cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.7272/q6zp44cr
title: P-TEFb is degraded by Siah1/2 in quiescent cells-Huang etc

description: P-TEFb, composed of CycT1 and CDK9, regulates the elongation of
 transcription by RNA polymerase II. In proliferating cells, it is
 regulated by 7SK snRNA in the 7SK snRNP complex. In resting cells, P-TEFb
 is absent, because CycT1 is dephosphorylated, released from CDK9 and
 rapidly degraded. In this study, we identified the mechanism of this
 degradation. We mapped the ubiquitination and degradation of free CycT1 to
 its N-terminal region from positions 1 to 280. This region is
 ubiquitinated at six lysines, where E3 ligases Siah1 and Siah2 bind and
 degrade these sequences. Importantly, the inhibition of Siah1/2 rescued
 the expression of free CycT1 in proliferating as well as resting primary
 cells. We conclude that Siah1/2 are the E3 ligases that bind and degrade
 the dissociated CycT1 in resting, terminally differentiated, anergic
 and/or exhausted cells.
description: All WBs were visualized by enhanced chemiluminescence (ECL)
 (Perkin Elmer) produced by HRP-conjugated secondary antibodies, and
 chemiluminescent signals were directly captured by LI-COR image analyzer.
 All unedited WB images were exported as TIFF files and directly pasted
 into Keynote file. WB bands used in the figures for the manuscript were
 indicated. The size of protein marker and brief description of how WBs
 were obtained were also included. qPCR data were
 directed exported as excel file, and bar graph was generated in the same
 file. Flow cytometry data were analyzed by Flowjo, and
 exported as one PDF file.
description: This dataset is for read-only and not for further manipulations,
 and it includes all raw data and indicated figures for the paper already
 published. Please do not reuse this dataset for any other publications or
 purposes without permissions for the original authors.
DOI: 10.5061/dryad.cc2fqz67d
title: Fairway reflectance and clipping yield from: Reduced creeping bentgrass fairway reflectance following synthetic colorant application

description: Repeated measures using multispectral radiometry resolutely quantify
 canopy attributes of identical turfgrass cultivars under similar
 management. Concern regarding multispectral radiometric characterization
 of turfgrass canopies &lt;24 h following synthetic phthalocyanine
 colorant application has been affirmed and is accordingly now avoided; yet
 explicit guidance on subsequent employ, at time(s) &gt;24-h
 post-application, is lacking. Our objective assessed how petroleum-derived
 spray oil (PDSO) and synthetic Cu II phthalocyanine colorant (C)
 combination product influences creeping bentgrass (Agrostis stolonifera
 L.) reflectance up to 10 d following application. A maintained fairway
 received semi-monthly 9.76 kg ha–1 soluble N treatments alone or in
 combination with 27 L PDSO+C ha–1. Treatment by PDSO+C increased mean
 shoot growth (kg ha–1) and dark green color index (DGCI) calculated by
 visible waveband reflectance. Yet reduced far red and near infrared
 reflectance from PDSO+C treated plots artificially deflated mean
 normalized differential vegetative indices (NDVI). Cautious interpretation
 of vegetative indices relying on 710- to 810-nm canopy reflectance is
 encouraged when evaluating fairways treated by PDSO and Cu II
 phthalocyanine combination product(s).
DOI: 10.5061/dryad.n2z34tmz7
title: Data from: Driving factors on greenhouse gas emissions in permafrost region of Daxing’an Mountains, Northeast China

