title: Data from: The effects of spatial structure, frequency dependence and resistance evolution on the dynamics of toxin-mediated microbial invasions

description: Recent evidence suggests that interference competition between bacteria
 shapes the distribution of the opportunistic pathogen Staphylococcus
 aureus in the lower nasal airway of humans, either by preventing
 colonization or by driving displacement. This competition within the nasal
 microbial community would add to known host factors that affect
 colonization. We tested the role of toxin-mediated interference
 competition in both structured and unstructured environments, by culturing
 S. aureus with toxin-producing or nonproducing Staphylococcus epidermidis
 nasal isolates. Toxin-producing S. epidermidis invaded S. aureus
 populations more successfully than nonproducers, and invasion was promoted
 by spatial structure. Complete displacement of S. aureus was prevented by
 the evolution of toxin resistance. Conversely, toxin-producing S.
 epidermidis restricted S. aureus invasion. Invasion of toxin-producing S.
 epidermidis populations by S. aureus resulted from the evolution of toxin
 resistance, which was favoured by high initial frequency and low spatial
 structure. Enhanced toxin production also evolved in some invading
 populations of S. epidermidis. Toxin production therefore promoted
 invasion by, and constrained invasion into, populations of producers.
 Spatial structure enhanced both of these invasion effects. Our findings
 suggest that manipulation of the nasal microbial community could be used
 to limit colonization by S. aureus, which might limit transmission and
 infection rates.
description: Data for invasion
 experimentsData for time series
 invasion experiments of S. aureus into S. epidermidis and the reciprocal
 invasion.Data for
 manuscript.xlsx
DOI: 10.5281/zenodo.18383312
title: COGNITIVE AND SEMANTIC FEATURES OF PROJECT DISCOURSE IN ENGLISH AND UZBEK

description: The article examines the cognitive and semantic features of project discourse in English and Uzbek. The study focuses on how project-related activities are conceptualized and linguistically represented in the two languages. The research is based on a comparative semantic and discourse analysis of lexicographic definitions and contextual usage drawn from professional and official texts. The findings demonstrate that although English and Uzbek project discourse share a common semantic core associated with planning, goal orientation, and future-oriented action, they differ in terms of processuality, functional scope, and discourse structuring. In English, project discourse tends to conceptualize projects as dynamic processes encompassing both planning and implementation stages, whereas in Uzbek it is primarily associated with preliminary planning and formal documentation. These differences are explained by linguistic and socio-cultural factors and are relevant for comparative linguistics and translation studies.
DOI: 10.5281/zenodo.18383311
title: COGNITIVE AND SEMANTIC FEATURES OF PROJECT DISCOURSE IN ENGLISH AND UZBEK

description: The article examines the cognitive and semantic features of project discourse in English and Uzbek. The study focuses on how project-related activities are conceptualized and linguistically represented in the two languages. The research is based on a comparative semantic and discourse analysis of lexicographic definitions and contextual usage drawn from professional and official texts. The findings demonstrate that although English and Uzbek project discourse share a common semantic core associated with planning, goal orientation, and future-oriented action, they differ in terms of processuality, functional scope, and discourse structuring. In English, project discourse tends to conceptualize projects as dynamic processes encompassing both planning and implementation stages, whereas in Uzbek it is primarily associated with preliminary planning and formal documentation. These differences are explained by linguistic and socio-cultural factors and are relevant for comparative linguistics and translation studies.
DOI: 10.5061/dryad.6sg82
title: Data from: Consequences of mating and predation risk for longevity in a freshwater snail: Abstinence makes the heart beat longer

