cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.6k417tm
title: Data from: An avian equivalent of selective abortion: post-laying clutch reduction under resource limitation

description: Selective elimination of excess offspring with poor fitness prospects may
 occur prenatally (selective abortion) or postnatally (brood reduction).
 Postnatal reduction is the dominant strategy, presumably because surplus
 progeny serves as a hedge against environmental and developmental
 uncertainty. In birds, its main proximate mechanism is asynchronous
 hatching, generating within-brood competitive asymmetry. Here, clutch-size
 reduction via last-egg abandonment was investigated in the asynchronously
 hatching red-necked grebe in a study area comprising two human-managed
 poorly predictable habitats with distinctly different food supplies.
 Last-egg abandonment, virtually absent in favorable food conditions,
 occurred regularly in larger clutches in conditions of brood-stage food
 scarcity. In the food-poor habitat, the production and body condition of
 fledglings did not differ between last-egg abandoning and caring pairs.
 The experimentally prolonged hatching interval increased the egg
 abandonment rate (irrespective of clutch size), but mainly in food-poor
 conditions. This is the first demonstration of parental clutch reduction
 in anticipation of brood-stage food limitation. Last-egg abandonment
 functions as an equivalent of abortion, as discarded offspring are
 excluded from the postnatal selection arena. This strategy might have
 evolved as ‘best-of-a-bad-job’ to reallocate parental resources when a
 strong mismatch between clutch size and chick survival probability reduced
 the hedging value of later-laid eggs.
description: Post-laying clutch
 reduction Dryad DatasetThe attached Excel file
 provides data for "An avian equivalent of selective abortion:
 post-laying clutch reduction under resource limitation". The first
 sheet contains data on the natural occurrence of last-egg abandonment
 under high and low food conditions in red-necked grebes. The second sheet
 contains data on the occurrence of prolonged incubation. The third sheet
 contains data used for calculation of the scaled mass index in juvenile
 birds. The scaled mass index (SMI) was computed using the equation of Peig
 & Green (2009). The fourth sheet contains data on the effect of
 experimentally increased hatching asynchrony on last-egg abandonment
 rates.
DOI: 10.5061/dryad.6g24f6k
title: Data from: Land use alters trophic redundancy and resource flow through stream food webs

description: 1. The changes to physical and chemical ecosystem characteristics as a
 response to pervasive and intensifying land use have the potential to
 alter the consumer-resource interactions and to rewire the flow of energy
 through entire food webs. 2. We investigated these structural and
 functional properties of food webs in stream ecosystems distributed across
 woodland, agricultural and urban areas in the Zagreb region of Croatia. We
 compared resource availability and consumer diet composition using stable
 isotope mixing models and tested how the isotopic variance of basal
 resources, primary consumers, macroinvertebrate predators, and other
 food-web characteristics change with different land use types. 3.
 Combination of increased loading and altered composition of nutrients,
 lower water discharge and higher light availability at urban sites likely
 promoted the contribution of aquatic macrophytes to diets of primary
 consumers. Macroinvertebrate predators shifted their diet, relying more on
 active filterers at urban sites relative to woodland and agricultural
 sites. Urban food webs also had lower trophic redundancy (i.e. fewer
 species at each trophic level) and a more homogenised energy flow from
 lower to higher trophic levels. There was no effect of land use on
 isotopic variation of basal resources, primary consumers or
 macroinvertebrate predators, but all these trophic groups at urban and
 agricultural sites were 15N-enriched relative to their counterparts in
 woodland stream food webs. 4. The physical and chemical ecosystem
 characteristics associated with intensive land use altered the resource
 availability, trophic redundancy and the flow of energy to other trophic
 levels, with potentially negative consequences for community dynamics and
 ecosystem functioning. These empirical findings indicate that reducing
 nutrient pollution, agricultural runoffs and maintaining riparian
 vegetation can mitigate the impacts of land use on structure and function
 of stream ecosystems.
description: INVERTSExcel file showing bulk delta13C and delta15N isotope values from macroinvertebrates collected in freshwater steams in the region of Zagreb, Croatia in April to May of 2016. Other columns include taxonomic and functional information about each sample that was analysed for isotopes, site name, stream name, and the land use classification for each sampling station.SOURCESExcel file showing bulk delta13C and delta15N isotope values from food source materials collected in freshwater steams in the region of Zagreb, Croatia in April to May of 2016. Other columns include the type of resource, the classification of the resource in terms of allocthonous or autochthonous, and the site name, stream name, and the land use classification for each sampling station.
DOI: 10.5061/dryad.g87871r
title: Data from: Aphids can acquire the nitrogen delivered to plants by arbuscular mycorrhizal fungi

