cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.645h2
title: Data from: Tetracycline-exposed Drosophila melanogaster males produce fewer offspring but a relative excess of sons

description: A large diversity of species possesses endosymbionts; these endosymbionts
 can exhibit mutualistic, parasitic, and commensal relationships with their
 hosts. Previous work has consistently revealed that depleting endosymbiont
 titer with antibiotic treatment can significantly alter host fitness and
 function, particularly with respect to reproductive phenotypes. Although
 these findings are often interpreted as resulting from the breakdown of
 highly coevolved symbioses, it is possible that antibiotic treatment
 itself rather than endosymbiont removal contributes to the observed
 perturbations in reproductive phenotypes. Here, we investigate the effect
 of tetracycline treatment on sex ratio and male reproductive fitness using
 Drosophila melanogaster as a model system. Our results indicate that
 tetracycline-treated males produce a relative excess of sons. We also find
 that tetracycline treatment reduces the number of progeny produced by
 treated males but not treated females. These findings are independent of
 the effects of tetracycline on Wolbachia titer and implicate the
 antibiotic itself as mediating these changes. It is yet unclear whether
 the sex ratio shift and reduction in male reproductive fitness are direct
 or indirect consequences of tetracycline exposure, and more work is needed
 to determine the molecular mechanisms by which these disturbances in
 reproductive phenotypes arise. Our data highlight the importance of
 considering the potentially confounding effects of antibiotic treatment
 when investigating the effects of endosymbiont depletion on host
 phenotypes.
description: Raw data
 fileThis Excel workbook has
 a separate worksheet for each experiment. There are data for the treated
 P0 files, and F1 sons and F2 grandsons of these treated files.
 "w-" denotes the flies that were cured of Wolbachia prior to the
 experiment, while "w+" describes those that were infected at the
 time of experimentation. The numbers of males and females produced in each
 replicate is presented.TetDataDryad.xls
DOI: 10.5061/dryad.kp89j
title: Data from: Range shifting species reduce phylogenetic diversity in high latitude communities via competition

description: Under anthropogenic climate change, many species are expanding their
 ranges to higher latitudes and altitudes, resulting in novel species
 interactions. The consequences of these range shifts for native species,
 patterns of local biodiversity, and community structure in high latitude
 ecosystems are largely unknown but critical to understand in light of
 widespread poleward expansions by many warm-adapted generalists. Using
 niche modelling, phylogenetic methods, and field and laboratory studies,
 we investigated how colonisation of Scotland by a range expanding
 damselfly, Ischnura elegans, influences patterns of competition and niche
 shifts in native damselfly species, and changes in phylogenetic community
 structure. Colonization by I. elegans was associated with reduced
 population density and niche shifts in the resident species least related
 to I. elegans (Lestes sponsa), reflecting enhanced competition.
 Furthermore, communities colonized by I. elegans exhibited phylogenetic
 underdispersion, reflecting patterns of relatedness and competition. Our
 results provide a novel example of a potentially general mechanism whereby
 climate change-mediated range shifts can reduce phylogenetic diversity
 within high latitude communities, if colonising species are typically
 competitively superior to members of native communities that are
 least-closely-related to the coloniser.
description: damselfly abundance and
 size dataDamselfly size data for
 six species from 87 sites and Damselfly abundance data of six species from
 92 sites across North East Scotlanddamselfly_data.xlsx
DOI: 10.5061/dryad.76r58
title: Data from: Predicting effects of water regime changes on waterbirds: insights from staging swans

