cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.66t1g1k3q
title: Intermittent ERK oscillations downstream of FGF in mouse embryonic stem cells

description: Signal transduction networks generate characteristic dynamic activities to
 process extracellular signals and guide cell fate decisions such as to
 divide or differentiate. The differentiation of pluripotent cells is
 controlled by FGF/ERK signaling. However, only a few studies have
 addressed the dynamic activity of the FGF/ERK signaling network in
 pluripotent cells at high time resolution. Here, we use live cell sensors
 in wild-type and Fgf4-mutant mouse embryonic stem cells to measure dynamic
 ERK activity in single cells, for defined ligand concentrations and
 differentiation states. These sensors reveal pulses of ERK activity.
 Pulsing patterns are heterogeneous between individual cells. Consecutive
 pulse sequences occur more frequently than expected from simple stochastic
 models. Sequences become more prevalent with higher ligand concentration,
 but are rarer in more differentiated cells. Our results suggest that
 FGF/ERK signaling operates in the vicinity of a transition point between
 oscillatory and non-oscillatory dynamics in embryonic stem cells. The
 resulting heterogeneous dynamic signaling activities add a new dimension
 to cellular heterogeneity that may be linked to divergent fate decisions
 in stem cell cultures.
description: <strong>Live cell
 imaging</strong> ERK-KTR expressing cells were
 cultured on ibidi µ-slides, and imaged on a Leica SP8 confocal microscope
 equipped with an incubation chamber and CO<sub>2</sub> supply
 to maintain temperature at 37°C, CO<sub>2</sub> at 5%, and
 relative humidity at 80%. 4 h before acquisition, live-cell nuclear dye
 SiR-Hoechst 652/674 (Spirochrome) was added to facilitate tracking of
 cells. SiR-Hoechst was added at a final concentration of 500 nM for
 short-term time-lapse experiments, and 250nM for long-term time-lapse
 experiments. Fluorophores were excited with a 504nm line from a
 white-light laser (Leica), and images of the KTR-Clover and the nuclear
 marker were simultaneously captured through a 63x 1.4 N.A. oil objective.
 For short-term (&lt;4 h) imaging experiments, single frames were
 acquired once every 20 s, with an XY resolution of 0.251 µm, with a pixel
 dwell time of 2.6 μs, and a pinhole of 2.4 airy units. For long term (~19
 h) imaging experiments, to minimize overall light exposure single frames
 were acquired once every 105 s, with an XY resolution of 0.401 µm, with a
 pixel dwell time of 3.1 μs, and a pinhole of 2.6 airy units.
DOI: 10.15468/dl.55ftwz
title: Occurrence Download

description: A dataset containing 2389 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Chrysopa pallens"
 ]
}

 The dataset includes 2389 records from 128 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003046-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.mgqnk991n
title: Data for Sentis et al. Short-term thermal acclimation modulates predator functional response

description: Data from the study Short-term thermal acclimation modulates
 predator functional response by Arnaud Sentis, Lukas Veselý,
 Marek Let, Martin Musil, Viktoriia Malinovska and Antonín Kouba.
 The data represent the number of prey eaten for different initial prey
 densities, temperatures and acclimation times.
DOI: 10.5061/dryad.6wwpzgn1f
title: Dataset: Cool birds: First evidence of energy-saving nocturnal torpor in free-living common swifts Apus apus resting in their nests

