cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.5x69p8d81
title: High population density and large body mass lead to increased reproductive success

description: Although population density and phenotype are known to alter the mating
 strategies of individuals, their impacts on reproductive success have not
 been fully investigated. We examined genetic mating system variation
 (number of mating partners), reproductive success (offspring number) and
 sperm competition intensity (sires per litter) in semi-natural populations
 of Brandt’s voles (Lasiopodomys brandtii) under low-, medium- and
 high-densities. We used 12 microsatellite genetic markers and parentage
 assignment of 3,516 voles, with the aim of identifying the number of
 mating partners and offspring produced by founder individuals. We provided
 strong evidence that individuals with more mating partners experienced
 increased reproductive success, as measured by the production of more
 offspring, compared with individuals that had fewer mating partners.
 Further, we found that large males had more mating partners (especially in
 high-population density enclosures) and also produced more offspring
 relative to smaller males. A high density of founder individuals led to
 more sires per litter but greater paternity share across litters (reduced
 paternity skew). Our results suggest that a polygamous mating system and
 increased body size should be favored by natural selection, and
 density-dependent variation in mating strategy would be sufficient to
 stabilize reproductive fitness under unfavorable conditions such as high
 founding density.
DOI: 10.5061/dryad.g1jwstqvs
title: Data for: Preliminary study based on methylation and transcriptome gene sequencing of lncRNAs and immune infiltration in hypopharyngeal carcinoma

description: Background: Hypopharyngeal squamous cell cancer (HSCC) is one of the most
 malignant tumors of the head and neck. It is not easy to detect in the
 early stage due to its hidden location; thus, lymph node metastasis is
 highly likely at diagnosis, leading to a poor prognosis. It is believed
 that epigenetic modification is related to cancer invasion and metastasis.
 However, the role of m6A-related lncRNA in the tumor microenvironment
 (TME) of HSCC remains unclear. Methods: The whole transcriptome and
 methylation sequencing of 5 pairs of HSCC tissues and adjacent tissues
 were performed to identify the methylation and transcriptome profiles of
 lncRNAs. The biological significance of lncRNAs differentially expressing
 the m6A peak was analyzed by Gene Ontology and Kyoto Encyclopedia of Genes
 and Genomes. By constructing an m6A lncRNA-microRNA network, the mechanism
 of m6A lncRNAs in HSCC was analyzed. The relative expression levels of
 selected lncRNAs were examined by quantitative polymerase chain reaction.
 The CIBERSORT algorithm was used to evaluate the relative proportion of
 immune cell infiltration in HSCC and paracancerous tissues. Results: Based
 on an in-depth analysis of the sequencing results, 14413 differentially
 expressed lncRNAs were revealed, including 7329 up-regulated and 7084
 down-regulated lncRNAs. Additionally, 4542 up-methylated and 2253
 down-methylated lncRNAs were detected. We demonstrated methylation
 patterns and gene expression profiles of lncRNAs of HSCC transcriptome. In
 the intersection analysis of lncRNAs and methylated lncRNAs, 51 lncRNAs
 with up-regulated transcriptome and methylation and 40 lncRNAs with
 down-regulated transcriptome and methylation were screened, and
 significantly differentiated lncRNAs were further studied. In the immune
 cell infiltration analysis, B cell memory was significantly elevated in
 cancer tissue, while γδT cell amount was significantly decreased.
 Conclusion: m6A modification of lncRNAs might be involved in HSCC
 pathogenesis. Infiltration of immune cells in HSCC might provide a new
 direction for its treatment. This study provides new insights for
 exploring the possible HSCC pathogenesis and searching for new potential
 therapeutic targets.
DOI: 10.5061/dryad.qnk98sfmt
title: Data for: Delayed development of basal spikelets in wheat explains their increased floret abortion and rudimentary nature