description: 1. Above and below ground organisms can interact by altering the quality
 of shared host plants. Arbuscular mycorrhizal fungi (AMF) influence plant
 nutrient uptake, including nitrogen (N) acquisition. Under low N and
 phosphorus conditions, AMF delivery of N from organic sources not
 immediately available to the plant can have large impacts on plant N
 status, a limiting nutrient in the aphid diet. 2. This study investigated
 the effect of AMF colonisation upon aphid number and determined the
 consequences of AMF directly accessing an organic nutrient patch that the
 plant cannot. We hypothesised that AMF colonisation of plants will
 increase plant and aphid N status, plant performance and aphid number, but
 only when the AMF had direct access to the added organic patch. 3. Barley
 plants hosting the grain aphid Sitobion avenae were colonised by the AMF,
 Funneliformis mosseae, or no AMF. A two compartment microcosm was used to
 separate the plant roots from a 15N labelled organic patch in a second
 compartment. AMF colonised plants, but without access to the second
 compartment, were used to examine the effect of AMF colonisation on aphid
 number. In a separate treatment, and to determine whether AMF access to a
 plant inaccessible N source modified the effect of AMF colonisation on
 aphid number, AMF hyphae were permitted access to the second compartment
 containing an organic patch. As a control for AMF accessing a larger
 substrate volume, AMF were allowed access to a second compartment without
 an organic patch. 4. When the AMF accessed the organic patch, more N from
 the patch was delivered to the plant resulting in a higher grain N
 concentration although plant growth was depressed. More N from the patch
 was also delivered to the aphids, but the N status of the aphid remained
 unchanged. Regardless of the level of access to the organic patch, AMF
 colonisation did not affect aphid number. 5. Our data show that by
 accessing N sources not readily available to plants, AMF can indirectly
 deliver N to above ground organisms, a finding which has major
 implications for N transfer between higher trophic levels.
description: wilkinson_et_al._plant_aphid_AMF_responsesThis csv. file contains the physiological and chemical data acquired during the experiment. This file was used in 'R' for statistical analysis and contains the raw counts and data output of appropriate variables as well as the post calculation data used in statistical tests.wilkinson_et_al._organic_patch_IRMS_analysisThis data file contains the results of IRMS analysis on the organic patch material used in the study.wilkinson_et_al._raw_plant_aphid_IRMS_dataThis data file includes the entire output from the IRMS analysis of the plant and aphid tissue. This includes carbon related analysis not used in the final statistical analysis reported.
DOI: 10.5061/dryad.90103c0
title: Data from: Active buoyancy adjustment increases dispersal potential in benthic marine animals

description: 1. While the study of dispersal and connectivity in the ocean typically
 centers on pelagic species and planktonic larval stages of benthic
 species, the present work explores an overlooked locomotor means in
 post-settlement benthic stages that redefines their dispersal potential.
 2. Members of the echinoderm class Holothuroidea colonize a diversity of
 marine environments worldwide, where they play key ecological and
 economical roles, making their conservation a priority. Holothuroids are
 commonly called sea cucumbers or sea slugs to reflect their slow movements
 and are assumed to disperse chiefly through pelagic larvae. 3. The present
 study documents and explores their unexpected ability to actively modify
 their buoyancy, leading them to tumble or float at speeds orders of
 magnitudes faster than through benthic crawling. Two focal species
 representing different taxonomic orders, geographic distributions and
 reproductive strategies were studied over several years. 4. Active
 buoyancy adjustment (ABA) was achieved through a rapid increase in
 seawater to flesh ratio by up to 740%, leading to bloating, and
 simultaneously detachment from the substrate. It occurred as early as 6
 months post settlement in juveniles and was recorded in wild adult
 populations. In experimental trials, ABA was triggered by high conspecific
 density, decreasing salinity and increasing water turbidity. Based on
 field video footage, ABA-assisted movements generated speeds of up to 90
 km d-1. 5. These findings imply that displacement during planktonic larval
 stages may not supersede the locomotor capacity of benthic stages,
 challenging the notion of sedentarity. Combining the present results and
 anecdotal reports, ABA emerges as a generalized means of dispersal among
 benthic animals, with critical implications for worldwide management and
 conservation of commercially and ecologically significant species.
description: ABA_dataThis file contains data associated with a study of active buoyancy adjustment (ABA) in holothuroid echinoderms
DOI: 10.5061/dryad.6t4s455
title: Data from: Hormonal pleiotropy and the evolution of allocation trade-offs