description: Daily torpor is a means of saving energy by controlled lowering of the
 metabolic rate (MR) during resting, usually coupled with a decrease in
 body temperature. We studied nocturnal daily torpor under natural
 conditions in free-living common swifts Apus apus resting in their nests
 as a family using two non-invasive approaches. First, we monitored nest
 temperature (Tnest) in up to 50 occupied nests per breeding season in
 2010-2015. Drops in Tnest were the first indication of torpor. Among
 16,673 observations, we detected 423 events of substantial drops in Tnest
 of on average 8.6°C. Second, we measured MR of the families inside nest
 boxes prepared for calorimetric measurements during cold periods in the
 breeding seasons of 2017 and 2018. We measured oxygen consumption and
 carbon dioxide production using a mobile indirect respirometer and
 calculated the percentage reduction in MR. During six torpor events
 observed, MR was gradually reduced by on average 56% from the reference
 value followed by a decrease in Tnest of on average 7.6 °C. In contrast,
 MR only decreased by about 33% on nights without torpor. Our field data
 gave an indication of daily torpor, which is used as a strategy for energy
 saving in free-living common swifts.
DOI: 10.5061/dryad.612jm6451
title: Does scent attractiveness reveal women’s ovulatory timing? Evidence from signal detection analyses and endocrine predictors of odor attractiveness

description: Odor cues associated with shifts in ovarian hormones indicate ovulatory
 timing in females of many nonhuman species. Although prior evidence
 supports women’s body odors smelling more attractive on days when
 conception is possible, that research has left ambiguous how diagnostic of
 ovulatory timing odor cues are, as well as whether shifts in odor
 attractiveness are correlated with shifts in ovarian hormones. Here, 46
 women each provided 6 overnight scent and corresponding day saliva samples
 spaced 5 days apart, and completed luteinizing hormone tests to determine
 ovulatory timing. Scent samples collected near ovulation were rated more
 attractive, on average, relative to samples from the same women collected
 on other days. Importantly, however, signal detection analyses showed that
 rater discrimination of fertile window timing from odor attractiveness
 ratings was very poor. Within-women shifts in salivary estradiol and
 progesterone were not significantly associated with within-women shifts in
 odor attractiveness. Between-women, mean estradiol was positively
 associated with mean odor attractiveness. Our findings suggest that raters
 cannot reliably detect women’s ovulatory timing from their scent
 attractiveness. The between-women effect of estradiol raises the
 possibility that women’s scents provide information about overall cycle
 fecundity, though further research is necessary to rigorously investigate
 this possibility.
DOI: 10.5061/dryad.1jwstqjws
title: ESM of determination of transdermal rate of metallic microneedle array through impedance measurements-based numerical check screening algorithm

description: Microneedle systems have been widely used in health monitoring, painless
 drug delivery, and medical cosmetology. Although many studies on
 microneedle materials, structures, and applications have been conducted,
 the applications of microneedles often suffered from issues of
 inconsistent penetration rates due to the complication of skin-microneedle
 interface. In this study, we demonstrated a methodology of determination
 of transdermal rate of metallic microneedle array through impedance
 measurements-based numerical check screening algorithm. Metallic sheet
 microneedle array sensors with different sizes were fabricated to evaluate
 different transdermal rates. In vitro sensing of hydrogen peroxide
 confirmed the effect of transdermal rate on the sensing outcomes. A FEM
 simulation model of a microneedle array revealed the monotonous relation
 between the transdermal state and test current. Accordingly, two methods
 were first derived to calculate the transdermal rate from the test
 current. First, an exact logic method provided the number of unpenetrated
 tips per sheet, but it required more rigorous testing results. Second, a
 fuzzy logic method provided an approximate transdermal rate on adjacent
 areas, being more applicable and robust to errors. Real-time transdermal
 rate estimation may be essential for improving the performance of
 microneedle systems, and this study provides various fundaments toward
 that goal.
DOI: 10.5061/dryad.c866t1g8n
title: Re-assessment of the climatic controls on the carbon and water fluxes of a boreal aspen forest over 1996-2016: changing sensitivity to long-term climatic conditions

