cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.6m905qfwr
title: Data from: Experimental amelioration of harsh weather speeds growth and development in a tropical montane songbird

description: Organisms living at high elevations generally grow and develop slower than
 those at lower elevations. Slow montane ontogeny is thought to be an
 evolved adaptation to harsh environments that improve juvenile quality via
 physiological tradeoffs. However, slower montane ontogeny may also reflect
 proximate influences of harsh weather on parental care and offspring
 development. We experimentally heated and protected nests from rain to
 ameliorate harsh montane weather conditions for Mountain Blackeyes
 (Chlorocharis emiliae), a montane songbird living at ca. 3200 m asl in
 Malaysian Borneo. This experiment was designed to test if cold and wet
 montane conditions contribute to parental care and post-natal growth and
 development rates at high elevations. We found that parents increased
 provisioning and reduced time spent warming offspring, which grew faster
 and departed the nest earlier compared to unmanipulated nests. Earlier
 departure reduces time-dependent predation risk, benefitting parents and
 offspring. These plastic responses highlight the importance of proximate
 weather contributions to broad patterns of montane ontogeny and parental
 care.
description: See readme file.
DOI: 10.5061/dryad.3ffbg79fb
title: Comparative genomic analysis reveals cellulase plays an important role in the pathogenicity of Setosphaeria turcica f. sp. Zeae

description: Setosphaeria turcica f. sp. sorghi and S. turcica f. sp. zeae, the two
 formae speciales of S. turcica, cause northern leaf blight disease of
 sorghum and corn, respectively, and often cause serious economic losses.
 They show obvious host specialization and have a close evolutionary
 relationship. Genomic sequencing can provide more information for
 understanding the virulence mechanisms of pathogens. However, the complete
 genomic sequence of S. turcica f. sp. sorghi has not yet been reported,
 and no comparative genomic information is available for the two formae
 speciales. In this study, based on the analysis of genomic structure,
 there were more protein-coding genes in S. turcica f. sp. sorghi than S.
 turcica f. sp. zeae, showing positive selection in the evolution of S.
 turcica. The results of genomic functional analysis showed that the two
 formae speciales had a large number of identical protein-coding genes,
 while there were also specific protein families, including metabolic
 pathway proteins, transport proteins, CAZys, pathogen and host interaction
 proteins. We also investigated the expression of specific effector-coding
 genes in S. turcica f. sp. zeae, and found that the endo-1,
 4-β-D-glucanase coding gene CEL2, an important component of cellulase, was
 significantly up-regulated during the interaction process. Finally,
 gluconolactone inhibited cellulase activity and decreased infection rate
 and pathogenicity, which indicates that cellulase is essential for
 maintaining virulence. These findings demonstrate that cellulase plays an
 important role in the pathogenicity of S. turcica f. sp. zeae.
DOI: 10.15468/dl.dujpg6
title: Occurrence Download

description: A dataset containing 18 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Hemerocoetes monopterygius",
 "HasCoordinate is true",
 "DecimalLatitude is greater than -90",
 "DecimalLatitude is less than 90",
 "DecimalLongitude is greater than -180",
 "OccurrenceStatus is Present",
 "Year is greater than or equal to 2015"
 ]
}

 The dataset includes 18 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002257-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.44j0zpc9s
title: Temporally consistent species differences in parasite infection but no evidence for rapid parasite-mediated speciation in Lake Victoria cichlid fish

