cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.5qfttdz1h
title: Comparative genomics reveals divergent thermal selection in warm- and cold-tolerant marine mussels

description: Investigating the history of natural selection among closely related
 species can elucidate how genomes diverge in response to disparate
 environmental pressures. Molecular evolutionary approaches can be
 integrated with knowledge of gene functions to examine how evolutionary
 divergence may affect ecologically-relevant traits such as temperature
 tolerance and species distribution limits. Here, we integrate
 transcriptome-wide analyses of molecular evolution with knowledge from
 physiological studies to develop hypotheses regarding the functional
 classes of genes under positive selection in one of the world’s most
 widespread invasive species, the warm-tolerant marine mussel Mytilus
 galloprovincialis. Based on existing physiological information, we test
 the hypothesis that genomic functions previously linked to divergent
 temperature adaptation at the whole-organism level show accelerated
 molecular divergence between warm-adapted M. galloprovincialis and
 cold-adapted congeners. Combined results from codon model tests and
 analyses of polymorphism and divergence reveal that divergent selection
 has affected genomic functions previously associated with species-specific
 expression responses to heat stress, namely oxidative stress defense and
 cytoskeletal stabilisation. Examining specific loci implicated in thermal
 tolerance among Mytilus species (based on interspecific biochemical or
 expression patterns), we find close functional similarities between known
 thermotolerance candidate genes under positive selection and positively
 selected loci under predicted genomic functions (those associated with
 divergent expression responses). Taken together, our findings suggest a
 contribution of temperature-dependent selection in the molecular
 divergence between warm- and cold-adapted Mytilus species that is largely
 consistent with results from physiological studies. More broadly, this
 study provides an example of how independent experimental evidence from
 ecophysiological investigations can inform evolutionary hypotheses about
 molecular adaptation in closely related non-model species.
DOI: 10.7941/d1v63m
title: Simplified Green-Ampt model, imbibition-based estimates of permeability, and implications for leak-off in shale reservoirs

description: Predicting water imbibition into porous materials is important in a wide
 variety of fields, yet is often challenging because of uncertainties in
 both the permeability and capillary pressure driving force. Here, this
 uncertainty is reduced through evaluating correlations between the
 permeability and the effective capillary pressure associated with the
 wetting front, Pc,f. These correlations allow elimination of Pc,f from the
 Green and Ampt equation, and concentrates all uncertainties in fluxes on
 the effective permeability k. Over a wide range of k and n, imbibition
 scales approximately with k1/3. Although Leverett k1/4 scaling for
 predicting Pc,f is shown to be inferior when tested with data spanning a
 wide range of porosities n, it nevertheless predicted imbibition fairly
 well. From simple imbibition measurements, both the empirical and Leverett
 scaling approaches allow estimates of k that have root mean-square
 deviations of about 1 order of magnitude relative to measurements that
 ranged over 10 orders of magnitude in k.
description: These data were largely compiled from literature sources listed
 in the reference section of the Supporting Information. A few data are
 from the author's previously unpublished laboratory measurements.
 Data processing is decribed in detail in the manuscript.
DOI: 10.5061/dryad.jdfn2z379
title: The migration pattern of a monogamous shorebird challenges existing hypotheses explaining the evolution of differential migration