description: Senescence is not a static property of an individual or population, but
 rather it is a dynamic process that may be influenced by environmental
 conditions. This can occur in at least two ways: in the long-term across
 multiple generations, and in the short-term via phenotypic plasticity. The
 former has attracted a lot of attention, both theoretically and
 empirically; the latter has lagged behind. To determine whether two
 important environmental variables (predation risk and mate availability)
 affect the pattern of actuarial senescence (i.e., the increase in
 mortality with age), we reared 30 full-sib families of the simultaneously
 hermaphroditic freshwater snail Physa acuta under four different
 environmental conditions and tracked individuals until death. Individuals
 were reared in a 2x2 factorial experiment that manipulated the non-lethal
 presence of chemical cues from predatory crayfish (presence/absence) and
 the opportunity to mate with an unrelated partner (mated/not mated).
 Snails that receive a partner reproduce by outcrossing, while those that
 remain in isolation can reproduce by self-fertilization. We compared the
 cumulative survival curves to test for an effect of predation risk and
 mating. The hazard ratio for the predation-risk comparison was 1.042
 indicating no significant difference between the curves. However, the
 hazard ratio for the mating comparison was 4.021, reflecting a significant
 reduction in survival probability for mated snails relative to isolated
 snails. As such, mating resulted in a much shorter lifespan, an outcome
 that we interpret in terms of shifting resource allocation.
description: AuldetalData
DOI: 10.5061/dryad.m8m8r
title: Data from: Life histories and invasions: accelerated laying rate and incubation time in an invasive lizard, Anolis sagrei

description: Faster life histories are correlated with greater invasion success across
 taxa. However, comparisons of life-history traits across native and
 invasive ranges are rare, and thus it is unknown whether invasions lead
 directly to evolutionary shifts in life histories. Here we compare life
 history traits of three invasive populations of brown anoles (Anolis
 sagrei) to a representative native population. In a common garden, we
 measured a number of reproductive traits including egg-laying rate and
 incubation period. We hypothesized that invasive populations would exhibit
 faster reproduction because fast life histories are favoured both by the
 invasion itself and by shorter breeding seasons in the invasive range.
 Compared to native females, invasive females had shorter interlaying
 intervals and produced eggs that hatched more quickly. Invasive and native
 populations did not differ consistently in egg size, hatching success, or
 hatchling size. Our results indicate that life history traits have rapidly
 diverged during the brown anole invasion, potentially facilitating the
 successful establishment and expansion of the species range.
description: Anolis sagrei egg
 dataRate of egg production
 and and hatching four populations of Anolis sagrei in a common laboratory
 environment.Data for
 Dryad.xlsx
DOI: 10.5061/dryad.2kr90
title: Data from: Y-linked variation for autosomal immune gene regulation has the potential to shape sexually dimorphic immunity

description: Sexually dimorphic phenotypes arise from the differential expression of
 male and female shared genes throughout the genome. Unfortunately, the
 underlying molecular mechanisms by which dimorphic regulation manifests
 and evolves are unclear. Recent work suggests that Y-chromosomes may play
 an important role; given that Drosophila melanogaster Y’s were shown to
 influence the regulation of hundreds of X and autosomal genes. For
 Y-linked regulatory variation (YRV) to facilitate sexually dimorphic
 evolution, however, it must exist within populations (where selection
 operates) and influence male fitness. These criteria have seldom been
 investigated, leaving the potential for dimorphic evolution via YRV
 unclear. Interestingly, male and female D. melanogaster differ in
 immune-gene regulation. Furthermore, immune-gene regulation appears to be
 influenced by the Y-chromosome, suggesting it may contribute to dimorphic
 immune evolution. We address this possibility by introgressing
 Y-chromosomes from a single wild population into an isogenic background
 (to create Y-lines) and assessing immune-gene regulation and bacterial
 defense. We found that Y-line males differed in their immune-gene
 regulation and their ability to defend against Serratia marcescens.
 Moreover, gene expression and bacterial defense were positively
 genetically correlated. These data indicate that the Y-chromosome has the
 potential to shape the evolution of sexually dimorphic immunity in this
 system.
description: Kutch & Fedorka: YRV
 & TTD dataThis is an Excel file
 that contains data in three separate tabs. The first Tab is the YRV data,
 whose statistical analysis appears in Table 1 of the manuscript. Tab 2 is
 the Time to Death data, whose analysis appears in Table 2. Tab 3 is the
 correlation between the two data sets that appears in Figure
 2.Dryad
 (final).xlsx
DOI: 10.5061/dryad.5tp75
title: Data from: Competition between engrams influences fear memory formation and recall