description: Recent empirical evidence suggest that trade-off relationships can evolve,
 challenging the classical image of their high entrenchment. For energy
 reliant traits, this relationship should depend on the endocrine system
 that regulates resource allocation. Here we model changes in this system
 by mutating the expression and conformation of its constitutive hormones
 and receptors. We show that the shape of trade-offs can indeed evolve in
 this model through the combined action of genetic drift and selection,
 such that their evolutionarily expected curvature and length depend on
 context. In particular, the shape of a trade- off should depend on the
 cost associated with resource storage, itself depending on the traded
 resource and on the ecological context. Despite this convergence at the
 phenotypic level, we show that a variety of physiological mechanisms may
 evolve in similar simulations, suggesting redundancy at the genetic level.
 This model should provide a useful framework to interpret and unify the
 overly complex observations of evolutionary endocrinology and evolutionary
 ecology.
description: dryadThis directory contains
 each data files and scripts used for simulations and analysis of Bourg
 etal 2019
DOI: 10.5061/dryad.f5dv1t0
title: Data from: Non‐breeding flight activity in pallid swifts Apus pallidus

description: Flight activity recorders have recently confirmed that alpine and common
 swifts spend the majority of their non‐breeding period on the wing, which
 may last 6‐10 months. Here we test the hypothesis that the closely related
 pallid swift, a species with a breeding distribution around the
 Mediterranean, lead a similar aerial life‐style during its migration and
 wintering periods. The pallid swift usually lays two clutches in one
 season and therefore spends more time in the breeding area than the common
 swift. We successfully tracked four pallid swifts with data loggers that
 record light for geolocation and acceleration every 5 minutes to monitor
 flight activity. The birds wintered south of the Sahel in West Africa from
 the Ivory Coast to Cameroon. The pallid swifts spent the majority of their
 non‐breeding time in flight, especially the first two months after leaving
 the breeding area in autumn, while a few landing events occurred during
 the winter. The total time grounded was &lt;1%, similar to that of the
 common and alpine swifts. The mass specific flight metabolic rate of
 swifts is similar to the average non‐breeding metabolic rate of a long
 distance terrestrial migrant, suggesting swifts are not more likely to
 procure oxidative damage as a consequence of continuous flight than other
 migrants. The open airspace used by swifts may provide a relatively safe
 habitat that explain the high survival rate found in swifts.
description: READMEX155_publFlight activity dataX159_publFlight activity dataX160_publFlight activity dataX310_publFlight activity and altitude dataPositions_publDerived monthly positions of individuals X155, X159 and X160
DOI: 10.5061/dryad.rs7d7q7
title: Data from: Long live the queen, the king and the commoner? transcript expression differences between old and young in the termite Cryptotermes secundus