description: Differential migration by sex, where one sex migrates further than the
 other, occurs in many bird species. How this pattern evolves is however
 little understood. The first aim of this study was to investigate the
 extent of differential migration in the common ringed plover Charadrius
 hiaticula, breeding in southeast Sweden, and test three main hypotheses
 (the social dominance, body size and arrival time hypothesis) regarding
 the evolution of differential migration. Geolocators were used to derive
 spatiotemporal data and morphometrics were collected from the studied
 population. Males migrated 800 km farther compared to females, were
 marginally larger and there was no statistical difference in spring
 arrival between the sexes. In contrast to other studies none of the
 previously proposed hypotheses could account for the observed pattern. An
 additional finding was that both sexes arrive up to 1.5 months before egg
 laying, but males initiate territorial behaviour upon arrival. Based on
 these observations we suggest that males have a higher energetic demand,
 and challenges to meet those, early in the breeding season. Therefore we
 hypothesise that males arrive to the breeding site with residual fuel
 reserves accumulated at the wintering site to cover at least parts of
 these demands .Based on this hypothesis we present a simple model to
 explain the longer migration by males. The model is contingent on a
 trade-off between site specific fuelling rates (which we assume to
 increase with decreasing latitude), cost of the extra migration distance
 and predation risk during fuelling. This framework may be applicable to
 other cases of differential migration, especially in temperate breeding
 species which exhibit long pre-egg laying periods.
description: This data was used to compare migratory behaviour between males
 and females common ringed plover <i>Charadrisu hiaticula
 </i>breeding in Ottenby, southeast Sweden, and to test hypotheses
 regarding evolution of differential migration. Data on migratory
 behavior was collected with light level geolocators. Parameters such as
 departure and arrival days, and migration distance were derived using R
 programme GeoLight (version 2.0.1). Data on morphology (wing length, total
 head length [bill + head] and tarsus length) was collected within the
 studied population. The data were further analyzed for sex differences in
 R (version 3.3.2.)
description: S2.crp.diff.migration.csv - contains data on
 migratory behaviour and individual meta data.
 S3.crp.diff.migration.csv - contains data on morphology measured
 for the whole population.
 S4.crp.diff.migration.Rcode.txt - contains the R code for
 descriptive statistics and tests.
 README.S2_S3.crp.migration.txt - contains column annotations for
 S2 and S3.
DOI: 10.5061/dryad.547d7wm4b
title: Glucocorticoid exposure predicts survival in female baboons

description: Are differences in HPA axis activation across the adult lifespan linked to
 differences in survival? This question has been the subject of
 considerable debate. We analyze the link between survival and fecal
 glucocorticoid (GC) measures in a wild primate population, leveraging an
 unusually extensive longitudinal dataset of 14,173 GC measurements from
 242 adult female baboons over 1,634 female-years. We document a powerful
 link between GCs and survival: females with relatively high
 current GCs or high lifelong cumulative GCs face an elevated risk of
 death. A hypothetical female who maintained GCs in the top 90% for her age
 across adulthood would be expected to lose 5.4 years of life relative to a
 female who maintained GCs in the bottom 10% for her age. Hence,
 differences among individuals in HPA axis activity provide valuable
 prognostic information about disparities in lifespan.
DOI: 10.5061/dryad.cz8w9gj07
title: Spinning in the rain: interactions between spider web morphology and microhabitat use

description: Although the effects of abiotic factors on species distributions and
 habitat selection have been widely investigated, studies have rarely
 succeeded at identifying the factors behind selection at the microhabitat
 level. Spider webs are extended phenotypes expected to be subject to
 fitness trade-offs. We tested the hypothesis that spiders with
 three-dimensional webs (tangle and sheet-and-tangle), which require more
 material to be built than two-dimensional orbicular webs, occupy
 microhabitats where they are better protected from strong rains. We show
 that tangle and sheet-and-tangle webs were indeed significantly more
 likely to be under immediate cover than expected by chance and than orb
 webs. Tangle webs occurred closest to the cover and were largely
 protected, whereas sheet-and-tangle webs, likely due to their larger size
 and mostly horizontal position, tended to be more exposed. 
 Sheet-and-tangle webs, however, occurred more often against tree trunks,
 where we show rain to be less intense. We further show that the proportion
 of 3D webs under immediate cover increased with annual precipitation along
 a dry to wet gradient in western Ecuador, an effect absent for 2D webs.
 The latter finding suggests that, in addition to using leaves for
 structural support, spiders with 3D webs seek microhabitat locations to
 shelter themselves from strong rains. Our findings illustrate how
 microhabitat selection may allow organisms to cope with abiotic factors at
 broader geographical scales, thus influencing organismal fitness and
 community structure.
DOI: 10.5061/dryad.7h44j0zqr
title: Determining the efficacy of camera traps, live capture traps, and detection dogs for locating cryptic small mammal species

