cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.qc561
title: Data from: Differential allocation revisited: when should mate quality affect parental investment?

description: Differential allocation (DA) is the adaptive adjustment of reproductive
 investment (up or down) according to partner quality. A lack of
 theoretical treatments has led to some confusion in the interpretation of
 DA in the empirical literature. We present a formal framework for DA that
 highlights the nature of reproductive benefits versus costs for females
 mated to males of different quality. Contrary to popular belief,
 analytical and stochastic dynamic models both show that additive benefits
 of male quality on offspring fitness have no effect on optimal levels of
 female investment and thus cannot produce DA. Instead, if offspring
 fitness is affected multiplicatively by male quality, or male quality
 affects the female cost function, DA is expected because of changes in the
 marginal benefits or costs of extra investment. Additive male quality
 effects on the female cost function can cause a novel form of weak DA,
 because reduced costs can slightly favor current over future reproduction.
 Combinations of these distinct effects in more realistic model scenarios
 can explain various patterns of positive and negative DA reported for
 different species and mating systems. Our model therefore sheds new light
 on the diversity of empirical results by providing a strong conceptual
 framework for the differential allocation hypothesis.
description: R code for the
 stochastic dynamic modelR code for the
 stochastic dynamic optimization model, including example plots and the
 forward simulation.Differential allocation model
 Haaland et al.R
DOI: 10.5061/dryad.v346n
title: Data from: Acoustic cues from within the egg do not heighten depredation risk to shorebird clutches

description: Egg predators use an array of olfactory and visual cues to locate eggs.
 Precocial avian embryos within eggs can produce vocalizations for a period
 prior to hatching, which may be audible to predators. Here, we
 investigated, under field conditions, the embryonic vocalizations emitted
 from eggs of a shorebird species, the Red-capped Plover Charadrius
 ruficapillus. We characterize the acoustic properties of the vocalizations
 and the circumstances under which they are emitted, then test whether such
 vocalizations are used as an acoustic cue by predators to locate eggs.
 Embryonic vocalizations typically occurred between 0 and 5 days before
 hatching (henceforth the “vocalization period”). Within the vocalization
 period, the maximum acoustic frequency (kHz) of vocalizations increased
 with egg age (perhaps as a consequence of embryonic development) and the
 minimum acoustic frequency (kHz) increased with ground temperature
 (perhaps as mode of communication with parents regarding thermal needs).
 An artificial nest experiment compared the survival of nests with and
 without acoustic cues (prerecorded embryonic vocalizations played
 continuously from the nest). Corvids were the major egg predator
 (accounting for 76% of cases of artificial nest predation). However, the
 presence of vocalizations did not affect the time taken for predators to
 locate and depredate eggs. Our results suggest that embryonic
 vocalizations are important signals that may aid in communication with
 parents but that they do not increase predation rates. Further research
 involving a greater diversity of predators (e.g., acoustic predators) is
 required to examine whether vocalizations from the egg incur costs under
 other predator regimes.
description: Experiment_Kostoglou_et_al_2017See the ReadMe file. This file contains the results of the experimental part of the study.REALNESTS_Kostoglou_et_al_2017This file describes the data collected from our acoustic sampling of real nests.
DOI: 10.5061/dryad.q554f1k
title: Data from: Introduced ants reduce interaction diversity in a multi-species, ant-aphid mutualism

