cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.8pk0p2np2
title: Cloud-resolving modelling data from Fedorov et al. (2019)

description: Here we investigate tropical cyclogenesis in warm climates, focusing on
 the effect of reduced equator-to-pole temperature gradient relevant to
 past equable climates and, potentially, to future climate change. Using a
 cloud-system resolving model that explicitly represents moist convection,
 we conduct idealized experiments on a zonally periodic equatorial β-plane
 stretching from nearly pole-to-pole and covering roughly one-fifth of
 Earth’s circumference. To improve the representation of tropical
 cyclogenesis and mean climate at a horizontal resolution that would
 otherwise be too coarse for a cloud-system resolving model
 (15 km), we use the hypohydrostatic rescaling of the equations of
 motion, also called reduced acceleration in the vertical. The simulations
 simultaneously represent the Hadley circulation and the intertropical
 convergence zone, baroclinic waves in mid-latitudes, and a realistic
 distribution of tropical cyclones (TCs), all without use of a convective
 parameterization. Using this model, we study the dependence of TCs on the
 meridional sea surface temperature gradient. When this gradient is
 significantly reduced, we find a substantial increase in the number of
 TCs, including a several-fold increase in the strongest storms of
 Saffir–Simpson categories 4 and 5. This increase occurs as the
 mid-latitudes become a new active region of TC formation and growth. When
 the climate warms we also see convergence between the physical properties
 and genesis locations of tropical and warm-core extra-tropical cyclones.
 While end-members of these types of storms remain very distinct, a large
 distribution of cyclones forming in the subtropics and mid-latitudes share
 properties of the two.
DOI: 10.5061/dryad.p2ngf1vrf
title: Data from: Population structure of lake whitefish (Coregonus clupeaformis) from the Mississippian lineage in North America

description: The lake whitefish (Coregonus clupeaformis) is a commercially valuable
 freshwater species with a broad distribution in North America. Some
 phylogeographic work has been done on this species, but little is known
 about genetic population subdivision among populations of the
 widely-dispersed Mississippian lineage. We used 3,173 SNPs in 508 lake
 whitefish from 22 different lakes to examine population structure across
 central Canada and the USA. Bayesian clustering, ordination, and fixation
 indices identified population subdivision that largely reflected
 geographic distance and hydrological connectivity, with greater
 differentiation between lakes that are farther apart. Population
 subdivision was hierarchical, with greater differentiation between
 Canadian provinces and less differentiation based on river basins within
 provincial boundaries. Interestingly, isolation by distance alone was not
 sufficient to account for all of the observed genetic differentiation
 among populations. We conclude that important components of lake whitefish
 genetic diversity are present at different spatial scales, and that
 populations within the Mississippian lineage have differentiated widely
 across their range.
description: # Data from: Population structure of lake whitefish (Coregonus
 clupeaformis) from the Mississippian lineage in North America Dataset DOI:
 [10.5061/dryad.p2ngf1vrf](10.5061/dryad.p2ngf1vrf) ## Description of the
 data and file structure Adult lake whitefish were collected from 22 lakes
 across central Canada from Saskatchewan to Ontario, and from several sites
 in the United States from Lakes Michigan and Huron. Fish were primarily
 collected through government agencies, commercial fishermen, and fish
 processing plants. Either dorsal muscle tissue or a fin clip was collected
 and stored in lysis buffer (4.0M urea/0.2M NaCl/0.1M Tris–HCl, pH 8.0/0.5%
 n-laurylsarcosine/0.1 M 1,2-cyclo-hexanediamine) for genetic analyses ###
 Files and variables #### File: m3M3n3r70-NoPops.vcf **Description:** vcf
 file generated after running TRIMMOMATIC, FASTQC and STACKS. The file
 includes 508 individuals sequenced at 3173 SNPs. The following STACKS
 parameters were used in the generation of this vcf file: m = 3, M = 3, n =
 3, r = 70 and a population map with no specified populations. These
 parameters were optimized using rules from Paris et al. (2017). #### File:
 popmap-LocalAdaptation-Lakes-NoRep.txt **Description:** strata file
 indicating location where each individual was sampled from. Lake Huron
 LH; Lake Michigan LM; Lake Superior LS; Burt Lake BL; Jean Lake
 JL; Saganaga Lake SaL; Schistose Lake ScL; Lake Winnipeg LW; Setting Lake
 SeL; Churchill South Indian Lake SIL; Granville Lake GL; Reindeer Lake
 RL; Mackay Lake McL; Nemieben Lake NeL; Nunn Lake NL; Lac La Ronge
 LR; Keeley Lake KL; Dore Lake DL; Waterhen Lake WL; Lake Diefenbaker
 LD; Last Mountain Lake LML
DOI: 10.5061/dryad.63xsj3v3c
title: Data from: Nature versus nurture: Structural equation modeling indicates that parental care does not mitigate consequences of poor environmental conditions in Eastern bluebirds (Sialia sialis)