description: Permafrost regions are an important source of greenhouse gases. However,
 the effects of different permafrost wetland types on greenhouse gas
 emissions and the driving factors are still unclear in the permafrost
 region. Here, we selected three typical permafrost wetlands from the
 Daxing’an Mountains to investigate the effects of permafrost wetland types
 on greenhouse gas emissions. The cumulative N2O, CO2, and CH4
 emissions were 84–122, 657,942–1,446,121, and 173–16,924 kg km−2,
 respectively. The linear mixed effects model indicated that N2O emissions
 were significantly affected by the NO3−-N content, whereas CO2 emissions
 were mainly driven by soil temperature, water table level, and NO3−-N
 content. CH4 emissions were affected by soil temperatue and water
 table level. Permafrost wetland types significantly affected the
 average and cumulative N2O, CO2, and CH4 emissions. The
 cumulative N2O emissions were highest in the Larix
 gmelinii - Carex appendiculata (LC) wetland and lowest in
 the Betula fruticosa Pall. (B) wetland, driven by NO3−-N content.
 The cumulative CO2 emissions were highest in the (B)
 wetland and lowest in the L. gmelinii - Ledum palustre var.
 dilatatum (LL) wetland. The cumulative CH4 emissions from B wetland were
 significantly higher than those from LL and LC wetlands. The differences
 in cumulative CO2 and CH4 emissions were driven by the water table
 level. Our findings indicate that NO3−-N content affect the
 spatial-temporal variation of N2O emissions, whereas water table level
 influence the spatial-temporal variation of CO2 and CH4 emissions in the
 permafrost region of the Daxing’an Mountains.
description: Please refer to ReadMe file.
DOI: 10.18150/35sbzz
title: Design and optimization of bioactive extracts from Trifolium pratense L. and Equisteum arvense L. for the development of biostimulating products for sustainable common bean cultivation

description: Badania przeprowadzone w ramach projektu, dotyczyły analizy ilościowej i jakościowej związków fenolowych, mineralnych węglowodanów oraz hormonów roślinnych w ekstraktach. Ekstrakty o potencjale biostymulującym wykorzystano do dalszych badań polowych.
DOI: 10.5061/dryad.sn02v6x5g
title: Data from: Sex-biased habitat selection by American marten in the Acadian forest

description: Differences in spatial ecology between the sexes are generally expected
 for mammalian carnivores because of physiological (e.g., sexual
 dimorphism) or behavioral (e.g., uniparental care of offspring)
 differences, but sex is rarely included in studies of occurrence or
 occupancy. We evaluated differences in landscape-scale
 occurrence, as a function of habitat amount and configuration, between
 male and female American martens in the heterogeneous,
 commercially-managed forests of northern Maine. Our analysis
 focused on resident adults; individuals that had survived to &gt;1
 year old, dispersed, and successfully established their home range.
description: Home range data were derived from a long-term live-trapping and
 radio-telemetry study (1994-1997) and modeled using time-specific maps of
 suitable habitat derived from Landsat satellite imagery.
DOI: 10.5061/dryad.jdfn2z3cj
title: Island biogeography predicts skull gigantism and shape variation in meadow voles (Microtus pennsylvanicus) through ecological release and allometry

description: Island Rule describes the graded trend of gigantism in small-bodied
 species to dwarfism in large-bodied species inhabiting islands, but causal
 explanations remain unresolved. We used geometric morphometrics to
 quantify cranial morphology of 544 meadow vole (Microtus pennsylvanicus)
 samples across 11 island and 3 mainland populations from the Outer Lands
 of New England (Atlantic) and the Alexander Archipelago of Alaska
 (Pacific). We compared the thermoregulation and endurance (TRE) and
 ecological release (ER) hypotheses using all-subsets linear models
 employing residual randomization permutation procedures (rrpp), and Akaike
 Information Criterion (AIC) for model selection. We decoupled direct and
 indirect effects of island variables on size using path analysis. We
 evaluated shape with Principal Components Analysis (PCA) and Procrustes
 ANOVA on Procrustes shape coordinates, then assessed the impact of static
 allometry and TRE and ER variables on shape. Six Atlantic island
 populations exhibit significant signals of gigantism with the largest
 voles occurring on the smallest islands lacking predators. ER explains 63%
 of cranial size differences. Island area has a significant total effect on
 size by influencing the number of mammalian predators, resulting in a
 0.011 increase in unit centroid size for a 100 km2 decrease in island
 area. This corresponds to a predicted 0.9% change in size for every 100
 km2. Given static allometry, cranial shape does not respond to insularity
 independent of size. These results suggest that Island Rule is a latent
 evolutionary process whose manifestation depends on nuanced biogeographic
 and ecological contexts that have important conservation and taxonomic
 implications.
description: This data package includes the raw and processed data, in
 addition to R scripts used to conduct the analyses, obtain results, and
 generate some figures reported in the following publication: Schlis-Elias,
 M. C. and Malaney, J. L. 2021. Island biogeography predicts skull
 gigantism and shape variation in meadow voles (<em>Microtus
 pennsylvanicus</em>) through ecological release and
 allometry.
DOI: 10.7280/d1g68r
title: Rates of alloparental care by male stickleback in natural lake populations