description: Mutualisms contribute in fundamental ways to the origin, maintenance and
 organization of biological diversity. Introduced species commonly
 participate in mutualisms, but how this phenomenon affects patterns of
 interactions among native mutualists remains incompletely understood. Here
 we examine how networks of interactions among aphid-tending ants,
 ant-tended aphids, and aphid-attacking parasitoid wasps differ between 12
 spatially paired riparian study sites with and without the introduced
 Argentine ant Linepithema humile in southern California. To resolve
 challenges in species identification, we used DNA barcoding to identify
 aphids and screen for parasitoid wasps (developing inside their aphid
 hosts) from 170 aphid aggregations sampled on arroyo willow Salix
 lasiolepis. Compared to uninvaded sites, invaded sites supported
 significantly fewer species of aphid-tending ants and ant-tended aphids.
 At invaded sites, for example, we found only two species of ant-tended
 aphids, which were exclusively tended by L. humile, whereas at uninvaded
 sites we found 20 unique ant–aphid interactions involving eight species of
 ant-tended aphids and nine species of aphid-tending ants. Ant–aphid
 linkage density was thus significantly lower at invaded sites compared to
 uninvaded sites. We detected aphid parasitoids in 14% (28/198) of all
 aphid aggregations. Although the level of parasitism did not differ
 between invaded and uninvaded sites, more species of wasps were detected
 within uninvaded sites compared to invaded sites. These results provide a
 striking example of how the assimilation of introduced species into
 multi-species mutualisms can reduce interaction diversity with potential
 consequences for species persistence.
description: Interaction data between
 ants, aphids and wasps in riparian habitats in Southern
 CaliforniaThese data document
 networks of interactions among aphid-tending ants, ant-tended aphids, and
 aphid-attacking parasitoid wasps differ between 12 spatially paired
 riparian study sites with and without the introduced Argentine ant
 (Linepithema humile) in Southern California. To resolve challenges in
 species identification, we used DNA barcoding to identify aphids and
 screen for parasitoid wasps (developing inside their aphid hosts) from 170
 aphid aggregations sampled on arroyo willow (Salix
 lasiolepis).willow
 data.zip
DOI: 10.5061/dryad.1767
title: Data from: The relevance of gene flow in metapopulation dynamics of an oceanic island endemic, Olea europaea subsp guanchica

description: Theoretical and empirical studies suggest that geographical isolation and
 extinction-recolonization dynamics are two factors causing strong genetic
 structure in metapopulations. Here, we investigated the effect of
 population age structure and isolation by distance in the patterns of
 genetic diversity in a tree species (Olea europaea subsp. guanchica)
 sporadically affected by volcanic events across the Canarian archipelago.
 Genetic variation was assessed at six nuclear microsatellites (nDNA) and
 six chloroplast fragments (cpDNA) in nine subpopulations sampled on four
 oceanic islands. Subpopulations occurring on more recent substrates were
 more differentiated than those on older substrates, but
 within-subpopulation genetic diversity was not significantly different
 between age groups for any type of marker. Contrary to the general trend
 for island systems, between-island differentiation was extremely low, and
 lower than differentiation between subpopulations on the same island. The
 pollen-to-seed ratio was close to one, two orders of magnitude lower than
 the average estimated for other wind-pollinated, animal-dispersed plants.
 Our results showed that population turnover and geographical isolation
 increased genetic differentiation relative to an island model at
 equilibrium, but overall genetic structure was unexpectedly weak for a
 species distributed among islands. This empirical study shows that
 extensive gene flow, particularly mediated by seeds, can ameliorate
 population subdivision resulting from extinction-recolonization dynamics
 and isolation by distance
description: Nuclear microsatellite
 data of western Olea europaea subsp guanchica
 populationsMatrix containing 105
 Olea guanchica individuals sampled on four oceanic islands and genotyped
 with six nuclear microsatellites. The attached matrix has a SPAGeDI
 format, but please note that geographical coordinates are not included for
 some populations. This does not cause a problem when running the program
 to obtain population differentiation estimates. Also note that allele
 sizes are detailed without corrections after the M13 amplification
 technique. For more info on the study system, please contact Carlos
 García-Verdugo (cgarciav@bio.ucm.es)spagediOguan.txt
DOI: 10.5281/zenodo.18219640
title: Sharing supporting data for the scientific manuscript

description: This data contains high-resolution files linked to the scientific manuscript and has been provided to meet the journal's requirements.
DOI: 10.5281/zenodo.18221307
title: Sharing supporting data for the scientific manuscript