description: Recent evidence suggests that the relationships between climate and boreal
 tree growth are generally non-stationary; however, it remains uncertain
 whether the relationships between climate and carbon (C) fluxes of boreal
 forests are stationary or have changed over recent decades. In this study,
 we used continuous eddy-covariance and microclimate data over 21 years
 (1996-2016) from a 100-year-old trembling aspen stand in central
 Saskatchewan, Canada to assess the relationships between climate and
 ecosystem C and water fluxes. Over the study period, the most striking
 climatic event was a severe, 3-year drought (2001-2003). Gross ecosystem
 production (GEP) showed larger interannual variability than ecosystem
 respiration (Re) over 1996-2016, but Re was the dominant component
 contributing to the interannual variation in net ecosystem production
 (NEP) during post-drought years. The inter-annual variations in
 evapotranspiration (ET) and C fluxes were primarily driven by temperature
 and secondarily by water availability. Two-factor linear models combining
 precipitation and temperature performed well in explaining the
 inter-annual variation in C and water fluxes (R2&gt;0.5). The
 temperature dependence of all three C fluxes (NEP, GEP and Re) declined
 over 1996-2015 (p&lt;0.05), and as a result, the phenological controls
 on annual NEP weakened. The decreasing temperature sensitivity of the C
 fluxes over 1996-2015 may reflect changes in forest structure, related to
 the over-maturity of the aspen stand at 100-years of age and exacerbated
 by high tree mortality following the severe 2001-2003 drought. These
 results may provide an early warning signal of driver shift or even an
 abrupt status shift of aspen forest dynamics. They may also imply a
 universal weakening in the relationship between temperature and GEP as
 forests become over-mature, associated with the structural and
 compositional changes that accompany forest ageing.
DOI: 10.5061/dryad.05qfttf4k
title: Phenotype evaluation rawdata of Acinetobacter baumannii harboring chromosomal parallel mutations or an evolved plasmid

description: OXA-23 is the predominant carbapenemase in carbapenem-resistant
 Acinetobacter baumannnii. The co-evolutionary dynamics of A. baumannii and
 OXA-23-encoding plasmids are poorly understood. Here, we transformed A.
 baumannnii ATCC 17978 with pAZJ221, a blaOXA-23-containing plasmid from a
 clinical A. baumannnii isolate A221, and subjected the transformant to
 experimental evolution in the presence of a sub-inhibitory concentration
 of imipenem for nearly 400 generations. We used population sequencing to
 track genetic changes at six time-points and evaluated phenotypic changes.
 Increased fitness of evolving populations, temporary duplication of
 blaOXA-23 in pAZJ221, interfering allele dynamics, and chromosomal
 locus-level parallelism were observed. To characterize
 genotype-to-phenotype associations, we focused on six mutations in
 parallel targets predicted to affect small RNAs and a cyclic dimeric
 (3’→5’) GMP-metabolizing protein. Six isogenic mutants with or without
 pAZJ221 were engineered to test for the causal effects of these mutations
 on fitness costs and plasmid kinetics, the evolved plasmid containing two
 copies of blaOXA-23 was transferred to ancestral ATCC 17978. Five of the
 six mutations contributed to improved fitness in the presence of pAZJ221
 under imipenem pressure, and all but one of them impaired plasmid
 conjugation ability. The duplication of blaOXA-23 contributed to host
 fitness under carbapenem pressure but imposed a burden on the host in
 antibiotic-free media relative to the unevolved pAZJ221. Overall, our
 study provides a framework for the co-evolution of A. baumannii and a
 clinical blaOXA-23-containing plasmid, involving early blaOXA-23
 duplication followed by chromosomal adaptations.
DOI: 10.5061/dryad.2v6wwpzq7
title: Antheridiogen controls spatial dynamics of sex‐expression in naturally occurring gametophytes of the tree fern Cyathea multiflora