description: Metal box (e.g., Elliott, Sherman) traps and remote cameras are two of the
 most commonly employed methods presently used to survey terrestrial
 mammals. However, their relative efficacy at accurately detecting cryptic
 small mammals has not been adequately assessed. The present study
 therefore compared the effectiveness of metal box (Elliott) traps and
 vertically oriented, close range, white flash camera traps in detecting
 small mammals occurring in the Scenic Rim of eastern Australia. We also
 conducted a preliminary survey to determine effectiveness of a
 conservation detection dog (CDD) for identifying presence of a
 threatened carnivorous marsupial, Antechinus arktos, in
 present-day and historical locations, using camera traps to corroborate
 detections. 200 Elliott traps and 20 white flash camera traps were set for
 four deployments per method, across a site where the target small mammals,
 including A. arktos, are known to occur. Camera traps produced
 higher detection probabilities than Elliott traps for all four species.
 Thus, vertically mounted white flash cameras were preferable for detecting
 the presence of cryptic small mammals in our survey. The CDD, which had
 been trained to detect A. arktos scat, indicated in total 31 times when
 deployed in the field survey area, with subsequent camera trap deployments
 specifically corroborating A. arktos presence at 100%
 (3) indication locations. Importantly, the dog indicated twice within
 Border Ranges National Park, where historical (1980s-1990s) specimen-based
 records indicate the species was present, but extensive Elliott and camera
 trapping over the last 5-10 years have resulted in zero A.
 arktos captures. Camera traps subsequently
 corroborated A. arktos presence at these sites. This
 demonstrates that detection dogs can be a highly effective means of
 locating threatened, cryptic species, especially when traditional methods
 are unable to detect low-density mammal populations.
DOI: 10.5061/dryad.b5mkkwh8k
title: The spatiotemporal evolution and influencing factors of hotel industry in the metropolitan area: an empirical study based on China

description: Through the online booking platform, 10,543 big data of spatial and
 temporal distribution of Beijing hotel industry has been obtained in this
 paper. Then, the methods of GIS and the geographical detector are used to
 study the spatiotemporal evolution process and the influencing factors of
 Beijing hotel industry during 2003-2018. The results are as follows:
 a. During the period of 2003-2018, the hotel industry in Beijing
 maintained a high growth rate and had three growth peaks in 2008, 2010 and
 2014. Meanwhile, major historical events, such as the Olympic Games had a
 significant influence on the development of the hotel industry.
 b. Between 2003 and 2018, the hotel industry in Beijing gradually
 developed from the centripetal agglomeration to aggregation + diffusion,
 and also from the single center to the multi-center. Besides, various
 hotels presented two characteristics of city orientation and scenic
 orientation. c. The natural geographical environment had shaped
 the overall pattern and characteristics of the spatial distribution of the
 hotel industry in Beijing, and the socio-economic factors such as
 commercial activities, public facilities, tourism services and traffic
 conditions significantly influenced the location selection of the hotel
 industry. Therefore, the urban center is the ideal area for the spatial
 layout of the hotel industry. d. Geographical detector research
 showed that the factors, such as administrative organs, road network
 density, leisure and recreational facilities, and companies have strong
 explanatory power for hotel location selection, which is an important
 reference index for hotels to select the micro location. This paper is a
 beneficial supplement to the existing research and has certain guiding
 significance for the sustainable development of Beijing hotel industry.
DOI: 10.5061/dryad.59zw3r23p
title: Radio-tracking reveals insight into survival and dynamic habitat selection of fledgling Cerulean Warblers