description: Large differences exist in the number of grains per spikelet across an
 individual wheat (Triticum aestivum L.) spike. The central spikelets
 produce the highest number of grains while apical and basal spikelets are
 less productive, and most basal spikelets are commonly only formed
 rudimentary. Basal spikelets are delayed in initiation, yet they continue
 to develop and produce florets. The precise timings or the cause of their
 abortion remains largely unknown. Here, we investigated the underlying
 causes of basal spikelet abortion using shading applications in the field.
 We found that basal spikelet abortion is likely the consequence of
 complete floret abortion, as both occur concurrently and have the same
 response to shading treatments. We detected no differences in assimilate
 availability across the spike. Instead, we show that the reduced
 developmental age of basal florets pre-anthesis is strongly associated
 with their increased abortion. Using the developmental age pre-abortion,
 we were able to predict final grain set per spikelet across the spike,
 alongside the characteristic gradient in the number of grains from basal
 to central spikelets. Future efforts to improve spikelet homogeneity
 across the spike could thus focus on improving basal spikelet
 establishment and increasing floret development rates pre-abortion.
description: <strong>Supplemental Dataset
 S1: </strong>All raw field data collected in 2021 and 2022 for
 mature spikes (post-harvest). <strong>Supplemental Dataset S2:
 </strong>All developmental scores taken for floret development in
 the basal six and central two spikelets from spike collected in CF
 2022. <strong>Supplemental Dataset S3:
 </strong>Raw normalized sugar concentration (µg/mg tissue wt) for
 samples collected in CF 2021 and 2022. <strong>Supplemental Dataset S4:
 </strong>Number of grains predicted for each spikelet using CDF,
 with and without optimisation.
description: All files are in xlsx format and can be opened with Microsoft
 Excel of Google Sheets.
DOI: 10.5281/zenodo.18402740
title: Data and code for  "Engineering Strong Intrinsic Longitudinal Coupling in Circuit Quantum Electrodynamics"

description: This repository contains the data and code used to generate the figures for the PhD thesis "Engineering Strong Intrinsic Longitudinal Coupling in Circuit Quantum Electrodynamics"
DOI: 10.5061/dryad.xwdbrv1j7
title: Data from: An ASC-based unitary matrix pencil method for parameter estimation of group target

description: The unitary matrix pencil (UMP) method has been successfully applied to
 antenna array optimization. In this work, the UMP method is applied to the
 parameter estimation of target detection based on the attributed
 scattering center (ASC) model. This method can accurately estimate the
 number of arbitrary group targets in the space. Firstly, the radar cross
 section (RCS) is reconstructed based on the ASC model. Since the unitary
 matrix can be used to process the parameter estimation of the echo with
 ‘sum of attenuation exponents’, the unitary matrix is constructed by the
 samples from this reconstructed RCS. Moreover, the stronger scattering
 center can be characterized via the larger singular values, and the number
 of group targets can be obtained by solving the number of large singular
 values. Then, singular value decomposition (SVD) is performed on this
 unitary matrix, and some larger singular values are screened by setting an
 appropriate threshold. The higher estimation accuracy can be obtained by
 fusing the echoes from multiple frequencies and angles. Besides, the
 estimation accuracies of this proposed method in this work are discussed
 under different signal-to-noise ratios (SNR) considering the noise in the
 actual scene. Simulation results show that this method can effectively and
 accurately estimate the number of group targets, and it shows strong
 robustness. In this data file, the simulation results obtained by
 commercial software FEKO and MATLAB are listed.
description: These data are obtained by electromagnetic simulation. The target
 echo is obtained by simulation software FEKO, and the data is processed by
 software MATLAB.
description: The "ReadMe" file and " Simulation Data
 Illustration" contain explanations of each of the variables in the
 dataset.
DOI: 10.5281/zenodo.18402739
title: Data and code for  "Engineering Strong Intrinsic Longitudinal Coupling in Circuit Quantum Electrodynamics"

description: This repository contains the data and code used to generate the figures for the PhD thesis "Engineering Strong Intrinsic Longitudinal Coupling in Circuit Quantum Electrodynamics"
DOI: 10.5061/dryad.gmsbcc2sw
title: Decoupling of functional traits from intraspecific patterns of growth and drought stress resistance