description: Predicting the environmental impact of a proposed development is
 notoriously difficult, especially when future conditions fall outside the
 current range of conditions. Individual-based approaches have been
 developed and applied to predict the impact of environmental changes on
 wintering and staging coastal bird populations. How many birds make use of
 staging sites is mostly determined by food availability and accessibility,
 which in the case of many waterbirds in turn is affected by water level.
 Many water systems are regulated and water levels are maintained at target
 levels, set by management authorities. We used an individual-based
 modelling framework (MORPH) to analyse how different target water levels
 affect the number of migratory Bewick’s swans Cygnus columbianus bewickii
 staging at a shallow freshwater lake (Lauwersmeer, the Netherlands) in
 autumn. As an emerging property of the model, we found strong non-linear
 responses of swan usage to changes in water level, with a sudden drop in
 peak numbers as well as bird-days with a 0.20 m rise above the current
 target water level. Such strong non-linear responses are probably common
 and should be taken into account in environmental impact assessments.
description: MorphLMswansArchive(1) Count data of Bewick's swans at Lauwersmeer in autumns of 2005 - 2008; (2) Tuber sampling data in Lauwersmeer in autumns of 2005 - 2008; (3) Metadata water levels in Lauwersmeer and adjacent Wadden Sea in autumns of 2005 - 2008Morph parameter files for basic scenariosBasic scenarios (i.e., with observed water levels) to model swan usage of Lauwersmeer in autumns of 2005 - 2008LMswans.zip
DOI: 10.5061/dryad.hk1ps
title: Data from: Foraging strategy predicts foraging economy in a facultative secondary nectar robber

description: In mutualistic interactions, the decision whether to cooperate or cheat
 depends on the relative costs and benefits of each strategy. In
 pollination mutualisms, secondary nectar robbing is a facultative behavior
 employed by a diverse array of nectar-feeding organisms, and is thought to
 be a form of cheating. Primary robbers create holes in floral tissue
 through which they feed on nectar, whereas secondary robbers, which often
 lack chewing mouthparts, feed on nectar through existing holes. Because
 primary robbers make nectar more readily available to secondary robbers,
 primary robbers facilitate the behaviors of secondary robbers. However,
 the net effect of facilitation on secondary robber fitness has not been
 empirically tested: it is unknown whether the benefit secondary robbers
 receive is strong enough to overcome the cost of competing with primary
 robbers for a shared resource. We conducted foraging experiments using the
 bumble bee Bombus bifarius, which can alternatively forage ‘legitimately’
 (from the floral opening) or secondary-rob. We measured the relative
 foraging efficiencies (handling time per flower, flowers visited per
 minute, proportion of foraging bout spent consuming nectar) of these
 alternative behaviors, and tested whether the frequency of primary robbing
 and nectar standing crop in primary-robbed flowers of Linaria vulgaris
 (Plantaginaceae) affected foraging efficiency. Surprisingly, there was no
 effect of primary robbing frequency on the foraging efficiency of
 secondary-robbing B. bifarius. Instead, foraging strategy was a major
 predictor of foraging efficiency, with legitimate foraging being
 significantly more efficient than secondary robbing. Legitimate foraging
 was the more common strategy used by B. bifarius in our study; however, it
 is rarely used by B. bifarius foraging on L. vulgaris in nature, despite
 indications that it is more efficient. Our results suggest the need for
 deeper investigations into why bees adopt secondary robbing as a foraging
 strategy, specifically, the environmental contexts that promote the
 behavior.
description: 2017_Richman_Oikos_DryadData and metadata, including description of variable names, for all analyses described in this paper.
DOI: 10.5061/dryad.b4mr5
title: Data from: Natural selection in a post-glacial range expansion: the case of the colour cline in the European barn owl

description: Gradients of variation – or clines – have always intrigued biologists.
 Classically, they have been interpreted as the outcomes of antagonistic
 interactions between selection and gene flow. Alternatively, clines may
 also establish neutrally with isolation-by-distance or secondary contact
 between previously isolated populations. The relative importance of
 natural selection and these two neutral processes in the establishment of
 clinal variation can be tested by comparing genetic differentiation at
 neutral genetic markers and at the studied trait. A third neutral process,
 surfing of a newly arisen mutation during the colonisation of a new
 habitat, is more difficult to test. Here, we designed a spatially-explicit
 ABC simulation framework to evaluate whether the strong cline in the
 genetically-based reddish coloration observed in the European barn owl
 (Tyto alba) arose as a by-product of a range expansion or whether
 selection has to be invoked to explain this colour cline, for which we
 have previously ruled out the actions of isolation-by-distance or
 secondary contact. Using ABC simulations and genetic data on 390
 individuals from 20 locations genotyped at 22 microsatellites loci, we
 first determined how barn owls colonized Europe after the last glaciation.
 Using these results in new simulations on the evolution of the colour
 phenotype, and assuming various genetic architectures for the colour
 trait, we demonstrate that the observed colour cline cannot be due to the
 surfing of a neutral mutation. Taking advantage of spatially explicit ABC,
 which proved to be a powerful method to disentangle the respective roles
 of selection and drift in range expansions, we conclude that the formation
 of the colour cline observed in the barn owl must be due to natural
 selection.
description: BarnOwlABC_Antoniazza_2014
DOI: 10.5061/dryad.4ht08
title: Data from: Hydrologically contrasting environments induce genetic but not phenotypic differentiation in Solanum dulcamara