description: The Cerulean Warbler is a declining Nearctic-Neotropical migrant species
 of concern that breeds in hardwood forests of the eastern United States
 and Canada. While much knowledge has been gained about the nesting period
 of this canopy species, little is known about the post-fledging period.
 During the 2014 and 2015 breeding seasons, after locating and monitoring
 nests within a matrix of habitat conditions created by various forest
 management strategies in NW Pennsylvania, USA, we captured fledglings and
 used radio telemetry to estimate survival, track movements, and examine
 habitat selection during their dependent stage. Mortality occurred in
 10 of 20 fledglings (50%) during this period, with 8
 deaths occurring within three days post-fledging. Most birds left the
 parental territory within a week of fledging and the maximum distance
 moved from the nest after 5 d was 462 m; after 14 d it was 1.3 km; and
 after 24 d it was, somewhat unexpectedly, 4.4 km. Fledglings used a
 diversity of habitat and management types, including clear-cut patches,
 25-yr-old regenerating clear-cuts, shelterwood cuts, and mature
 undisturbed forest. Over the entire tracking period (up to 35 d),
 fledglings selected for habitats with greater midstory cover, lower basal
 area, and lesser sapling cover (when compared with paired, random
 locations). However, lesser sapling cover may also be correlated with
 decreased survival for birds that come down from the canopy immediately
 upon fledging. Our results suggest that a diversity of management types,
 including some quite different from those that produce habitat typically
 selected by adults, and maintaining large blocks of contiguous forest
 would benefit fledgling Cerulean Warblers.
DOI: 10.5061/dryad.j6q573n8v
title: Data from: Influence of environmental factors on the genetic variation of the aquatic macrophyte Ranunculus subrigidus on the Qinghai-Tibetan Plateau

description: Background: Due to the environmental heterogeneity along elevation
 gradients, alpine ecosystems are ideal study objects for investigating how
 ecological variables shape the genetic patterns of natural species. The
 highest region in the world, the Qinghai-Tibetan Plateau, is a hotspot for
 the studies of evolutionary processes in plants. Many large rivers spring
 from the plateau, providing abundant habitats for aquatic and amphibious
 organisms. In the present study, we examined the genetic diversity of 13
 Ranunculus subrigidus populations distributed throughout the plateau in
 order to elucidate the relative contribution of geographic distance and
 environmental dissimilarity to the spatial genetic pattern. Results: A
 relatively low level of genetic diversity within populations was found. No
 spatial genetic structure was suggested by the analyses of molecular
 variance, Bayesian clustering analysis and Mantel tests. Partial Mantel
 tests and multiple matrix regression analysis showed a significant
 influence of the environment on the genetic divergence of the species.
 Both climatic and water quality variables contribute to the habitat
 heterogeneity of R. subrigidus populations. Conclusions: Our results
 suggest that historical processes involving long-distance dispersal and
 local adaptation may account for the genetic patterns of R. subrigidus and
 current environmental factors play an important role in the genetic
 differentiation and local adaptation of aquatic plants in alpine
 landscapes.
DOI: 10.5061/dryad.zkh189368
title: Data from: Biogeography and anthropogenic impact shape the success of invasive wasps on New Zealand’s offshore islands

description: Aim The theory of island biogeography predicts that the susceptibility of
 an island to invasion is determined by its isolation and size. However,
 many island ecosystems have been intensely modified by humans. Here, we
 investigated the biogeographic, biotic and anthropogenic drivers of
 invasive social wasps on 36 offshore islands. Location Islands off the
 east coast of New Zealand’s North Island. Taxa Vespula germanica
 (Fabricius, 1793), Vespula vulgaris (Linnaeus, 1758) and Polistes
 chinensis antennalis (Fabricius, 1793), Polistes humilis (Fabricius,
 1781). Methods We used GIS software for in situ randomisation of plots on
 each island (36 islands, 409 plots) and conducted 5-minute wasp counts to
 estimate wasp abundance. Wasp abundance and canopy cover were recorded at
 each plot. Island isolation was measured using GIS software. Data on
 island size, human settlement and the presence of introduced rats (Rattus
 spp.) were collated from the literature and island managers. The number of
 boat docks per island was counted from satellite images. A generalised
 linear mixed effect model (GLMM) was fitted to identify drivers of Vespula
 and Polistes abundance on offshore islands. Results The abundance of
 Vespula was negatively correlated with island isolation and canopy cover,
 yet positively correlated with island size. Vespula were also more
 abundant on islands that have been settled by humans. The abundance of
 Polistes was negatively correlated with canopy cover. Finally, results did
 not support the notion that invasive wasps were associated with introduced
 rats on New Zealand’s offshore islands. Conclusions Our findings highlight
 the importance of biogeographic factors, such as island size and
 isolation, for species invasions, and suggest that intact forest cover
 could contribute to biotic resistance to invasive wasps in island
 ecosystems. Studies of invasive species should consider the joint effects
 of biogeographic, biotic and anthropogenic factors to best inform
 conservation management.ealand’s North Island.
DOI: 10.5061/dryad.6wwpzgmtm
title: Non-negligible contribution of subordinates in community-level litter decomposition: deciduous trees in an evergreen world