description: In many animal species, alternative reproductive tactics can result in
 alloparenting: adult individuals providing care for juveniles that are not
 genetically their own progeny. In species with parental care, males may
 exhibit “sneaking” behavior and fertilize eggs in the nest of another
 male, or nesting males may commit egg-theft from a more successful male,
 possibly to help attract females. Alloparenting may have important
 consequences for both male and female reproductive output and mate choice,
 but rates of alloparenting in natural populations are poorly understood in
 many taxa, as are the ecological factors that might influence these rates.
 Here, we quantified the frequency of alloparenting (detected by genetic
 mismatches between males and the eggs in their nests) within 15 natural
 populations of threespine stickleback, and tested whether the frequency of
 mismatch was predicted by characteristics of the lake (lake size and nest
 density) or features of individual males (body size and diet) or their
 chosen nest location (depth and presence of vegetation). The frequency of
 genetic mismatch was relatively high across all lakes (23–66%) but was not
 explained by lake-level characteristics (lake area or nest density).
 Alloparenting was more likely for individual males with more benthic diets
 (as measured by stable isotopes) and for males whose nests were closer to
 vegetation, although this effect varied across lakes. Our results suggest
 that individual-level characteristics of the male and nest influence the
 frequency of alloparenting, and that variation among individuals and
 populations should be considered in studies of the genetics and
 evolutionary consequences of alternative reproductive
 tactics.   
description: This data was collected from fifteen lakes in southwestern
 British Columbia during a single breeding season in 2013. Threespine
 stickleback fish fin clips and eggs underwent DNA extraction using a
 Progema Wizard Genomic DNA extraction kit, following manufacturer
 instructions (expect we eluted the final product in 50 μl of water.
 Microsatellites were resolved on an Applied Biosciences 3730 Sanger
 sequencer and alleles were scored using GeneMarker.
DOI: 10.5061/dryad.qv9s4mwg8
title: Phosphorus supply increases nitrogen transformation rates and retention in soil: a global meta-analysis

description: Interactions between nitrogen (N) and phosphorus (P) are important for
 plant growth and ecosystem carbon (C) sequestration. While effects of N
 supply on P dynamics have been much studied, much less is known about the
 opposite (P-effect on N). We conducted a meta-analysis by compiling a
 total of 1734 individual experimental observations from 116 peer-reviewed
 publications to assess P-addition effects on soil N dynamics. Globally, P
 additions increased the soil total N (TN) pool, potentially as a result of
 enhanced plant and microbial immobilization and reduced N losses, with a
 stronger effect detected under longer duration of P addition (≥ 5 years).
 A coupled increase in soil organic C with TN signifies the fundamental
 role of exogenous P supply in enhancing soil C sequestration. Phosphorus
 addition accelerated some of the soil N cycling processes including gross
 N mineralization, gross nitrification, and denitrification, with the
 effect sizes varying among ecosystem types and increasing with P addition
 rates. Our results indicate the fundamental role of P in affecting soil N
 pools and processes, and highlight the efficacy of P supply in
 sequestering soil C and mitigating global C emission.
DOI: 10.5061/dryad.kh1893270
title: Crowding after sudden habitat loss affects demography and social structure in a bat population