description: This data contains high-resolution files linked to the scientific manuscript and has been provided to meet the journal's requirements.
DOI: 10.5061/dryad.n5m81
title: Data from: Environment-dependent variation in selection on life history across small spatial scales

description: Variation in life-history traits is ubiquitous, even though genetic
 variation is thought to be depleted by selection. One potential mechanism
 for the maintenance of trait variation is spatially-variable selection. We
 explored spatial variation in selection in the field for a colonial marine
 invertebrate that shows phenotypic differences across a depth gradient of
 only three meters. Our analysis included life-history traits relating to
 module size, colony growth and phenology. Directional selection on colony
 growth varied in strength across depths, while module size was under
 directional selection at one depth but not the other. Differences in
 selection may explain some of the observed phenotypic differentiation
 among depths for one trait but not another: instead, selection should
 actually erode the differences observed for this trait. Our results
 suggest selection is not acting alone to maintain trait variation within
 and across environments in this system.
description: Trait measurements and
 cumulative fecundity of 173 bryozoans growing in either shallow or deeper
 watersEach row represents one
 colonial bryozoan, its trait values for five life history traits (onset of
 senescence, growing edge width, early module size, intermediate module
 size, and late module size) and cumulative fecundity (number of eggs).
 These bryozoans naturally settled on to different panel stacks (one panel
 in 1 m water depth and one panel at 4 m per stack).Lange2016Evolution.csv
DOI: 10.5061/dryad.9c6q0
title: Data from: Exposure to parasites increases promiscuity in a freshwater snail

description: Under the Red Queen hypothesis, outcrossing can produce genetically
 variable progeny, which may be more resistant, on average, to locally
 adapted parasites. Mating with multiple partners may enhance this
 resistance by further increasing the genetic variation among offspring. We
 exposed Potamopyrgus antipodarum to the eggs of a sterilising, trematode
 parasite and tested whether this altered mating behaviour. We found that
 exposure to parasites increased the number of snail mating pairs and the
 total number of different mating partners for both males and females. Thus
 our results suggest that, in host populations under parasite-mediated
 selection, exposure to infective propagules increases the rate of mating
 and the number of mates.
description: EM Mating
 PairsFemale Multiple Mating
 Data
DOI: 10.5061/dryad.g0164d60
title: Data from: A tale of two species: molecular data reveal the chemotypes of Lepraria normandinoides (Stereocaulaceae) to be two sympatric species

description: Lepraria normandinoides is currently circumscribed to include three
 chemotypes that differ in the presence/absence of two structurally similar
 depsides: fumarprotocetraric acid and protocetraric acid. Populations of
 these chemotypes are sympatric and morphologically identical. A molecular
 phylogeny was inferred from ITS1, 5.8S, and ITS2 sequence data generated
 from a geographically broad sampling of populations of L. normandinoides.
 Two strongly-supported clades were recovered that correlate to the depside
 producing chemotypes. Consequently L. normandinoides is restricted to the
 protocetraric acid producing chemotype and the fumarprotocetraric acid
 chemotype is formally described as L. oxybapha. Acid deficient populations
 are tentatively retained in L. normandinoides.
description: normandinoides_data_filesThis is a .zip folder containing three DNA sequence alignments in nexus format. The MP and ML files were input into PAUP and the BI file into MrBayes. For further details refer to the methods section of the publication.
DOI: 10.5061/dryad.43kf3
title: Data from: Conflict of interest and signal interference lead to the breakdown of honest signalling