description: Social insects provide promising new avenues for aging research. Within a
 colony, individuals that share the same genetic background can differ in
 lifespan by up to two orders of magnitude. Reproducing queens (and in
 termites also kings) can live for more than 20 years, extraordinary
 lifespans for insects. We studied aging in a termite species, Cryptotermes
 secundus, which lives in less socially complex societies with a few
 hundred colony members. Reproductives develop from workers which are
 totipotent immatures. Comparing transcriptomes of young and old
 individuals, we found evidence for aging in reproductives that was
 especially associated with DNA and protein damage and the activity of
 transposable elements. By contrast, workers seemed to be better protected
 against aging. Thus our results differed from those obtained for social
 insects that live in more complex societies. Yet, they are in agreement
 with lifespan estimates for the study species. Our data are also in line
 with expectations from evolutionary theory. For individuals that are able
 to reproduce, it predicts that aging should only start after reaching
 maturity. As C. secundus workers are immatures with full reproductive
 options we expect them to invest into anti-aging processes. Our study
 illustrates that the degree of aging can differ between social insects and
 that it may be associated with caste-specific opportunities for
 reproduction.
description: Monroy_Kuhn_et_al_README_DRYADREADME Supplementary Data, pdf formatSupplementary Archive 1Files included in Supplementary Archive 1Supplementary_File_Archive_1.tar.gzSupplementary Archive 2Files included in Supplementary Archive 2Supplementary_File_Archive_2.tar.gzSupplementary Archive 3Files included in Supplementary Archive 3Supplementary_File_Archive_3.tar.gzSupplementary Archive 4Files included in Supplementary Archive 4Supplementary_File_Archive_4.tar.gzSupplementary Archive 5Files included in Supplementary Archive 5Supplementary_File_Archive_5.tar.gzSupplementary Archive 6Files included in Supplementary Archive 6Supplementary_File_Archive_6.tar.gz
DOI: 10.5281/zenodo.18387556
title: Solanum licopersicum and Olea europaea microRNAs as Epithelial-Mesenchymal Transition regulators in prostate cancer
DOI: 10.5281/zenodo.18387555
title: Solanum licopersicum and Olea europaea microRNAs as Epithelial-Mesenchymal Transition regulators in prostate cancer
DOI: 10.5061/dryad.r4v94tc
title: Data from: On polyphyly of the former section Ochlopoa Asch. et Graebn. and hybridogenic section Acroleucae Tzvelev et Prob. (Poa L., Poaceae): insights from the molecular phylogenetic analysis

description: In this study, sequence data of the nuclear region ITS1-5.8S rDNA-ITS2 and
 the chloroplast region trnL-F as well as few morphological characters were
 examined trying to elucidate the relationships among known annual
 bluegrasses. It was shown that all taxa from the aggregate P. annua
 distinguished by lemma characters and growth form are identical according
 to ITS and trnL-trnF data wherein all ITS sequences of P. annua aggr. are
 the same as P. supina and all trnL-trnF sequences are homologous with
 those of P. infirma. Also we haven’t found any differences between unusual
 samples of P. supina with short spinules on their panicle branches and
 typical plants according to the sequence data though Siberian samples have
 minor distinction in trnL-trnF region. Our analysis showed hybrid origin
 of Asian annual bluegrasses (see also Nosov et al. 2015, Soreng et al.
 2017). Their maternal genome is close to the section Homalopoa, but their
 ITS sequences were different. ITS sequences of some annual Asian
 bluegrasses group with the section Stenopoa and for other species (close
 to previous from the morphological traits) they fall into clade with the
 section Malacanthae. The latter group is distant from the sect. Ochlopoa
 and is better to be treated as a separate section, Acroleucae. American
 annual bluegrasses are heterogeneous and also rather distant from the
 sect. Ochlopoa. P. chapmaniana, species with cleistogamic flowers, is
 nested with basal Subantarctic sections falling out of its previously
 described affinity group. It is closer to the sect. Ochlopoa than other
 annual American bluegrasses. Thus, studied annual species in fact belong
 to the four independent evolutionary lines (or six including genus
 Eremopoa and Turkish Poa jubata – Cabi et al. 2017) one of which,
 Acroleucae, also passed triple reticulation event. As in previous studies
 our analysis didn’t support the generic status of sect. Ochlopoa.
description: Poa_CF_OCHLOPOAAlignment file of the chloroplast sequences (includes trnL gene intron and trnL-trnF intergenic spacer) Poa_CF_OCHLOPOA.fasPoa_ITS_OCHLOPOAAlignment file of the ITS sequences (ITS1-5.8S rRNA gene-ITS2 region, nuclear genome)Ochlopoa table -ALL SPECIESSequences used for our analysis with the references to collectors, location and GenBank numbers
DOI: 10.5061/dryad.3hg0054
title: Data from: Thresholds in forest bird communities along woody vegetation gradients in the South American Dry Chaco