description: Parasites may have strong eco-evolutionary interactions with their hosts.
 Consequently, they may contribute to host diversification. The radiation
 of cichlid fish in Lake Victoria provides a good model to study the role
 of parasites in the early stages of speciation. We investigated patterns
 of macroparasite infection in a community of 17 sympatric cichlids from a
 recent radiation and 2 older species from 2 non-radiating lineages, to
 explore the opportunity for parasite-mediated speciation. Host species had
 different parasite infection profiles, which were only partially explained
 by ecological factors (diet, water depth). This may indicate that
 differences in infection are not simply the result of differences in
 exposure, but that hosts evolved species-specific resistance, consistent
 with parasite-mediated divergent selection. Infection was similar between
 sampling years, indicating that the direction of parasite-mediated
 selection is stable through time. We morphologically identified 6
 Cichlidogyrus species, a gill parasite that is considered a good candidate
 for driving parasite-mediated speciation, because it is host
 species-specific and has radiated elsewhere in Africa. Species composition
 of Cichlidogyrus infection was similar among the most closely related host
 species (members of the Lake Victoria radiation), but two more distantly
 related species (belonging to non-radiating sister lineages) showed
 distinct infection profiles. This is inconsistent with a role for
 Cichlidogyrus in the early stages of divergence. To conclude, we find
 significant interspecific variation in parasite infection profiles, which
 is temporally consistent. We found no evidence that Cichlidogyrus-mediated
 selection contributes to the early stages of speciation. Instead, our
 findings indicate that species differences in infection accumulate after
 speciation.
description: Parasite data: Parasite taxa (not
 considering the diversity of <em>Cichlidogyrus</em>) infecting
 cichlid species (belonging to the radiation lineage and to the older
 <em>Astatoreochromis alluaudi</em> lineage that did not
 speciate) at Makobe Island in southern Lake Victoria.
 For temporal consistency analysis, we also used ectoparasite data
 from Karvonen et al. 2018
 (https://doi.org/10.5061/dryad.93n2t24).
 <strong>Cichlidogyrus data:</strong>
 Morphospecies of <em>Cichlidogyrus</em> infecting
 cichlid species (form three lineages) at three locations in southern Lake
 Victoria. Since species of <em>Cichlidogyrus </em>were new to
 science at the moment of publication, they were provisionally named with
 roman numbers. Missing values: monogenean specimens impossible to identify
 with certitude.
DOI: 10.5061/dryad.bnzs7h46z
title: Larger bacterial populations evolve heavier fitness trade-offs and undergo greater ecological specialization

description: Evolutionary studies over the last several decades have invoked fitness
 trade-offs to explain why species prefer some environments to others.
 However, the effects of population size on trade-offs and ecological
 specialization remain largely unknown. To complicate matters, trade-offs
 themselves have been visualized in multiple ways in the literature. Thus,
 it is not clear how population size can affect the various aspects of
 trade-offs. To address these issues, we conducted experimental evolution
 with Escherichia coli populations of two different sizes in two
 nutritionally limited environments and studied fitness trade-offs from
 three different perspectives. We found that larger populations evolved
 greater fitness trade-offs, regardless of how trade-offs are
 conceptualized. Moreover, although larger populations adapted more to
 their selection conditions, they also became more maladapted to other
 environments, ultimately paying heavier costs of adaptation. To enhance
 the generalizability of our results, we further investigated the evolution
 of ecological specialization across six different environmental pairs and
 found that larger populations specialized more frequently and evolved
 consistently steeper reaction norms of fitness. This is the first study to
 demonstrate a relationship between population size and fitness trade-offs
 and the results are important in understanding the population genetics of
 ecological specialization and vulnerability to environmental changes.
description: The data represents fitness (measured as maximum growth rates)
 of  4 treatments with 6 replicate <em>E.coli</em> populations
 in each. The four treatments are: GL: Evolved in
 Galactose at large population size. GS:  Evolved in
 Galactose at small population size. TL: Evolved in
 Thymidine at large population size. TS:  Evolved in
 Thymidine at small population size. These 24
 populations were assayed in Galactose (G), Maltose (M), Sorbitol (S) and
 Thymidine (T) after scaling with the corresponding Ancestral growth values
 (given on a separate sheet in the same .xlsx file). All the figures in
 the paper are derivable from this data.
DOI: 10.5061/dryad.547d7wm53
title: Increased sperm production linked to competition in the maternal social environment