description: In contrasting habitats, locally adapted populations are expected to
 evolve through directional selection. Hydrological gradients provide a
 scenario where strong selection forces have led to species segregation in
 communities along the hydrological niche axes due to specific adaptations
 to their ambient environment. However, much less is known about the
 processes enabling species with wide ecological amplitudes, such as
 Solanum dulcamara L., to occupy the contrasting niches at the far ends of
 the gradient. Here, we investigate the question whether local adaptation
 is indeed the driving mechanism enabling this species to inhabit
 contrasting wet and dry habitats. Using molecular analyses and performing
 a common garden experiment, we examined whether genetic and phenotypic
 differentiation had occurred between populations originating from
 flooding- and drought-prone habitat pairs from nine different locations.
 We also tested whether plants were better adapted to their home site
 stress. We found a significant genetic variation but hardly any phenotypic
 differentiation between populations from contrasting habitats for plants
 grown under optimal conditions. Surprisingly, comparison of the genetic
 differentiation in neutral markers with that in phenotypic traits using
 the QST-FST (estimated by ФPT) approach revealed that the QST values were
 consistently and significantly smaller than the ФPT values. This is in
 contrast to the hypothesis that directional selection is an important
 component enabling S. dulcamara to survive under contrasting habitat
 conditions. In addition, no home site effects were detected for responses
 to flooding and drought treatments. All plants were characterized by high
 levels of plasticity for traits associated with flooding and drought
 tolerance, such as rapid adventitious root formation upon flooding and
 increased root to shoot ratio in response to drought, irrespective of
 habitat of origin. Moreover, no trade-offs in such flooding and drought
 responses were found. Synthesis. Our results show that S. dulcamara has
 not evolved locally adapted populations in response to flooding and
 drought stress, despite genetic differentiation and despite the presumably
 strong selection gradient. The generally high levels of adaptive
 plasticity in traits increasing flooding and drought tolerance may be the
 main mechanism allowing S. dulcamara to occupy hydrologically contrasting
 habitats.
description: AFLP and Phenotypic data
 for Zhang et altwo sheets: 1) AFLP data
 with 95 markers derived from samples of 20-24 individual plants from each
 of nine population pairs. 2) phenotypic data collected from 9 individual
 plants from the same nine population pairs after three weeks of
 experiment.data.xlsx
DOI: 10.5061/dryad.vs6md76
title: Data from: Unbalanced biparental care during colony foundation in two subterranean termites

description: Parental care is a major component of reproduction in social organisms,
 particularly during the foundation steps. Because investment into parental
 care is often costly, each parent is predicted to maximize its fitness by
 providing less care than its partner. However, this sexual conflict is
 expected to be low in species with lifelong monogamy, because the fitness
 of each parent is typically tied to the other’s input. Somewhat
 surprisingly, the outcomes of this tug-of-war between maternal and
 paternal investments have received important attention in vertebrate
 species, but remain less known in invertebrates. In this study, we
 investigated how queens and kings share their investment into parental
 care and other social interactions during colony foundation in two
 termites with lifelong monogamy: the invasive species Reticulitermes
 flavipes and the native species R. grassei. Behaviors of royal pairs were
 recorded during six months using a non-invasive approach. Our results
 showed that queens and kings exhibit unbalanced investment in terms of
 grooming, antennation, trophallaxis and vibration behavior. Moreover, both
 parents show behavioral differences towards their partner or their
 descendants. Our results also revealed differences among species, with R.
 flavipes exhibiting shorter periods of grooming and antennation towards
 eggs or partners. They also did more stomodeal trophallaxis and less
 vibration behavior. Overall, this study emphasizes that despite lifelong
 monogamy, the two parents are not equally involved in the measured forms
 of parental care and suggests that kings might be specialized in other
 tasks. It also indicates that males could play a central, yet poorly
 studied role in the evolution and maintenance of the eusocial
 organization.
description: Brossette et al -
 Parental care - dataset - 26-11-18 -
 DOI10.1002-ece3.4710Dataset of Brossette et
 al - DOI: 10.1002/ece3.4710
DOI: 10.5061/dryad.t9m6c
title: Data from: Proto-cooperation: group hunting sailfish improve hunting success by alternating attacks on grouping prey