description: 1. How organisms respond to variation in environmental conditions and
 whether behavioral responses can mitigate negative consequences on growth,
 condition and other fitness measures are critical to our ability to
 conserve populations in changing environments. Offspring development is
 affected by environmental conditions and parental care behavior. When
 adverse environmental conditions are present, parents may alter behaviors
 to mitigate the impacts of poor environmental conditions on offspring. 2.
 We determined if parental behavior (provisioning rates, attentiveness,
 nest temperature) varied in relation to environmental conditions (e.g.,
 food availability, ectoparasites) and if parental behavior mitigated
 negative consequences of the environment on their offspring in Eastern
 bluebirds (Sialia sialis). 3. We found that offspring on territories with
 lower food availability had higher hematocrit, and when bird blow flies
 (Protocalliphora spp.) were present growth rates were reduced. Parents
 increased provisioning and nest attendance in response to increased food
 availability but did not alter behavior in response to parasitism by blow
 flies. While parents altered behavior in response to resource
 availability, parents were unable to override the direct effects of
 negative environmental conditions on offspring growth and hematocrit. 4.
 Our work highlights the importance of the environment on offspring
 development and suggests that parents may not be able to sufficiently
 alter behavior to ameliorate challenging environmental conditions.
description: Data were collected on Eastern
 Bluebirds at nest boxes from four study sites in Athens County, Ohio,
 USA.
description: There are missing values in the data indicated by n/a. See readme
 file for variable descriptions.
DOI: 10.5061/dryad.2v6wwpzp9
title: Paleozoic origins of cheilostome bryozoans and their parental care inferred by a new genome-skimmed phylogeny

description: Phylogenetic relationships and the timing of evolutionary events are
 essential for understanding evolution on longer time scales. Cheilostome
 bryozoans are a group of ubiquitous, species-rich, marine colonial
 organisms with an excellent fossil record but lack phylogenetic
 relationships inferred from molecular data. We present genome-skimmed data
 for 395 cheilostomes and combine these with 315 published sequences to
 infer relationships and the timing of key events among c. 500 cheilostome
 species. We find that named cheilostome genera and species are
 phylogenetically coherent, rendering fossil or contemporary specimens
 readily delimited using only skeletal morphology. Our phylogeny shows that
 parental care in the form of brooding evolved several times independently
 but was never lost in cheilostomes. Our fossil calibration, robust to
 varied assumptions, indicates that the cheilostome lineage and parental
 care therein could have Paleozoic origins, much older than the first known
 fossil record of cheilostomes in the Late Jurassic.
DOI: 10.5061/dryad.hdr7sqvjr
title: Spatiotemporal dynamics of PIEZO1 localization controls keratinocyte migration during wound healing