description: Maternal or early life effects may prepare offspring for similar social
 conditions to those experienced by their mothers. For males, the ability
 to achieve mating and fertilisation success is a key social challenge.
 Competitive conditions may therefore favour increased body size or
 ejaculate production in male offspring. We tested this experimentally by
 comparing reproductive traits of adult male bank voles (Myodes glareolus),
 whose mothers had experienced contrasting encounter regimes with female
 conspecifics while breeding. We found that daily sperm production rates
 and epididymis mass were significantly higher when dams had experienced
 more frequent encounters with female conspecifics. This response to
 maternal and early life experience was specific to sperm production and
 storage, with no evidence for effects on male body mass or the size of
 testes and accessory reproductive glands. Our findings reveal a
 potentially adaptive effect of maternal and early-life experience on the
 development of sperm production, which is worthy of wider investigation.
DOI: 10.5061/dryad.j6q573n9h
title: Data from: Common gray and white matter abnormalities in schizophrenia and bipolar disorder

description: This study aimed to investigate abnormalities in the gray matter and white
 matter (GM and WM, respectively) that are shared between schizophrenia
 (SZ) and bipolar disorder (BD). We used 3T-magnetic resonance imaging to
 examine patients with SZ, BD, or healthy control (HC) subjects (aged 20-50
 years, N = 65 in each group). We generated modulated GM maps through
 voxel-based morphometry (VBM) for T1-weighted images and skeletonized
 fractional anisotropy, mean diffusion, and radial diffusivity maps through
 tract-based special statistics (TBSS) methods for diffusion tensor imaging
 (DTI) data. These data were analyzed using a generalized linear model with
 pairwise comparisons between groups with a family-wise error corrected P
 &lt; 0.017. The VBM analysis revealed widespread decreases in GM
 volume in SZ compared to HC, but patients with BD showed GM volume
 deficits limited to the right thalamus and left insular lobe. The TBSS
 analysis showed alterations of DTI parameters in widespread WM tracts both
 in SZ and BD patients compared to HC. The two disorders had WM alterations
 in the corpus callosum, superior longitudinal fasciculus, internal
 capsule, external capsule, posterior thalamic radiation, and fornix.
 However, we observed no differences in GM volume or WM integrity between
 SZ and BD. The study results suggest that GM volume deficits in the
 thalamus and insular lobe along with widespread disruptions of WM
 integrity might be the common neural mechanisms underlying the pathologies
 of SZ and BD.
DOI: 10.5061/dryad.p5hqbzkm8
title: Dietary carotenoid supplementation facilitates egg laying in a wild passerine

description: During egg laying, females face a trade-off between self-maintenance and
 investment into current reproduction, since providing eggs with resources
 is energetically demanding, in particular if females lay one egg per day.
 However, the costs of egg laying not only relate to energetic
 requirements, but also depend on the availability of specific resources
 that are vital for egg production and embryonic development. One of these
 compounds are carotenoids, pigments with immuno-stimulatory properties,
 which are crucial during embryonic development. In this study, we explore
 how carotenoid availability alleviates this trade-off and facilitates egg
 laying in a small bird species, the blue tit (Cyanistes caeruleus). Blue
 tits have among the largest clutch size of all European passerines and
 they usually lay one egg per day, although laying interruptions are
 frequent. We performed a lutein supplementation experiment, and measured
 potential consequences for egg laying capacity and egg quality. We found
 that lutein-supplemented females had less laying interruptions and thus
 completed their clutch faster than control females. No effects of
 treatment were found on the onset of egg laying or clutch size.
 Experimentally enhanced carotenoid availability did not elevate yolk
 carotenoid levels or egg mass, but negatively affected eggshell thickness.
 Our results provide hence evidence on the limiting role of carotenoids
 during egg laying. However, the benefits of laying faster following lutein
 supplementation were counterbalanced by a lower accumulation of calcium in
 the eggshell. Thus, even though single components may constrain egg
 laying, it is the combined availability of a range of different resources
 which ultimately determines egg quality and thus embryonic development.
DOI: 10.5061/dryad.612jm640j
title: Data from: Reduced dispersal at non-expanding range margins: a matter of dispersers' identity