description: Background and aims: Antheridiogen systems are an important and widespread
 mechanism by which sex expression is controlled and genetic diversity
 maintained in fern gametophyte populations. However, antheridiogens have
 rarely been studied outside of the laboratory and little is known about
 their function in natural populations. Combining predictions based on
 field and laboratory study, we document the sexual structure of tree fern
 gametophyte populations and test the effects of antheridiogen in
 situ.  Key results: In all populations, sex ratios indirectly
 indicate antheridiogen activity. No hermaphroditic gametophytes were
 identified in any population. Female gametophytes are randomly distributed
 in each population while male gametophytes tend to cluster. In two of the
 populations, male sex expression is spatially dependent on females,
 providing direct evidence of antheridiogen function in situ. Conclusions:
 This study provides the first documentation of spatial sex expression in
 natural gametophyte populations of an antheridiogen-producing tree fern
 species. The profound impact of antheridiogen on gametophyte sex
 expression in field settings suggests this system is intimately tied to
 mating systems, fitness, and genetic diversity in Cyathea multiflora.
description: Gametophyte populations of the antheridiogen-producing tree fern
 species Cyathea multiflora were collected at La Selva Biological Station
 in Costa Rica in January 2019. The sex of each gametophyte was determined,
 mapped, and spatial statistic approaches were used to examine the
 distribution of sex in each population.
DOI: 10.5061/dryad.v15dv41xg
title: Morphological characteristics of pollen from triploid watermelon and its fate on stigmas in a hybrid crop production system

description: Hybrid crop production is more reliant on pollinators compared to
 open-pollinated crops because they require cross-pollination between a
 male-fertile and a male-sterile line. Little is known about how stigma
 receipt of pollen from male-sterile genotypes affects reproduction in
 hybrids. Non-viable and non-compatible pollen cannot fertilise plant
 ovules, but may still interfere with pollination success. Here we used
 seedless watermelon (Citrullus lanatus (Thunb.) Matsum. & Nakai)
 as a model hybrid plant, to evaluate the morphology, physiology, and
 movement of pollen from inter-planted genotypes (diploids and triploids).
 We found that pollen from triploids (‘Exclamation’ and ‘Royal Armada’) and
 diploids (‘SP-6’, ‘Summer Flavor 800’, and ‘Tiger’) was visually
 distinguishable. Pollen in triploids had more deformities (42.4–46%),
 tetrads (43–44%), and abnormal growth of callose plugs in pollen tubes.
 The amount of pollen in triploids to germinate on stigmas was low (8 ±
 3%), and few pollen grains produced pollen tubes (6.5 ± 2%). Still,
 contrary to previous reports our results suggest that some viable pollen
 grains are produced by triploid watermelons. However, whilst honey bees
 can collect and deposit pollen from triploids onto stigmas, its effect on
 hybrid watermelon reproduction is likely to be minimal due to its low
 germination rate.
DOI: 10.5061/dryad.pg4f4qrrp
title: Larval yellow perch locations during locomotion assays after exposure to MeHg and PCB126

description: Fish swimming behavior is a commonly measured response in aquatic
 ecotoxicology because behavior is considered a whole organism-level effect
 that integrates many sensory systems. Recent advancements in animal
 behavior models, such as hidden Markov chain models (HMM), suggest an
 improved analytical approach for toxicology. Using both new and
 traditional approaches, we examined the sublethal effects of PCB126 and
 methylmercury on yellow perch (YP) larvae (Perca flavescens) using three
 doses. Both approaches indicate larvae increase activity after exposure to
 either chemical. The middle methylmercury-dosed larvae showed multiple
 altered behavior patterns. First, larvae had a general increase in
 activity, typically performing more behavior states, more time swimming,
 and more swimming bouts per second. Second, when larvae were in a slow or
 medium swimming state, these larvae tended to switch between these states
 more often. Third, larvae swam slower during the swimming bouts. The upper
 PCB126-dosed larvae exhibited a higher proportion and a fast swimming
 state, but the total time spent swimming fast decreased. The middle
 PCB126-dosed larvae transitioned from fast to slow swimming states less
 often than the control larvae. These results indicate that developmental
 exposure to very low doses of these neurotoxicants alters YP larvae
 overall swimming behaviors, suggesting neurodevelopment alteration.
description: As described in the journal article, this data was generated by
 Ctrax tracking software using videos of fish free swimming in petri
 dishes.  All tracking errors have been corrected in this data and distance
 and turning angles have been calculated using the movement criteria stated
 in the manuscript.  This data is the data used to conduct the Hidden
 Markov Chain models and calculate average individual fish behavior
 endpoints.
DOI: 10.5061/dryad.bzkh189bj
title: Data for: Tolerance of high temperature and associated effects on reproduction in euedaphic Collembola