description: Intraspecific variation in functional traits may mediate tree species’
 drought resistance, yet it remains unknown if trait variation is due to
 genotype (G), environment (E), or GxE interactions. Understanding the
 drivers of intraspecific trait variation and whether variation mediates
 drought response can improve predictions of species’ response to future
 drought. Using populations of quaking aspen spanning a climate gradient,
 we investigated intraspecific variation in functional traits in the field
 as well as the influence of G and E among propagules in a common garden.
 We also tested for trait-mediated trade-offs in growth and drought stress
 tolerance. We observed intraspecific trait variation among the
 populations, yet this variation did not necessarily translate to higher
 drought stress tolerance in hotter/drier populations. Additionally,
 plasticity in the common garden was low, especially in propagules derived
 from the hottest/driest population. We found no growth-drought stress
 tolerance trade-offs and few traits exhibited significant relationships
 with mortality in the natural populations, suggesting that intraspecific
 trait variation among the traits measured did not strongly mediate
 responses to drought stress. Our results highlight the limits of
 trait-mediated responses to drought stress and the complex GxE
 interactions that may underly drought stress tolerance variation in
 forests in dry environments.
description: Data were collected during the summers of 2019, 2020, and 2021.
 Tree cores were mounted and prepped using standard dendrochronology
 methods. Many of the functional traits were measured on samples processed
 in a laboratory.
DOI: 10.25338/b8pm0w
title: Eco-social metrics of marsh restoration

description: Understanding why habitat restoration is viewed as successful or not is
 key to evaluating past projects, planning future projects, and building
 support. Additionally, connecting public perceptions to the restoration
 process and habitats can improve project outcomes and generate greater
 public support. Yet, restoration science lacks fundamental information
 about the extent to which restoration actions align with measured
 ecological outcomes and social perceptions. Focusing on tidal marshes, we
 gathered qualitative and quantitative data on public perceptions of these
 habitats and restoration through focus groups in three estuaries in
 Oregon, USA. We also gathered environmental data from nine restoration
 projects spanning these estuaries to understand ecological responses to
 restoration focusing on responses of hydrology and vegetation. We mined
 project reports for mentions of priority project goals from an ecological
 perspective to compare with community priorities. Lastly, we interviewed
 restoration managers to provide context for the environmental data. Across
 our sample, hydrology scores increased with the number of restoration
 actions, although no clear relationship emerged between restoration action
 and vegetation scores. We developed a linking matrix to compare social and
 ecological data and found that, although restorationists and the public
 have similar social values, assessments of projects do not often include
 the highest-ranked priorities of community members and rarely track human
 factors as part of restoration assessment. Based on these findings, we
 suggest methods to include these social values in future projects and for
 improved communication between restorationists and the general public.
description: We assessed nine restoration
 projects spanning three Oregon estuaries: Kunz, Frederickson, Dalton, and
 Cox marshes in Coos Bay; Y27, Y3, and Poole Slough in Yaquina Bay; and
 Lint Slough and Drift Creek in Alsea Bay. We reviewed project reports and
 available data for all projects to determine project characteristics and
 environmental metrics measured. We limited our ecological assessment to
 metric categories that were measured at most of the projects: vegetation,
 hydrology, mammal use, and fish use. Other categories of ecological
 function were also considered including water quality and marsh elevation,
 but not included due to a lack of these data across estuaries and years at
 a given site, precluding comparison. We then collected present-day data
 for vegetation and channel sinuosity (as a proxy for hydrologic function)
 so we could compare pre-restoration and present-day data. Mammal and fish
 use were recorded as post-restoration presence/absence data due to the
 logistical inability to standardize those data for comparison and general
 lack of pre-restoration data for these metrics. If projects monitored
 mammal or fish use post-restoration and recorded their presence in some
 capacity, we assigned the mammal category a value of
 “present”.
description: R, R Studio, Excel
DOI: 10.5068/d1zh5t
title: Pitch-angle resolved electron flux measurements in the Earth's radiation belt