description: The evolution of dispersal at range margins received much attention
 recently; especially in the context of dynamic range shifts, such as those
 following climate change. However, much less attention has been devoted to
 study variation in and selection on dispersal at non-expanding range
 margins, where populations are often small and isolated, and empirical
 test is dearly missing. To fill this gap, we tested whether dispersal of
 an ant-dispersed perennial plant (Sternbergia clusiana), is quantitatively
 and/or qualitatively reduced toward a non-expanding range margin. We
 evaluated plant investment in dispersal structures (elaiosome), seed
 removal rates, and the relative abundance, activity and behavior of low-
 and high-quality seed dispersing ants in six sites ranging from mesic
 Mediterranean site (&gt;600 mm of annual rainfall) to arid site
 (&lt;100 mm of annual rainfall), which marks the southern range margin
 of the species. In a set of cafeteria and baiting experiments, we found
 that overall seed removal rates, the contribution of high-quality
 dispersers, maximum dispersal distance and dispersal-conducive ant
 behavior decreased towards range margins. These findings agree with a
 lower investment in reward by range margin plant populations, as reflected
 by lower elaiosome/seed ratio, but not by variation in the reward
 chemistry. More than variation in traits controlled by the plants, the
 variation in ant-seed interactions could be attributed to reduced presence
 and activity of the more efficient seed-dispersing ants in the marginal
 populations.  Specifically, we found a mismatch between local
 distribution of potentially effective seed dispersers, and that of the
 plant, even though those dispersers were observed in the study site.
 Interestingly, although the observed variation in the outcome of ant-seed
 interactions supported the prediction of reduced dispersal at
 non-expanding range margins with small and isolated populations, the
 underlying mechanisms seems to be incidental difference in the
 seed-dispersing ant community rather than a plant-mediated response to
 selection
description: The data was collected in
 field experiments and lab analyses. It was analyzed using R and
 SPSS
DOI: 10.15468/dl.twcpt4
title: Occurrence Download

description: A dataset containing 197 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Alistilus jumellei",
 "HasCoordinate is true",
 "BasisOfRecord is one of (Specimen)"
 ]
}

 The dataset includes 197 records from 8 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002258-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.83bk3j9nm
title: Data from: Bird diversity and endemism along a land-use gradient in Madagascar: the conservation value of vanilla agroforests

description: Land-use change is the most important driver of biodiversity loss
 worldwide and particularly so in the tropics, where natural habitats are
 transformed into large-scale monocultures or heterogeneous landscape
 mosaics of largely unknown conservation value. Using birds as an indicator
 taxon, we evaluated the conservation value of a landscape mosaic in
 north-eastern Madagascar, a biodiversity hotspot and the center of global
 vanilla production. We assessed bird species richness and composition by
 conducting point counts across seven prevalent land-use types (forest- and
 fallow-derived vanilla agroforests, woody and herbaceous fallow that are
 part of a shifting cultivation system, rice paddy, forest fragment and
 contiguous old-growth forest). We find that old-growth forest had the
 highest species richness, driven by a high share of endemics. Species
 richness and community composition in forest-derived vanilla agroforest
 was similar to forest fragment, whereas fallow-derived vanilla agroforest
 was most comparable to woody fallow. The open land-use types herbaceous
 fallow and rice paddy had fewest species. Across forest fragment, vanilla
 agroforests and woody fallow, endemic bird species richness was positively
 correlated to landscape-scale forest cover. We conclude that both fallow-
 and forest-derived vanilla agroforests play an important but contrasting
 role for bird conservation in the landscape: Fallow-derived agroforests
 are less valuable but take fallow land out of the shifting cultivation
 cycle, possibly preventing further degradation. Conversely, forest-derived
 agroforests contribute to forest degradation but may avoid total loss of
 forest fragments. Considering the land-use history of agroforests may thus
 be a promising avenue for future research beyond the case of vanilla.
description: 1) Species-by-plot matrix from pointcounts
 across seven land-use types in north-eastern Madgascar (80 plots in
 total) 2) Plot
 characteristics (location, elevation, basal area, number of large trees,
 canopy cover, landscape-scale forest cover) Methods are described in the
 paper: Martin, D. A.,
 Andriafanomezantsoa, R., Dröge, S., Osen, K., Rakotomalala, E., Wurz, A.,
 Andrianarimisa, A., & Kreft, H. (n.d.). Bird diversity and
 endemism along a land-use gradient in Madagascar: the conservation value
 of vanilla agroforests. <i>Biotropica</i>.
description: No missing data in species-by-plot matrix. All plots have the
 same sampling effort (2 x 40min). Plot characteristics
 dataset has missing values for basal area of two plots.
DOI: 10.5061/dryad.4qrfj6q6w
title: Data from: Puma energetics: laboratory oxygen consumption and GPS information from free-ranging individuals