description: Keratinocytes, the predominant cell type of the epidermis, migrate to
 reinstate the epithelial barrier during wound healing. Mechanical cues are
 known to regulate keratinocyte re-epithelization and wound healing
 however, the underlying molecular transducers and biophysical mechanisms
 remain elusive. Here, we show through molecular, cellular and organismal
 studies that the mechanically-activated ion channel PIEZO1 regulates
 keratinocyte migration and wound healing. Epidermal-specific Piezo1
 knockout mice exhibited faster wound closure while gain-of-function mice
 displayed slower wound closure compared to littermate controls. By imaging
 the spatiotemporal localization dynamics of endogenous PIEZO1 channels we
 find that channel enrichment at some regions of the wound edge induces a
 localized cellular retraction that slows keratinocyte collective
 migration. In migrating single keratinocytes, PIEZO1 is enriched at the
 rear of the cell, where maximal retraction occurs, and we find that
 chemical activation of PIEZO1 enhances retraction during single as well as
 collective migration. Our findings uncover novel molecular mechanisms
 underlying single and collective keratinocyte migration that may suggest a
 potential pharmacological target for wound treatment. More broadly, we
 show that nanoscale spatiotemporal dynamics of Piezo1 channels can control
 tissue-scale events, a finding with implications beyond wound healing to
 processes as diverse as development, homeostasis, disease and repair.
description: <b>Figure_5C_source_data.xlsx:</b> <b>Figure 5-Source Data 1. PIEZO1 activity promotes cellular retraction and increases edge velocity.  </b> (<i>Sheet 1</i>) X,Y coordinates to create representative overlays of cell boundary outlines in Figure 5C detected and segmented from DIC time-lapse series of DMSO-treated Control<sub>cKO</sub>, 4 µM Yoda1-treated Control<sub>cKO</sub>, DMSO-treated <i>Piezo1-</i>cKO, Control<sub>GoF</sub> and <i>Piezo1-</i>GoF keratinocytes.  <strong>Figure_5D_source_data.csv:</strong> <b>Figure 5-Source Data 2. PIEZO1 activity promotes cellular retraction and increases edge velocity. </b> (<i>Sheet 1</i>) Data used to create violin plots in Figure 5D showing the instantaneous protrusion (positive) and retraction (negative) velocities at each position of the segmented cell edges for each frame of time-lapse series videos.
DOI: 10.5061/dryad.sn02v6x4r
title: Forest spider data to study the response of assemblages to regional and local processes

description: Understanding species richness variation among local communities is one of
 the central topics in ecology, but the complex interplay of regional
 processes, environmental filtering and local processes hampers
 generalization on the importance of different processes. Here, we aim
 to  unravel drivers of spider community assembly in temperate
 forests by analyzing two independent data sets covering gradients in
 elevation and forest succession. We test the following four hypotheses:
 (H1) Spider assemblages within a region are limited by dispersal; (H2)
 Local environment has a disproportionate influence on species composition;
 and (H3) resources and (H4) biotic interactions both affect species
 richness patterns. Spider data were collected by pitfall traps in two
 independent projects within a region along elevation and canopy cover
 gradients.
description: Spiders were collected by pitfall traps. Morphological
 measurements were taken from literature or done by the authors.
DOI: 10.5061/dryad.nvx0k6dt8
title: Data from: Variation in seasonal timing traits and life history along a latitudinal transect in Mimulus ringens

description: Seasonal timing traits are commonly under recurrent, spatially-variable
 selection, and are therefore predicted to exhibit clinal variation.
 Temperate perennial plants often require vernalization to prompt growth
 and reproduction; however, little is known about whether vernalization
 requirements change across the range of a broadly distributed species. We
 performed a critical vernalization duration study in Mimulus ringens,
 coupled with population genomic analysis. Plants from 8 populations
 spanning the latitudinal range were exposed to varying durations of 4°C
 vernalization between 0-56 days, and flowering response was assessed.
 RADSeq was also performed to generate 1,179 polymorphic SNPs, which were
 used to examine population structure. We found unexpected life history
 variation, with some populations lacking vernalization requirement.
 Population genomic analyses show that these life history variants are
 highly divergent from perennials, potentially revealing a cryptic species.
 For perennial populations, minimum vernalization time was surprisingly
 consistent. However, once vernalized, northern populations flowered almost
 3 weeks faster than southern. Further, southern populations exhibited
 sensitivity to vernalization times beyond flowering competency, suggesting
 an ability to respond adaptively to different lengths of winter. M.
 ringens therefore reveals evidence of clinal variation, and provides
 opportunities for future studies addressing mechanistic and ecological
 hypotheses both within and between incipient species.
DOI: 10.5061/dryad.8pk0p2np3
title: Which peer reviewers voluntarily reveal their identity to authors? Insights into the consequences of open-identities peer review