description: Collections of cells called engrams are thought to represent memories.
 Although there has been progress in identifying and manipulating single
 engrams, little is known about how multiple engrams interact to influence
 memory. In lateral amygdala (LA), neurons with increased excitability
 during training outcompete their neighbors for allocation to an engram. We
 examined whether competition based on neuronal excitability also governs
 the interaction between engrams. Mice received two distinct fear
 conditioning events separated by different intervals. LA neuron
 excitability was optogenetically manipulated and revealed a transient
 competitive process that integrates memories for events occurring closely
 in time (coallocating overlapping populations of neurons to both engrams)
 and separates memories for events occurring at distal times (disallocating
 nonoverlapping populations to each engram).
description: Rashid et al Science
 2016- Data for Figs 1-4, S1-S9Excel file with all data
 presented in manuscript (each sheet corresponds to specific figures as
 indicated).Rashid et al Science
 2016.xlsx
DOI: 10.5061/dryad.f4k4t
title: Data from: Phylo-allometric analyses showcase the interplay between life history patterns and phenotypic convergence in cleaner wrasses

description: Phenotypic convergence is a macroevolutionary pattern that need not be
 consistent across life history. Ontogenetic transitions in dietary
 specialization clearly illustrate the dynamics of ecological selection as
 organisms grow. The extent of phenotypic convergence among taxa that share
 a similar ecological niche may therefore vary ontogenetically. Because
 ontogenetic processes have been shown to evolve, phylogenetic comparative
 methods can be useful in examining how the scaling of traits relates to
 ecology. Cleaning, a behavior in which taxa consume ectoparasites off
 clientele, is well-represented among wrasses (Labridae). Nearly
 three-fourths of labrids that clean do so predominately as juveniles,
 transitioning away as adults. We examine the scaling patterns of 33 labrid
 species to understand how life history patterns of cleaning relate to
 ontogenetic patterns of phenotypic convergence. We find that as juveniles,
 cleaners exhibit convergence in body and cranial traits that enhance
 ectoparasitivory. We then find that taxa that transition away from
 cleaning exhibit ontogenetic trajectories that are distinct from those of
 other wrasses. Obligate and facultative species that continue to clean
 over ontogeny, however, maintain characteristics that are conducive to
 cleaning. Collectively, we find that life history patterns of cleaning
 behavior are concordant with ontogenetic patterns in phenotype in wrasses.
description: BaligaMehtaAmNat_OntoDataFull raw dataset used in the study. See README file for further details.
DOI: 10.5061/dryad.4930
title: Data from: An antagonistic pair of FT homologs mediates the control of flowering time in sugar beet

description: Cultivated beets (Beta vulgaris) are unable to form reproductive shoots
 during the first year of their life cycle. Flowering only occurs if plants
 get vernalized, i.e. pass through the winter, and are subsequently exposed
 to an increasing day length (photoperiod) in spring. Here we show that the
 regulation of flowering time in beet is controlled by the interplay of two
 paralogs of the FLOWERING LOCUS T (FT) gene in Arabidopsis that have
 evolved antagonistic functions. BvFT2 is functionally conserved with FT
 and essential for flowering. In contrast, BvFT1, which is down-regulated
 in response to vernalization, represses flowering and is crucial for the
 vernalization response in beet. These data suggest that beet utilizes a
 different strategy relative to Arabidopsis and cereals to regulate
 vernalization.
description: small PEBP
 analysis“small PEBP
 analysis.zip” file is consisted of 4 files derived from a small PEBP
 phylogenetic analysis. Two multiple sequence alignment (protein) files in
 .fas (fasta) and .nex (nexus) are enclosed. This latter can be visualized
 using Mesquite software (Maddison and Maddison, 1992). The .mts (MEGA4)
 file corresponds to the phylogenetic tree analysis using the MEGA4
 software (Tamura et al., 2007). The .emf file is an output picture file
 corresponding to the obtained phylogenetic tree.large PEBP
 analysis“large PEBP
 analysis.zip” file is consisted of 4 files derived from a large PEBP
 phylogenetic analysis. Two multiple sequence alignment (protein) files in
 .fas (fasta) and .nex (nexus) are enclosed. This latter can be visualized
 using Mesquite software (Maddison and Maddison, 1992). The .mts (MEGA4)
 file corresponds to the phylogenetic tree analysis using the MEGA4
 software (Tamura et al., 2007). The .emf file is an output picture file
 corresponding to the obtained phylogenetic tree.
DOI: 10.5061/dryad.r80tb
title: Data from: Leafing intensity and the fruit size/number trade-off in woody angiosperms