description: 1. Worldwide, tropical savannas and dry forests are under increasing
 pressure from land use. The environmental impacts of agricultural
 expansion into these ecosystems have received much attention, yet subtler
 changes in natural vegetation remain severely understudied. 2. We explored
 how bird communities vary along gradients of woody vegetation in the South
 American Dry Chaco by combining high-resolution, satellite-based tree,
 shrub, and total woody cover with field data on the frequency of 82 bird
 species surveyed in 167 plots. We identified change points along woody
 cover gradients where the relative frequency of individual bird species
 dropped most strongly. Based on this, we identified forest indicator
 species and assessed evidence for community-level thresholds. 3. Most
 forest birds (71%) had clear change points in their frequencies along
 vegetation gradients, starting as high as 38% total woody cover. Many
 (41%) forest species declined drastically at woody cover levels of less
 than 11%. This general pattern was similar for tree and shrub cover. 4.
 Only 7% of our study area had woody cover levels where we detected no
 response in forest bird communities. In contrast, 68% of the area had
 woody cover levels with incremental declines in forest bird species, and
 25% of the study area had woody cover levels below the forest bird
 community threshold. 5. We identified eleven indicator species strongly
 related to woody cover, with highest frequencies in the eastern and
 western Dry Chaco. Spatial distributions of these species corresponded
 well with areas above and below woody vegetation thresholds. 6. Synthesis
 and applications. We found evidence for critical thresholds for forest
 birds along woody cover gradients in dry forests, and implemented tools to
 map where these thresholds have been crossed. For the Chaco, we highlight
 the importance of maintaining woody cover levels above about 40%, such as
 in certain silvopastoral systems that can be much more wildlife-friendly
 than other forms of agriculture. We identify remaining areas of
 potentially intact forest bird communities. More broadly, this study
 highlights the value of combining species-level (indicator species’
 distributions) and ecosystem-level (satellite-based, continuous woody
 cover maps) surrogates for understanding biodiversity patterns and
 threats.
description: birds, shrub cover, tree
 cover, total woody coverzip file contains for
 each plot: birds relative frequency values, shrub/tree/total woody cover
 valuesMacchi_JAPPL-2018-00109.R3.zip
DOI: 10.5061/dryad.2ph10v8
title: Data from: Nutrient starvation impairs the trophic plasticity of reef-building corals under ocean warming

description: 1) Global warming of the world’s oceans is driving reef-building corals
 towards their upper thermal limit, inducing bleaching, nutrient starvation
 and mortality. In addition, corals are predicted to experience large
 fluctuations in seawater nutrient concentrations, following water column
 stratification or eutrophication problems, which can further alter their
 nutritional capacities and ultimately their resilience to global change.
 2) We investigated the effect of thermal stress and dissolved inorganic
 nutrient (DINUT) availability on the auto- and heterotrophic nutritional
 capacities of corals. In particular, we assessed the effect of nitrogen
 enrichment or DINUT depletion (both in nitrogen and phosphorus) on the
 assimilation of heterotrophic nutrients as well as on the heat-stress
 tolerance of the reef-building coral Stylophora pistillata. 3) Here, we
 show that DINUT depletion enhanced coral bleaching under thermal stress
 and more importantly, significantly impaired rates of heterotrophic
 nutrient assimilation, inducing coral starvation. In contrast, corals
 grown under nitrogen enrichment maintained high rates of heterotrophic
 nutrient assimilation and avoided bleaching, although nutrient uptake
 rates were lowered. We therefore observed a positive coupling between
 auto-and heterotrophy within the coral-dinoflagellate symbiosis,
 indicating that heterotrophic processes require a minimum of
 autotrophically-acquired nutrients to be functional. 4) These findings
 show that the trophic plasticity of corals directly depends on the
 availability of dissolved inorganic nutrients in seawater. The lack of a
 shift toward greater heterotrophy under DINUT depletion may lead to
 substantial modifications of the role that feeding plays in the response
 of reef-building corals to climate change.
description: data_ezzat_FE2018