description: Tropical and mid-latitude terrestrial ectotherms are more vulnerable to
 global warming than species from high latitudes. However, thermal
 tolerance studies from these regions still lack soil
 invertebrates. We chose six euedaphic species of Collembola (of
 the genera Onychiurus and Protaphorura) sampled across latitudes ranging
 from 31°N to 64°N and first determined their upper thermal limit (UTL) by
 static assays. Based on their upper thermal limit, we exposed them to
 temperatures 32 ℃ to 36 ℃ depending on the species for 1-2 hours, which
 was expected to result in heat-induced injuries equivalent to 5% to 30%
 mortality within each species. Survivors from this series of increasing
 heat injuries were used to determine the time to first oviposition, and
 the number of eggs produced following heat exposure. We found the upper
 thermal limit positively correlates to the soil temperature of the
 sampling site. Species have different UTL60 indicating they have different
 tolerance to high temperatures. The species order from most heat tolerance
 to least was O. yodai &gt; P. fimata &gt; P. armata ≈ P.
 tricampata &gt; P. macfadyeni &gt; P. pseudovanderdrifti. Heat
 stress inflicted on survivors can prolong the time to regain reproduction
 in all species, and two species showed reduced egg production. The most
 heat-tolerant species did not have advantages over the least heat-tolerant
 species under a sublethal heat exposure scheme (where predicted survival
 was less than 30%) in terms of their recovery of reproduction. We provided
 evidence for a potential long-term effect of high temperature on euedaphic
 species of Collembola and highlighted the need for further studies on the
 effects of global warming on soil living organisms.
description: This dataset is associated with a paper entitled "Tolerance
 of high temperature and associated effects on reproduction in euedaphic
 Collembola" in the Journal of Thermal Biology. Data contains original
 data (i.e. survivals, time to first oviposition, number of eggs) and
 processed data (i.e. values extracted from models). Original data was
 collected from the experiment described in detail in paper section 2.
 Methodology.
DOI: 10.5061/dryad.rn8pk0pc9
title: Feasibility of hybrid in-stream generator–photovoltaic systems for Amazonian off-grid communities

description: While there have been efforts to supply off-grid energy in the Amazon,
 these attempts have focused on low upfront costs and deployment rates.
 These “get-energy-quick” methods have almost solely adopted diesel
 generators, ignoring the environmental and social risks associated with
 the known noise and pollution of combustion engines. Alternatively, it is
 recommended, herein, to supply off-grid needs with renewable, distributed
 microgrids comprised of photovoltaics (PV) and in-stream generators (ISG).
 Utilization of a hybrid combination of renewable generators can provide an
 energetically, environmentally, and financially feasible alternative to
 typical electrification methods, depending on available solar irradiation
 and riverine characteristics, that with community engagement allows for a
 participatory codesign process that takes into consideration people’s
 needs. A convergent solution development framework that includes
 designers—a team of social scientists, engineers, and communication
 specialists—and communities as well as the local industry is examined
 here, by which the future negative impacts at the
 human–machine–environment nexus can be minimized by iterative, continuous
 interaction between these key actors.
description: Data was collected from: 1) ANEEL (dams and
 tariffs) 2) NASA (solar irradiation and wind
 velocity) 3) Chaudhari et al. (2019). (Amazonian river
 flow rates) 4) Pfenninger et al. (2016) (solar
 potential by coordinates) 5) ONS (electric grid
 transmission line costs)
description: Any personal account information has been removed.  User would
 need to create an account with renewables.ninja and insert APID to run VBA
 script.