description: A sample of woody angiosperm species was used to test a central prediction
 of the ‘leafing intensity premium’ hypothesis: higher leafing intensity
 (number of leaves produced per unit dry mass of shoot vegetative tissue
 produced in the same growing season) confers a larger bud bank (i.e.
 number of axillary meristems per unit shoot tissue) that can be deployed
 for reproduction, and thus confers generally greater fruit numbers, and
 hence higher potential fecundity allocation (i.e. fecundity per unit size
 of the supporting shoot tissue that is produced in the same growing
 season. Current-year shoots (i.e. bearing leaves) were collected to
 record: shoot dry mass, total number of leaves, total number of fruits or
 fruit clusters (if derived from inflorescences), mean individual leaf dry
 mass and mean individual fruit dry mass. Sampled individuals (shrubs and
 trees) were also measured for body size (main stem height and
 circumference). Species with larger individual fruit (or fruit cluster)
 mass have generally larger leaves, but they also have a negative trade-off
 relationship with ‘fruiting intensity’ – that is the total number of
 reproductive meristems producing fruits (or fruit clusters) per unit dry
 mass of shoot vegetative tissue produced in the same growing season.
 Variation in fruiting intensity, however, is better predicted by a
 positive relationship with variation in bud bank size. Species with
 smaller leaf size (dry mass) have generally higher leafing intensity;
 species with higher leafing intensity in turn have generally higher
 fruiting intensity; and species with higher fruiting intensity in turn
 have generally higher potential fecundity allocation (based on the typical
 species maximum number of seeds per fruit, obtained from published
 floras). Species with smaller body size have generally higher potential
 fecundity allocation, but body size had no significant relationships with
 other measured traits when controlling for phylogeny (using
 phylogenetically independent contrasts). Synthesis. Our results indicate
 that bud bank size is an important functional trait for defining adaptive
 strategy in woody angiosperms. A larger bud bank is generated by higher
 leafing intensity, which in turn generates higher fruiting intensity, thus
 generating greater potential fecundity allocation. These traits will be
 important for maximizing reproductive economy – that is capacity to
 produce offspring despite growth or body size limitation (e.g. due to
 crowding/competition, or because of limited time available for growth,
 flowering, pollination or fruit/seed maturation).
description: Leafing intensity, fruit
 size and number in woody angiospermsLeafing intensity, mean
 individual leaf mass, mean fruit cluster mass and fruiting intensity, as
 well as mean height and circumference for 46 woody species in the
 southeastern Ontario region.DATA DOMBROSKIE TRACEY AND
 AARSSEN.xlsx
DOI: 10.5061/dryad.fg53g0j
title: Data from: A coalescent-based estimator of genetic drift, and acoustic divergence in the Pteronotus parnellii species complex