description: We present evidence of a novel form of group hunting. Individual sailfish
 (Istiophorus platypterus) alternate attacks with other group members on
 their schooling prey (Sardinella aurita). While only 24% of attacks result
 in prey capture, multiple prey are injured in 95% of attacks, resulting in
 an increase of injured fish in the school with the number of attacks. How
 quickly prey are captured is positively correlated with the level of
 injury of the school, suggesting that hunters can benefit from other
 conspecifics' attacks on the prey. To explore this, we built a
 mathematical model capturing the dynamics of the hunt. We show that group
 hunting provides major efficiency gains (prey caught per unit time) for
 individuals in groups of up to 70 members. We also demonstrate that a free
 riding strategy, where some individuals wait until the prey are
 sufficiently injured before attacking, is only beneficial if the cost of
 attacking is high, and only then when waiting times are short. Our
 findings provide evidence that cooperative benefits can be realized
 through the facilitative effects of individuals' hunting actions
 without spatial coordination of attacks. Such ‘proto-cooperation’ may be
 the pre-cursor to more complex group-hunting strategies.
description: Empirical Data set for
 all recorded variablesEmpirical data set for
 school sizes, proportion of the school injured, capture success rate,
 approach frames, injuries on individual fish, number of attacks and
 captures, and whether scales were removed during attacks or not. Data are
 labelled accordingly.Data.xlsx
DOI: 10.15468/dl.x6hmbu
title: Occurrence Download

description: A dataset containing 2570 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Continent is Antarctica",
 "Geometry POLYGON((-29.8975 -89.56415,206.20288 -89.56415,206.20288 -66.98064,-29.8975 -66.98064,-29.8975 -89.56415))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Bryophyta"
 ]
}

 The dataset includes 2570 records from 38 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000696-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.9rv260r
title: Data from: Comprehensive MicroRNAome analysis of the relationship between Alzheimer disease and cancer in PSEN double-knockout mice

description: Purpose: Presenilins are functionally important components of γ-secretase,
 which cleaves a number of transmembrane proteins. Manipulations of PSEN1
 and PSEN2 have been separately studied in Alzheimer disease (AD) and
 cancer because both involve substrates of γ-secretase. However, numerous
 clinical studies have reported an inverse correlation between AD and
 cancer. Interestingly, AD is a neurodegenerative disorder, whereas cancer
 is characterized by the proliferation of malignant cells. However, this
 inverse correlation in the PSEN double-knockout (PSEN dKO) mouse model of
 AD has been not elucidated, although doing so would shed light onto the
 relationship between AD and cancer. Methods: To investigate the inverse
 relationship of AD and cancer under conditions of PSEN loss, we used the
 hippocampus of 7-month-old and 18-month-old PSEN dKO mice for a microRNA
 (miRNA) microarray analysis, and explored the tumorsuppressive or
 oncogenic role of differentially-expressed miRNAs. Results: The total
 number of miRNAs that showed changes in expression level was greater at 18
 months of age than at 7 months. Most of the putative target genes of the
 differentially-expressed miRNAs involved Cancer pathways. Conclusions:
 Based on literature reviews, many of the miRNAs involved in Cancer
 pathways were found to be known tumorsuppressive miRNAs, and their target
 genes were known or putative oncogenes. In conclusion, the expression
 levels of known tumor-suppressive miRNAs increased at 7 and 18 months, in
 the PSEN dKO mouse model of AD, supporting the negative correlation
 between AD and cancer.
description: miRNA microarray within
 hippocampus region of PSEN12 double knockout miceThe wild type and PSEN
 dKO mice were sacrificed at the ages of 7 and 18 months. The complete
 mouse brain structure was removed and immediately prepared on dry ice. The
 hippocampus was dissected and stored at −80°C until RNA isolation. Total
 RNA was isolated using the Trizol reagent. MiRNA expression profiling was
 performed using Affymetrix Gene Chip miRNA 4.0 arrays (Affymetrix, Santa
 Clara, CA, USA) containing 4500 mouse mature miRNAs in the
 miRBase.miRNA microarray of PSEN12
 double knockout mice hippocampus.xlsx
DOI: 10.5061/dryad.340p0
title: Data from: Ontogenetic responses of four plant species to additive and interactive effects of land-use history, canopy structure and herbivory