description: Abstract Background Under current scenarios of climate change and habitat
 loss, many wild animals, especially large predators, are moving into novel
 energetically challenging environments. Consequently, changes in terrain
 associated with such moves may heighten energetic costs and effect the
 decline of populations in new localities. Methods To examine locomotor
 costs of a carnivorous mammal moving in mountainous habitats, the oxygen
 consumption of captive pumas (Puma concolor) was measured during treadmill
 locomotion on level and incline (6.8ᵒ) surfaces. These data were used to
 predict energetic costs of locomotor behaviours of free-ranging pumas
 equipped with GPS/accelerometer collars in California’s Santa Cruz
 Mountains. Results Incline walking resulted in a 42.0%±7.2 SEM increase in
 transport costs compared to level performance. Wild pumas modified their
 locomotor behaviour in response to terrain steepness by traversing the
 mean hillside incline of 17.2ᵒ±0.3 SEM and choosing shallower paths of
 7.3ᵒ±0.1 SEM. Pumas also walked more slowly up steeper paths, thereby
 minimizing the energetic impact of vertical terrains. Estimated daily
 energy expenditure of (DEE) based on GPS-derived speeds of free-ranging
 pumas was 18.3 MJ day-1 ±0.2 SEM. Calculations show that a 20ᵒ increase in
 mean terrain steepness would increase DEE by &lt;1% as pumas spent a
 small (10%) proportion of their day travelling and avoided elevated costs
 by utilizing slower speeds and shallower paths. Conclusions While many
 factors influence survival in novel habitats, we illustrate the importance
 of behaviours which reduce locomotor costs when traversing new,
 energetically challenging environments, and demonstrate that these
 behaviours are utilised by pumas in the wild.
DOI: 10.5061/dryad.z612jm68g
title: Milk production and environmental conditions of mountain-pastured Braunvieh cows between 2000 and 2015

description: This dataset is a subset of the dataset used in the associated
 article, linking environmental data to milk records of
 mountain-pastured cows between 2000 and 2015. In particular
 it contains information on the cow and lactation cycle (lactation
 number, date of calving, date of first record in the alp, average quantity
 of milk over 3 milk records taken in the alp) and environmental condition
 (temperature humidity index, cold stress index, averaged over 3 and 30
 days before the milk records and precipitation during spring).
 This dataset does not allow the reproducibility of the associated article
 but enables the analysis of conjoint milk data and associated
 environmental conditions. It should be noted that the publication of the
 full dataset was not possible.
description: Two datasource have been used  1) Milk
 records: taken from the milk record database of the Braunvieh-CH breeding
 association. The milk records follows ICAR-Guidelines and uses methods A4
 and AT4 2) Environmental data: temperature and rainfall
 come from meteoswiss Grid-Data products database. Temperature was further
 refined using the altitude of the alp. Further, daily average wind speed
 and relative humidity were obtained from weather stations and were
 interpolated. Temperature Humidity index and Cold Stress index were
 calculated according to "Quantifying the effect of thermal
 environment on production traits in three breeds of dairy cattle in New
 Zealand", Bryant et al. (2007).  More information
 on this dataset in the associated publication.
  
description: This dataset has been extracted from the milk record database of
 the Braunvieh-CH breeding organisation. Please mention it in any
 publication that would arise from the analysis of this dataset.