description: Animals use signals to coordinate a wide range of behaviours, from feeding
 offspring to predator avoidance. This poses an evolutionary problem,
 because individuals could potentially signal dishonestly to coerce others
 into behaving in ways that benefit the signaller. Theory suggests that
 honest signalling is favoured when individuals share a common interest and
 signals carry reliable information. Here, we exploit the opportunities
 offered by bacterial signalling, to test these predictions with an
 experimental evolution approach. We show that: (1) a reduced relatedness
 leads to the relative breakdown of signalling; (2) signalling breaks down
 by the invasion of mutants that show both reduced signalling and reduced
 response to signal; (3) the genetic route to signalling breakdown is
 variable; (4) the addition of artificial signal, to interfere with signal
 information, also leads to reduced signalling. Our results provide clear
 support for signalling theory, but we did not find evidence for the
 previously predicted coercion at intermediate relatedness, suggesting that
 mechanistic details can alter the qualitative nature of specific
 predictions. Furthermore, populations evolved under low relatedness caused
 less mortality to insect hosts, showing how signal evolution in bacterial
 pathogens can drive the evolution of virulence in the opposite direction
 to that often predicted by theory.
description: Relatedness_PopulationsRelatedness data at the population level. It relates to Fig. 2 in the manuscriptRelatedness_IndividualsRelatedness at the individual level. Relates to Fig 2 in the manuscriptVirulenceWaxmoth virulence data. Relates to Fig 6 in the manuscriptSignal_InterferenceSignal interference data. Fig 5 in paperRelatedness_ResponsivenessSIgnal responsiveness data. Fig 4 in paperRelative_FitnessRelative fitness data. Fig 4 in paper
DOI: 10.5061/dryad.1v42d
title: Data from: Embryo oxygenation in pipefish brood pouches: novel insights

description: The pipefish brood pouch presents a unique mode of parental care that
 enables males to protect, osmoregulate, nourish and oxygenate the
 developing young. Using a very fine O2 probe, we assessed the extent to
 which males of the broad-nosed pipefish (Syngnathus typhle) oxygenate the
 developing embryos and are able to maintain pouch fluid O2 levels when
 brooding in normoxia (100% O2 saturation) and hypoxia (40% O2 saturation)
 for 24 days. In both treatments, pouch fluid O2 saturation levels were
 lower compared with the surrounding water and decreased throughout the
 brooding period, reflecting greater offspring demand for O2 during
 development and/or decreasing paternal ability to provide O2 to the
 embryos. Male condition (hepatosomatic index) was negatively affected by
 hypoxia. Larger males had higher pouch fluid O2 saturation levels compared
 with smaller males, and levels were higher in the bottom section of the
 pouch compared with other sections. Embryo size was positively correlated
 with O2 availability, irrespective of their position in the pouch. Two
 important conclusions can be drawn from our findings. First, our results
 highlight a potential limitation to brooding within the pouch and dismiss
 the notion of closed brood pouches as well-oxygenated structures promoting
 the evolution of larger eggs in syngnathids. Second, we provide direct
 evidence that paternal care improves with male size in this species. This
 finding offers an explanation for the documented strong female preference
 for larger partners because, in terms of oxygenation, the brood pouch can
 restrict embryo growth.
description: Pouch fluid oxygen
 levels during brooding in male broad-nosed pipefishThe file
 BragaGoncalvesetalJExpB_datafile1.csv contains the data used for the
 analysis of the effects of male size, oxygen treatment and brood pouch
 section on pouch fluid oxygen levels (%) and on average embryo length in
 the pipefish Syngnathus typhle.BragaGoncalvesetalJExpB_datafile1.csvMale condition and embryo measurements after 24 days of brooding in normoxia and hypoxia in the broad-nosed pipefishBragaGoncalvesetalJExpB_datafile2.csv contains the data used for the analysis of the effects of male size and oxygen treatment on male condition, embryo survival and average embryo weight in the pipefish Syngnathus typhle after 24 days of brooding.BragaGoncalvesetalJExpB_datafile2.csv
DOI: 10.5281/zenodo.17975061
title: SHM_415538_HST_3D

description: Photogrammetric 3D model of a Middle Neolithic hollow edge axe from Skåne, held in the collections of the National Historical Museums in Stockholm.

Link to the Dynamic Collection platform  

https://dyncolldev.ht.lu.se/plus/artifact_view.php?item=673

Link to Sök I Samlingarna  

https://samlingar.shm.se/object/D90F222A-EAD3-4A0A-AF38-B2281FD6C1CC
DOI: 10.5281/zenodo.17975062
title: SHM_415538_HST_3D

description: Photogrammetric 3D model of a Middle Neolithic hollow edge axe from Skåne, held in the collections of the National Historical Museums in Stockholm.