description: 1. Subordinates have relatively low abundance compared to dominants, but
 they may contribute substantially to functional diversity and ecosystem
 functions, especially if they differ strongly from the dominants in key
 traits. Here we investigated whether this phenomenon can be applied to
 litter decomposition as a key carbon and nutrient cycling process. 2. We
 hypothesized that species’ litter mass-weighted predictions of
 community-level litter decomposition based on the rates of dominants only
 would deviate strongly from observed community-level rates and that
 predictions would improve as subordinates with strongly contrasting traits
 were combined with those of the dominants. 3. We tested this hypothesis
 through a one-year field decomposition experiment across a chronological
 sequence in subtropical evergreen broad-leaved forest. The experiment
 included single-species litter of evergreen dominants, evergreen
 subordinates, deciduous subordinates, respectively, as well as
 community-level litter mixtures. 4. The expected community weighted mean
 decomposition rates based on the evergreen dominants alone, with or
 without the addition of evergreen subordinates, deviated strongly from
 those of observed community litter mixture at the middle and late
 succession stages but not at the early stage. When adding the deciduous
 subordinates to the expectation, there was no longer any difference to
 observed community litter decomposition rate across succession stages.
 Deciduous subordinates alone explained 7%, 21% and 15% of the total
 variation in community litter mixture decomposition rate for early, middle
 and late successional stage, respectively, i.e., more than would be
 expected from their litter mass fraction. 5. Synthesis. Deciduous
 subordinates with strongly contrasting nutritional and water-storing
 traits compared to the dominant evergreens significantly impact litter
 decomposition at the community-level in spite of their low abundance. This
 study highlights the importance of “being different” for subordinates to
 be influential in ecosystem carbon cycling.
description: Litter bag method, in situ decomposition.
DOI: 10.5061/dryad.p8cz8w9kp
title: Genomic evidence of introgression and adaptation in a model subtropical tree species, Eucalyptus grandis

description: The genetic consequences of adaptation to changing environments can be
 deciphered using landscape genomics, which may help predict species’
 responses to global climate change. Towards this, we used genome-wide SNP
 marker analysis to determine population structure and patterns of genetic
 differentiation in terms of neutral and adaptive genetic variation in the
 natural range of Eucalyptus grandis, a widely cultivated subtropical and
 temperate species, serving as genomic reference for the genus. We analysed
 introgression patterns at subchromosomal resolution using a modified
 ancestry mapping approach and identified provenances with extensive
 interspecific introgression, suggesting early hybrid speciation in
 response to increased aridity. Furthermore, we describe potentially
 adaptive genetic variation as explained by environment-associated SNP
 markers, which also led to the discovery of a large structural variant.
 Finally, we show that genes linked to these markers are enriched for
 biotic and abiotic stress responses.
description: Seed collected from 193 wild-growing <em>Eucalyptus
 grandis</em> trees were germinated and leaves were collected for DNA
 isolation and SNP genotyping using the EUChip60K SNP chip. Genotyping was
 done by the genomics service provider, GeneSeek, in Lincoln, NE. A total
 of 596 individuals were genotyped. Genotype calls were optimised by
 reclustering the SNPs according to published standards (see Silva-Junior
 <em>et al</em>., 2015. A flexible multi-species genome-wide
 60K SNP chip developed from pooled resequencing of 240
 <em>Eucalyptus </em>tree genomes across 12 species).
 Furthermore, technical replicates and SNPs with no unique map position on
 the <em>E. grandis </em>reference genome v.2 were
 removed. This data resource is a .csv file with 596
 individuals in rows and metadata, environmental data and SNPs (for 57,567
 markers)<strong> </strong>in columns. Metadata columns include
 source loacation/provenance ("Location"), family ID
 ("FAMILY_ID"), provenance ID ("PROV_ID"),
 "Subpopulation", "Region", and whether or not a sample
 was included in the balanced sample set where no family is represented by
 more than two half-siblings
 ("Balanced_sample_set_n362").
description: Missing data is encoded as "NA".