description: Identifying reviewers is argued to improve quality and fairness of peer
 review, but is generally disfavored by reviewers. To gain some insight
 into the factors that influence when reviewers are willing to have their
 identity revealed, I examine which reviewers voluntarily reveal their
 identities to authors at the journal Functional Ecology, at which reviewer
 identities are confidential unless reviewers sign their comments to
 authors. 5.6% of reviewers signed their comments to authors. This
 proportion increased slightly over time, from 4.4% in 2003-2005 to 6.7% in
 2013-2015. Male reviewers were 1.8 times more likely to sign their
 comments to authors than were female reviewers, and this difference
 persisted over time. Few reviewers signed all of their reviews; reviewers
 were more likely to sign their reviews when their rating of the manuscript
 was more positive, and papers that had at least one signed review were
 more likely to be invited for revision. Signed reviews were, on average,
 longer and recommended more references to authors. My analyses cannot
 distinguish cause-and-effect for the patterns observed, but my results
 suggest that “open identities” review, in which reviewers are not
 permitted to be anonymous, will likely reduce the degree to which
 reviewers are critical in their assessment of manuscripts and will
 differentially affect recruitment of male and female reviewers, negatively
 affecting the diversity of reviewers recruited by journals.
DOI: 10.5061/dryad.8sf7m0cpg
title: Stratigraphic column of the Xiazhen Formation with the 18 stromatoporoid-bearing intervals

description: A diverse labechiid stromatoporoid assemblage that includes 16 species in
 8 genera was found in the Upper Ordovician Xiazhen Formation (mid-late
 Katian) at Zhuzhai, Jiangxi Province of South China. The assemblage is
 characterized by a combination of: a) North China provincial species
 succeeding from their origination in the Darriwilian, including
 Pseudostylodictyon poshanense Ozaki, 1938, Labechia shanhsiensis Yabe and
 Sugiyama, 1930, Lb. variabilis Yabe and Sugiyama, 1930 and Labechiella
 regularis (Yabe and Sugiyama, 1930), and b) South China endemic species,
 including three new species (Lb. zhuzhainus Jeon sp. nov., Lblla. beluatus
 Jeon sp. nov., Sinabeatricea luteolus Jeon gen. et sp. nov.), and four
 species in open nomenclature (Rosenella sp., Cystostroma sp.,
 Pseudostylodictyon sp. and Labechia sp.). The finding of Lblla.
 gondwanense Jeon sp. nov., Stylostroma bubsense Webby, 1991, Sty.
 ugbrookense Webby, 1991 and Thamnobeatricea gouldi Webby, 1991 in the
 formation indicates that Tasmania was closely related to South China, and
 had a closer paleobiogeographical relation with peri-Gondwanan terranes
 than Laurentia. In addition, the occurrences of Labechia altunensis Dong
 and Wang, 1984 and Stylostroma species support a close biogeographic link
 between Tarim and South China through the Middle to Late Ordovician
 interval, corresponding with the results from other fossil groups such as
 brachiopods, conodonts and chitinozoans. The diverse labechiids from the
 Xiazhen Formation improve our understanding of the diversity of Ordovician
 stromatoporoids in peri-Gondwanan terranes and the biogeographic
 affinities among Australia (especially Tasmania rather than central New
 South Wales), Tarim and South China.
DOI: 10.5061/dryad.ghx3ffbpx
title: Seed rain and soil seed banks in Chinese fir plantations and an adjacent natural forest