Link to the Dynamic Collection platform  

https://dyncolldev.ht.lu.se/plus/artifact_view.php?item=673

Link to Sök I Samlingarna  

https://samlingar.shm.se/object/D90F222A-EAD3-4A0A-AF38-B2281FD6C1CC
DOI: 10.5061/dryad.350cd31
title: Data from: Do newborn adders suffer mass mortality or do they venture in a collective hide-and-seek game?

description: In long-lived snakes estimates of survival rates in the immature age
 classes are notoriously difficult to obtain because the small, secretive
 juveniles are rarely caught in field studies. Hence, it is assumed that in
 many species juveniles suffer high mortality. An alternative view holds
 that the youngest life stages are so elusive as if they “disappear”
 temporarily from the population. We conducted a long-term (2000-2016)
 mark-recapture study in a large population of European adders and obtained
 demographic data for large numbers of immature and newborn snakes.
 Estimates obtained by the Cormack-Jolly-Seber (CJS) method revealed
 dramatic age-related differences in yearly capture probabilities: they
 were much lower in the immature classes than in the adults. Concurrently ,
 we found no evidence for age-dependent differences in survival rates.
 Hence, our inability to capture large numbers of immature snakes should
 therefore be attributed to their low detection probabilities, not because
 they would suffer high post-natal mortality. At least three traits
 contribute to the poor detectability of the immature snakes: (1) their
 small body size, (2) their lower thermal requirements, and (3) their
 non-permanent emigration to the “summer” or foraging habitats, which
 possess a greater food supply than the “winter” habitats.
description: Capture-recapture
 histories of individual European adders (Vipera berus) from a large
 population in northern BelgiumData files to be used as
 import in program MARK to obtain annual and age-specific estimates of
 capture and survival probabilitiesVb-SurvAll.zip
DOI: 10.5061/dryad.kj238
title: Data from: Epidemiological feedbacks affect evolutionary emergence of pathogens

description: The evolutionary emergence of new pathogens via mutation poses a
 considerable risk to human and animal populations. Most previous studies
 have investigated cases where a potentially pandemic strain emerges though
 mutation from an initial maladapted strain (i.e., its basic reproductive
 ratio R0 &lt; 1). However, an alternative (and arguably more likely)
 cause of novel pathogen emergence is where a “weakly adapted” strain (with
 R0 ≈ 1) mutates into a strongly adapted strain (with R0 ≫ 1). In this
 case, a proportion of the host susceptible population is removed as the
 first strain spreads, but the impact this feedback has on emergence of
 mutated strains has yet to be quantified. We produce a model of pathogen
 emergence that takes into account changes in the susceptible population
 over time and find that the ongoing depletion of susceptible individuals
 by the first strain has a drastic effect on the emergence probability of
 the mutated strain, above that assumed by just scaling the reproductive
 ratio. Finally, we apply our model to the documented emergence of
 Chikungunya virus on La Réunion Island and demonstrate that the emergence
 probability of the mutated strain was reduced approximately 10-fold,
 compared to models assuming that susceptible depletion would not affect
 outbreak probability. These results highlight the importance of taking
 population feedbacks into account when predicting disease emergence.
description: HartfieldAlizon2013SimREADME FOR SIMULATION FILES: This file is the source code for the emergence simulations used in the Hartfield and Alizon 2013 paper "Epidemiological feedbacks affect evolutionary emergence of pathogens". Simulations are written in C and need to be compiled prior to execution. See blurb at start of each program for description and how to execute. Please also note that simulations use routines that are part of the GNU Scientific Library (GSL). Since GSL is distributed under the GNU General Public License (http://www.gnu.org/copyleft/gpl.html), you must download it separately from these files. Comments should be sent to Matthew Hartfield (matthew.hartfield@ird.fr).