description: 1. The sudden loss of habitats due to natural or anthropogenic
 disturbances causes displacement of mobile animals from affected areas to
 refuge habitats, where large but often transitory concentrations of
 individuals may occur. While these local density increases have been
 previously described, the hypothesis that crowding disrupts demographic
 processes remains largely untested. 2. Here we used the sudden flooding of
 a river valley by a hydroelectric reservoir as a quasi-experiment to
 investigate the consequences of crowding on demography, fecundity, and
 social structure in the European free-tailed bat (Tadarida teniotis). 3.
 We monitored bat populations at roosts near and far from the flooded area,
 before (2013-2014), during (2015) and after (2016) habitat flooding. We
 assessed population demographic parameters using Capture-Mark-Recapture
 (CMR) models (3821 PIT-tagged individuals), and used genetic relatedness
 among individuals (1407 individuals genotyped for 14 microsatellite
 markers) to infer changes in social structure. 4. Habitat loss through
 flooding was associated with significant but transitory increases in the
 number of bats using nearby roosts. This may be related to the higher
 probability of individuals arriving at those roosts during flooding,
 together with increases in individual local residency through time,
 particularly among males. Individual apparent survival was highest during
 flooding and lowest in the following year, while the probability of
 leaving a roost safe from flooding was higher near the impact area than
 farther away. Crowding did not negatively affect fecundity, but the
 arrival of new individuals led to changes in social structure as revealed
 by lower genetic relatedness between individuals after disturbance at
 roosts near the flooding area, but not in those farther afield. 5. Our
 study documents a clear example of crowding effects, suggesting that bats
 losing roosts due to a hydroelectric reservoir moved to alternative
 roosts, where local increases in population size and the arrival of new
 individuals reduced genetic relatedness and apparent survival, but not
 fecundity. These results support the hypothesis that crowding after
 habitat loss can disrupt population processes, even though effects may be
 subtle and short-lived. Also, they point out the need to duly consider
 crowding effects when assessing and mitigating anthropogenic impacts on
 animal populations.
DOI: 10.34740/kaggle/dsv/14648243
title: Daily Public Opinion on Israel-Palestine War
DOI: 10.5061/dryad.k3j9kd58t
title: Food for thought: Barro Colorado Island frugivore home range summaries

description: This dataset consists of home-range area summaries of
 four species of frugivores on Barro Colorado Island, Panama, including 12
 kinkajou (Potos flavus), 16 white-nosed coati (Nasua narica), 8
 white-faced capuchin monkey (Cebus capucinus), and 8 spider monkey (Ateles
 geoffroyi). Summaries include effective sample sizes (DOF) as well as
 parameter estimates (in hectares) including upper and lower confidence
 intervals. Metadata for each individual are provided including their
 indivdual ID and species ID. The summaries of the autocorrelated
 kernel density estimates include additional metadata regarding the sex,
 weight, and sampling year of each individual. 
description: Home ranges are 95% error-informed pHREML AKDEc home-range area
 estimates and IID kernel density estimates, and were generated using the
 ctmm package (Fleming and Calabrese, 2015; Calabrese et al., 2016) in r (R
 Core Team, 2021). Animal tracking data used to generate the home range
 summaries are hosted on Movebank (Processed data: Movebank ID 1120749252;
 Unprocessed data: Movebank ID 468460067).   
 Calabrese, J. M., C. H. Fleming, and E. Gurarie. 2016. ctmm: An r
 package for analyzing animal relocation data as a continuous-time
 stochastic process. Methods in Ecology and Evolution
 7:1124-1132. Fleming, C. H., and J. M. Calabrese. 2015.
 ctmm: Continuous-Time Movement Modeling.
 https://CRAN.R-project.org/package=ctmm. Team, R. C.
 (2021). RA language and environment for statistical computing, Vienna,
 Austria; 2021. <i>Available in: http://www.
 R-project.org/</i>
DOI: 10.5281/zenodo.18335985
title: Breakdown of bosonic Thouless pump  due to interaction in a quasiperiodic lattice

description: We investigate the effect of inter-particle interaction on the quantized Thouless pump in the bosonic quasiperiodic Aubry–André model and find that the quantization of the pumped charge breaks down already for weak interactions.  Furthermore, the pumped charge undergoes sharp changes as a function of interaction strength that we can attribute to the closing of specific doublon channels. As expected, the quantization revives in the hard-core limit at very large interaction strengths where the bosons are subject to a hardcore constraint.  Interestingly, the stability of isolated doublons under the pump depends on the band they are in. For repulsive interactions and a suitably fixed pump period, doublons in the lowest band are pumped stably while doublons in higher bands dissociate during the pump with one particle decaying into a lower band. This asymmetry leads to the decay of the total energy over time, in stark contrast to the typical Floquet heating expected for a driven many-body system.
DOI: 10.5281/zenodo.18335986
title: Breakdown of bosonic Thouless pump  due to interaction in a quasiperiodic lattice