description: These data are electron flux measurements in the Earth's radiation
 belt obtained with the MagEIS instrument on the NASA Van Allen Probe B
 satellite. They are an extension of a previously published data set
 (https://doi.org/10.5068/D1RQ2W). In the original dataset, the fluxes were
 averaged between 80 and 100 degrees local pitch angle (i.e., equatorial
 pitch angles between ~70 and 110 degrees) and used to study electron decay
 time scales or "lifetimes" (see
 https://doi.org/10.1029/2019GL086053 and
 https://doi.org/10.1029/2019GL086056). In this new data set, the data are
 obtained and processed in the same way, but here multiple equatorial pitch
 angle bins are provided. The contents of the data files are described in
 greater detail in a "readme" file.
description: These data are daily (UTC) flux averages. The L parameter is
 McIlwain L and was obtained from the Olson-Pfitzer quiet 1977 magenetic
 field model. The data are provided in L bins of 0.1L width from L = 1.0 to
 7.6 and in equatorial pitch angle bins from 0 to 180 degrees with 12
 degree bin width. Three flux variables are
 provided: FEDU: Uncorrected differential
 electron flux (cm<sup>2</sup> s sr
 keV)^<sup>-1</sup> FEDU_CORR: Background
 corrected (standard algorithm) differential electron flux
 (cm<sup>2</sup> s sr keV)^<sup>-1</sup>
 FEDU_CORR_ALT: Background corrected (alternative
 algorithm)  differential electron flux (cm<sup>2</sup> s sr
 keV)^<sup>-1</sup>. All flux
 arrays are 4D and have dimensions ~ [n<sub>time</sub> x
 n<sub>energy</sub> x n<sub>L</sub> x
 n<sub>alpha</sub>].
description: Notes on FEDU_CORR_ALT: For
 energies &lt; 700 keV, it is identical to FEDU_CORR  (i.e., the
 "standard" background correction algorithm was used,
 doi:10.1002/2015JA021171). For L &gt; 3.0, it is
 identical to FEDU_CORR (standard algorithm). For L
 &lt; 3.0 and E &gt; 700 keV, the "alternative"
 background correction algorithm was used
 (doi:10.1029/2018JA026349) Data from the
 "MED" unit, pixel 8 is not included, as it has considerable
 Poisson noise and there's a "HIGH" unit channel with nearly
 identical energy (~1 MeV, HIGH-P0). Notes
 (general) The lowest L bin (L=1.0-1.1) is
 set to fill in all of the flux variables.  Data from
 LOW/MED pixel 0 (P0) and pixel 1 (P1) are not included, as they are noisy
 (see https://doi.org/10.1007/s11214-021-00855-2). Days with HIGH unit operational testing at end of May 2014 (all pixels) and July 2013 (pixel 3 only) are set to fill (see https://doi.org/10.1007/s11214-021-00855-2). Data on 2017/12/07 is set to fill due to missing magnetic ephemeris
DOI: 10.5061/dryad.3tx95x6m5
title: Data from: Dung beetles from three primary forest sites in the Brazilian Amazon

description: Scarabaeinae beetles (Coleoptera: Scarabaeidae) is a high performance
 indicator group used in biodiversity assessment of tropical forests. As
 most species are coprophagous they are commonly known as dung beetles
 although few species may be necrophagous or saprophagous. Allied to the
 feeding habitat dung beetles display a complex reproductive behaviour with
 nests underground, and therefore act in many ecossistem services as
 nutrient cycling, bioturbation and secondary seed dispersal. Dung beetles
 display specific forraging methods, as they detect food odors through the
 antennas and fly towards the food resource. They are therefore captured by
 baited pitfall and flight interception traps, and studies have shown the
 complementary between these methods. However, the use of attractants can
 introduce additional sources of variation in trap performance. In our
 paper we aimed to assess the effect of bait attractiveness on assemblages
 metrics when sampled by baited pitfall traps. We identified species less
 and highly attracted to the baits in use, and that assemblages sampled
 with baited traps tend to lower diversity and higher dominance.
description: In 2019, dung beetles were sampled in three terra firme primary
 forests within Brazilian Amazon (Serra do Divisor, Acre; BR-319, Amazonas;
 and Cristalino, Mato Grosso) using pitfall traps baited with human feces
 and flight interception traps. Dung beetle species are deposited at
 <em>Coleção Entomológica de Mato Grosso Eurides Furtado
 (CEMT),</em> at <em>Universidade Federal de Mato
 Grosso</em>, Cuiabá, Mato Grosso, Brazil. For further information
 please refer to methods section of the article "Bait attractiveness
 changes community metrics in dung beetles (Coleoptera: Scarabaeidae:
 Scarabaeinae)" at Ecology and Evolution.
description: Microsoft Excel or LibreOffice Calc.
description: # Dung beetles from three primary forest sites in the Brazilian Amazon ---
 Dung beetles were sampled at three *terra firme* sites within Brazilian
 Amazon (BR-319, Cristalino, and Serra do Divisor) in 2019. We used pitfall
 traps baited with human feces and flight interception traps. The sampling
 design is described at Bach et al., 2023
 ([https://doi.org/10.1002/ece3.9975](https://doi.org/10.1002/ece3.9975)).
 ## Description of the Data and file structure The first column shows the
 sites sampled. The second column is a list of species in each site.
 Species were identified to the minimum taxonomic level possible. Thus,
 some species are identified up to genus level (e.g. *Ateuchus* sp01). site
 = sites sampled. There are three sites: BR-319 (Amazonas), Cristalino
 (Mato Grosso), and Serra do Divisor (Acre). species = list of species
 sampled in each site ## Sharing/access Information This is the only public
 location to acess the data. Was data derived from another source? No
DOI: 10.5061/dryad.0rxwdbs4x
title: A dataset of nectar sugar production for flowering plants found in urban greenspaces