description: The strength of interactions among species is often highly variable in
 space and time, and a major challenge in understanding context-dependent
 effects of herbivores lies in disentangling habitat-mediated from
 herbivore-mediated effects on plant performance. We conducted a
 landscape-scale experiment that manipulated light availability in
 woodlands with either a history of agricultural use or no history of
 agricultural use and coupled this with performance measurements of three
 life stages on four perennial herbaceous species exposed to varying levels
 of herbivory. We found that the context-dependent effects of herbivory on
 plant performance changed as plants grew: juvenile plant survival was
 reduced by herbivores in low-light habitats whereas biomass of adult
 plants was reduced by a more diverse insect fauna in high-light
 environments. A history of agricultural land use also had negative effects
 on seedling establishment and adult performance, independent of herbivory.
 Synthesis. This work experimentally separates the habitat-mediated effects
 on plant performance from the herbivore-mediated effects on plant
 performance and highlights how context-dependent interactions depend on
 plant ontogenetic stages.
description: Hahn_JEcol_seedling_DATAData from the seed addition experiment. All data were collected in the field by the authors.Hahn_JEcol_survival_DATAData on plant survival after the first year of the experiment. All data were collected in the field by the authors.Hahn_JEcol_flowering_DATAData on flowering for the plants after the second year of the experiment. All data were collected in the field by the authors.Hahn_JEcol_biomass_DATAData for biomass at the end of the experiment. All data were collected in the field by the authors.Hahn_JEcol_herbivory_DATAData on herbivore damage to the plants at three survey periods throughout the experiment. All data were collected in the field by the authors.
DOI: 10.5061/dryad.s85j284
title: Data from: Blood meal-induced inhibition of vector-borne disease by transgenic microbiota

description: Vector-borne diseases account for a substantial portion of the global
 disease burden; one of the deadliest of these is malaria. Common vector
 control strategies have been hindered by mosquito and pathogen
 resistances, and population alteration approaches using transgenic
 mosquitos still have many hurdles to overcome before they can be
 implemented in the field. Here we report a paratransgenic control strategy
 in which the microbiota of the malaria vector mosquito Anopheles stephensi
 was engineered to produce an antiplasmodial effector causing the mosquito
 to become refractory to Plasmodium berghei. The midgut symbiont Asaia was
 used to conditionally express the antiplasmodial effector protein scorpine
 only when a blood meal was present. These blood meal inducible Asaia
 strains significantly inhibit pathogen infection, and display improved
 fitness compared to strains that constitutively express the antiplasmodial
 effector. This strategy may allow the antiplasmodial bacterial strains to
 survive and be transmitted through mosquito populations, creating an
 easily implemented and enduring vector control strategy.
description: Shane_et_al_Blood_Meal_Induced_Promoters_from_AsaiaThis data package includes the files needed to reproduce the quantitative analyses of the following paper:Shane, JL., Grogan, CL., Cwalina, C., and David J. Lampe: Blood meal-induced inhibition of vector-borne disease by transgenic microbiotacode_and_raw_data.zip