description: We investigate the effect of inter-particle interaction on the quantized Thouless pump in the bosonic quasiperiodic Aubry–André model and find that the quantization of the pumped charge breaks down already for weak interactions.  Furthermore, the pumped charge undergoes sharp changes as a function of interaction strength that we can attribute to the closing of specific doublon channels. As expected, the quantization revives in the hard-core limit at very large interaction strengths where the bosons are subject to a hardcore constraint.  Interestingly, the stability of isolated doublons under the pump depends on the band they are in. For repulsive interactions and a suitably fixed pump period, doublons in the lowest band are pumped stably while doublons in higher bands dissociate during the pump with one particle decaying into a lower band. This asymmetry leads to the decay of the total energy over time, in stark contrast to the typical Floquet heating expected for a driven many-body system.
DOI: 10.5061/dryad.2jm63xsqz
title: Fire and forage quality: post-fire regrowth quality and pyric herbivory in subtropical grasslands of Nepal

description: Indiscriminate fire is rampant throughout subtropical South and Southeast
 Asian grasslands. However, very little is known about the role of fire and
 pyric herbivory on the functioning of highly productive subtropical
 monsoon grasslands lying within Cwa-climatic region. We collected grass
 samples from 60 m x 60 m plots and determined vegetation physical and
 chemical properties at regular 30-day intervals from April to July 2020,
 starting from 30 days after fire to assess post-fire regrowth forage
 quality. We counted pellet groups for the same four months from 2 m x 2 m
 quadrats that were permanently marked with pegs along the diagonal of each
 60 m x 60 m plot to estimate grazing intensity to the progression of
 post-fire regrowth. We observed strong and significant reductions in crude
 protein (mean value 9.1 to 4.1 [55% decrease]) and phosphorus (mean value
 0.2 to 0.11 [45% decrease]) in forage collected during different time
 intervals i.e., from 30 days to 120 days after fire. Mesofaunal deer
 utilised the burned areas extensively for a short period, i.e., up to two
 months after fire when the burned areas contained short grasses with a
 higher level of crude protein and phosphorus. Grazing intensity of chital
 (Axis axis) to post-fire regrowth differed significantly over time since
 fire, with higher intensity of use at 30 days after fire. Grazing
 intensity of swamp deer (Rucervus duvaucelii) did not differ significantly
 until 90 days after fire, however, decreased significantly after 90 days
 since fire. Large-scale indiscriminate single event fires thus may not
 fulfil nutritional requirements of all species in mesofaunal deer
 community in these subtropical monsoon grasslands. We recommend for a
 spatio-temporal manipulation of fire to reinforce grazing feedback and to
 yield for the longest possible period a reasonably good food supply for
 the conservation of mesofaunal deer.
description: We established 60 m x 60 m plots within the burned grasslands in
 Bardia National Park, Nepal, immediately within a weak after a fire in
 March 2020. Four quadrats of 2 m x 2 m were permanently marked with pegs
 along the diagonal of each 60 m x 60 m plot at an equal distance of 20 m
 from where foraging intensity (through pellet groups count) were recorded
 at regular 30-day intervals for four months (end of April to end of July)
 from 30 days following the fire. We collected grass samples from 60 m x 60
 m plots at regular 30-day intervals for the same four months. Grass
 samples were clipped at ground level in a 0.36 m<sup>2
 </sup>frame from each 60 m x 60 m plot and fresh weight was
 quantified using a digital weighing scale and hand-sorted into green and
 dead parts.
DOI: 10.15468/dl.zjagur
title: Occurrence Download

description: A dataset containing 784 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Corallina pilulifera"
 ]
}

 The dataset includes 784 records from 36 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003024-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.