description: Nectar and pollen are floral resources that provide food for insect
 pollinators, so quantifying their supplies can help us to understand and
 mitigate pollinator declines. However, most existing datasets of floral
 resource measurements focus on native plants found in rural landscapes, so
 cannot be used effectively for estimating supplies in urban green spaces,
 where non-native ornamental plants often predominate. We sampled floral
 nectar sugar in 225 plant taxa found in UK residential gardens and other
 urban green spaces, focussing on the most common species. The vast
 majority (94%) of our sampled taxa are non-native, filling an important
 research gap and ensuring these data are also relevant outside of the UK.
 Our dataset includes values of daily nectar sugar production for all 225
 taxa and nectar sugar concentration for around half (102) of those
 sampled. Nectar extraction was conducted according to published methods,
 ensuring our values can be combined with other datasets. We anticipate
 that the two main uses of these data are (1) to estimate the nectar
 production of habitats and landscapes, and (2) to identify high-nectar
 plants of conservation importance. To increase the utility of our data we
 provide guidance for scaling nectar values up from single flowers to
 floral units, as is commonly done in field studies.
description: Nectar measurements of the 225 flowering plant taxa took place in
 March-October 2018 (220 taxa) or February-April 2019 (five taxa) at field
 sites in southern England, which included public and private gardens,
 allotments, garden centres and road verges. Nectar accumulated over a
 24-hour period (during which flowers were bagged) was extracted using
 glass microcapillaries, with sugar concentration measured using a handheld
 refractometer. See 'Materials and Methods' within the associated
 paper for a full description of the methods.
description: See the Metadata tab in the Excel file. This explains what each
 column represents. See also the 'Usage Notes' section within the
 associated paper. We anticipate that the two main uses of these data are
 (1) to estimate the nectar production of habitats and landscapes, and (2)
 to identify high-nectar plants of conservation importance. To increase the
 utility of our data we provide guidance for scaling nectar values up from
 single flowers to floral units, as is commonly done in field studies. In
 addition, researchers could investigate how phylogeny and floral traits
 predict nectar production or nectar sugar concentration using statistical
 models.
DOI: 10.5061/dryad.prr4xgxrk
title: Data and code for: Degradation of floodplain integrity within the contiguous United States

description: Despite the numerous hydrological, geological, and ecological benefits
 produced by floodplain landscapes, floodplains continue to be degraded by
 human activities at a much higher rate than other landscape types. This
 large-scale landscape modification has been widely recognized, yet a
 comprehensive, national dataset quantifying the degree to which human
 activities are responsible for this degradation has not previously been
 evaluated. In this research, we analyze floodplain integrity for the
 contiguous United States by spatially quantifying the impact of
 anthropogenic stressors on almost 80,000 floodplain units. This dataset
 demonstrates the prevalence of human modifications through widely
 available geospatial datasets, which we use to quantify indicators of
 floodplain integrity for five essential floodplain functions of flood
 attenuation, groundwater storage, habitat provision, sediment regulation,
 and organics and solute regulation. Our results show that floodplain
 degradation is spatially heterogeneous and that the integrity of nearly
 70% of floodplains in the United States is poor. We highlight that
 quantifying the integrity of spatially explicit floodplain elements can
 allow for restoration efforts to be targeted to the areas in most
 desperate need of preservation.