description: Determining the processes responsible for phenotypic variation is one of
 the central tasks of evolutionary biology. While the importance of
 acoustic traits for foraging and communication in echolocating mammals
 suggests adaptation, the seldom-tested null hypothesis to explain trait
 divergence is genetic drift. Here we derive FST values from multi-locus
 coalescent isolation-with-migration models, and couple them with estimates
 of quantitative trait divergence, or PST, to test drift as the
 evolutionary process responsible for phenotypic divergence in island
 populations of the Pteronotus parnellii species complex. Compared to
 traditional comparisons of PST to FST, the migration-based estimates of
 FST are unidirectional instead of bidirectional, simultaneously integrate
 variation among loci and individuals, and posterior densities of PST and
 FST can be compared directly. We found the evolution of higher call
 frequencies is inconsistent with genetic drift for the Hispaniolan
 population, despite many generations of isolation from its Puerto Rican
 counterpart. While the Hispaniolan population displays dimorphism in call
 frequencies, the higher frequency of the females is incompatible with
 sexual selection. Instead, cultural drift toward higher frequencies among
 Hispaniolan females might explain the divergence. By integrating Bayesian
 coalescent and trait analyses, this study demonstrates a powerful approach
 to testing genetic drift as the default evolutionary mechanism of trait
 differentiation between populations.
description: All data and scripts
 fileUnzip to expand folder
 with: 1) R scripts, 2) input data, and 3) Jags models.2018.zip
DOI: 10.6084/m9.figshare.31154275
title: Detección de Invariantes Dinámicos Individuales en la Actividad Neural

description: La neurociencia contemporánea explica la actividad neural asociada a tareas específicas y regularidades poblacionales, pero la identidad neural individual y la persistencia de rasgos dinámicos propios permanecen insuficientemente formalizadas. Se propone un experimento piloto para detectar invariantes dinámicos específicos del individuo a través de tareas cogni tivas disjuntas, empleando EEG, análisis de sistemas dinámicos, pruebas de datos sustitutos y ICA para control de artefactos. Se describen los procedimientos, los criterios de falsación y la metodología matemática de análisis de la señal.
DOI: 10.6084/m9.figshare.31154275.v1
title: Detección de Invariantes Dinámicos Individuales en la Actividad Neural

description: La neurociencia contemporánea explica la actividad neural asociada a tareas específicas y regularidades poblacionales, pero la identidad neural individual y la persistencia de rasgos dinámicos propios permanecen insuficientemente formalizadas. Se propone un experimento piloto para detectar invariantes dinámicos específicos del individuo a través de tareas cogni tivas disjuntas, empleando EEG, análisis de sistemas dinámicos, pruebas de datos sustitutos y ICA para control de artefactos. Se describen los procedimientos, los criterios de falsación y la metodología matemática de análisis de la señal.
DOI: 10.5061/dryad.3gq6t
title: Data from: Zinc supplementation inhibits complement activation in age-related macular degeneration

description: Age-related macular degeneration (AMD) is the leading cause of blindness
 in the Western world. AMD is a multifactorial disorder but
 complement-mediated inflammation at the level of the retina plays a
 pivotal role. Oral zinc supplementation can reduce the progression of AMD
 but the precise mechanism of this protective effect is as yet unclear. We
 investigated whether zinc supplementation directly affects the degree of
 complement activation in AMD and whether there is a relation between serum
 complement catabolism during zinc administration and the complement factor
 H (CFH) gene or the Age-Related Maculopathy susceptibility 2 (ARMS2)
 genotype. In this open-label clinical study, 72 randomly selected AMD
 patients in various stages of AMD received a daily supplement of 50 mg
 zinc sulphate and 1 mg cupric sulphate for three months. Serum complement
 catabolism–defined as the C3d/C3 ratio–was measured at baseline,
 throughout the three months of supplementation and after discontinuation
 of zinc administration. Additionally, downstream inhibition of complement
 catabolism was evaluated by measurement of anaphylatoxin C5a. Furthermore,
 we investigated the effect of zinc on complement activation in vitro. AMD
 patients with high levels of complement catabolism at baseline exhibited a
 steeper decline in serum complement activation (p&lt;0.001) during the
 three month zinc supplementation period compared to patients with low
 complement levels. There was no significant association of change in
 complement catabolism and CFH and ARMS2 genotype. In vitro zinc sulphate
 directly inhibits complement catabolism in hemolytic assays and membrane
 attack complex (MAC) deposition on RPE cells. This study provides evidence
 that daily administration of 50 mg zinc sulphate can inhibit complement
 catabolism in AMD patients with increased complement activation. This
 could explain part of the mechanism by which zinc slows AMD progression.
description: Zinc supplementation
 inhibits complement activation in age-related macular
 degenerationCollected as part of a
 clinical trial.