description: The natural regeneration of native broadleaved species underneath forest
 monoculture plantations is important to recover ecosystem functions and to
 mitigate adverse environmental effects. To understand how seed rain and
 soil seed banks facilitate natural regeneration, we surveyed their density
 and composition in a monoculture Chinese fir plantation, a mixed Chinese
 fir–broadleaf plantation, and an adjacent natural broadleaved forest for
 two years in southern China. Twenty-eight species (16 families) were in
 seed rain, and 45 species (27 families) were in soil seed banks. Seed rain
 density did not differ significantly across stands; however, the number of
 taxa in seed rain was highest in the mixed plantation and lowest in the
 natural forest. Seed bank density was significantly higher in the mixed
 plantation than in the other stands. The Sørensen similarity indices of
 species composition between seed sources and aboveground vegetation were
 relatively low (&lt;0.50). In addition, the seeds of native tree
 species common to the seed banks of the three forests indicated the
 adjacent natural forest was a seed source for the natural regeneration of
 native species in forest plantations. To augment regeneration and
 accelerate the rate of conversion, we recommend direct seeding or planting
 of desired species.
DOI: 10.15468/dl.rqqxub
title: Occurrence Download

description: A dataset containing 3766 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Byblia ilithyia"
 ]
}

 The dataset includes 3766 records from 44 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002944-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.pvmcvdnmv
title: Plant pathogen-mediated rapid acclimation of a host-specialized aphid to a non-host plant

description: ​​​​Polyphagous aphids often consist of host-specialized lineages which
 have greater fitness on their native hosts than on others. The underlying
 causes are important for understanding of the evolution of diet breadth
 and host shift of aphids. The cotton-melon aphid Aphis gossypii Glover is
 extremely polyphagous with many strict host-specialized lineages. Whether
 and how the lineage specialized on the primary host hibiscus shifts to the
 secondary host cucumber remains elusive. We found that the
 hibiscus-specialized lineage suffered high mortality and gave birth to
 very few nymphs developing into yellow dwarfs on fresh cucumber leaves,
 and did not inflict any damage symptoms on cucumber plants. The poor
 performance did not improve with prolonged exposure to cucumber; however,
 it did significantly improve when the cucumber leaves were pre-infected
 with a biotrophic phytopathogen Pseudoperonospora cubensis. More
 importantly, the hibiscus-specialized lineage with two-generation feeding
 experience on pre-infected cucumber leaves performed as well as the
 cucumber-specialized lineage did on fresh cucumber leaves, and inflicted
 typical damage symptoms on intact cucumber plants. Electrical penetration
 graph (EPG) indicated that the hibiscus-specialized lineage did not ingest
 phloem sap from fresh cucumber leaves but succeeded in ingesting phloem
 sap from pre-infected cucumber leaves, which explained the performance
 improvement of the hibiscus-specialized lineage on pre-infected cucumber
 leaves. This study revealed a new pathway for the hibiscus-specialized
 lineage to quickly acclimate to cucumber under the assistance of the
 phytopathogen. We considered that the short feeding experience on
 pre-infected cucumber may activate expression of effector genes that are
 related to specific host utilization. We suggest to identify host-specific
 effectors by comparing proteomes or/and transcriptomes of the
 hibiscus-specialized lineage before and after acclimating to cucumber.
description: This dataset includes six parts: sequencing data of a
 phytopathogen, data of aphid host specialization test, data of life table,
 data of aphid body size measurement, data of electrical penetration graph
 and photos. An eight-channel EPG device manufactured by Wageningen
 University was used to collected EPG data. The raw life table data were
 analyzed based on the age-stage, two-sex life table theory (Chi and Liu
 1985, Chi 1988), by means of the TWOSEX-MSChart software (Chi
 2013).
description: The readme file contains an explanation of each dataset.
 Information on how the measurements were done can be found in the
 associated manuscript referenced above.