cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.3bk3j9kjp
title: Data from: Effects of age and disease duration on excess mortality in patients with multiple sclerosis from a French nationwide cohort

description: Objective: To determine the effects of current age and disease duration on
 excess mortality in multiple sclerosis, we described the dynamics of
 excess deaths rates over these two time scales and studied the impact of
 age at multiple sclerosis clinical onset on these dynamics, separately in
 each initial phenotype. Methods: We used data from 18 French multiple
 sclerosis expert centers participating in the Observatoire Français de la
 Sclérose en Plaques. Patients with multiple sclerosis living in
 metropolitan France and having a clinical onset between 1960 and 2014 were
 included. Vital status was updated on January 1st, 2016. For each multiple
 sclerosis phenotype separately (relapsing onset (R-MS) or primary
 progressive (PPMS)), we used an innovative statistical method to model the
 logarithm of excess death rates by a multidimensional penalized spline of
 age and disease duration. Results: Among 37524 patients (71% women, mean
 age at multiple sclerosis onset ± standard deviation 33.0 ± 10.6 years),
 2883 (7.7%) deaths were observed and 7.8% of patients were
 lost-to-follow-up. For R-MS patients, there was no excess mortality during
 the first 10 years after disease onset; afterwards, whatever age at onset,
 excess death rates increased with current age. From current age 70, the
 excess death rates values converged and became identical whatever the age
 at disease onset, which means that disease duration had no more impact.
 Excess death rates were higher in men with an excess hazard ratio of 1.46
 (95% confidence interval 1.25-1.70). In contrast, in PPMS patients, excess
 death rates rapidly increased from disease onset, and were associated with
 age at onset, but not with sex. Conclusions: In R-MS, current age has a
 stronger impact on multiple sclerosis mortality than disease duration
 while their respective effects are not so clear in PPMS. 
description: It deals with the observed and expected survival by the methods
 of Kaplan-Meier and Ederer 1 in multiple sclerosis patients.
DOI: 10.5061/dryad.69p8cz91s
title: Identification of a neural basis for cold acclimation in Drosophila larvae

description: Low temperatures can be fatal to insects, but many species have evolved
 the ability to cold acclimate, thereby increasing their cold tolerance. It
 has been previously shown that Drosophila melanogaster larvae perform
 cold-evoked behaviors under the control of noxious cold-sensing neurons
 (nociceptors), but it is unknown how the nervous system might participate
 in cold tolerance. Herein, we describe cold-nociceptive behavior among 11
 drosophilid species with differing cold tolerances. Behavioral analyses
 revealed that the predominant cold-evoked larval response is a
 head-to-tail contraction (CT) behavior, which is likely inherited from a
 common ancestor, but with characters not wholly consistent with the
 behavior being protective.  We therefore tested the hypothesis
 that cold nociception functions to protect larvae by triggering cold
 acclimation. Via a combination of neurogenetics and electrophysiology, we
 show that Drosophila melanogaster Class III nociceptors are sensitized by
 and critical to cold acclimation.  Moreover, we demonstrate that
 cold acclimation can be optogenetically-evoked, sans cold. 
 Collectively, these findings demonstrate that cold nociception constitutes
 a peripheral neural basis for Drosophila larval cold acclimation.
DOI: 10.5061/dryad.w3r2280qq
title: Physiological response of Populus × euramericana clone to soil zinc (Zn)

description: We investigated the response of hybrid poplar to the effect of high Zinc
 (Zn) concentrations. Plant responses to Zn were
 determined by comparing photosynthetic-related traits (light-saturated
 photosynthetic rate, stomatal conductance, mesophyll conductance the
 maximum rate of carboxylation (Vcmax), and the maximum rate
 of electron transport (Jmax)) measured at 0 mM and 1 mM
 of soil Zn.
description: <i>A</i>–<i>C</i><sub>i</sub>
 response curves measured at saturating light using li-6400 for hybrid
 poplar clone.
description: This data package includes the files needed to reproduce the
 analyses of the following paper: Raed Elferjani, Lahcen Benomar, Mina
 Momayyezi, Roberto Tognetti, Ülo Niinemets, Raju Y Soolanayakanahally,
 Guillaume Théroux-Rancourt, Tiina Tosens, Francesco Ripullone, Simon
 Bilodeau-Gauthier, Mohammed S Lamhamedi, Carlo Calfapietra, Mebarek
 Lamara, A meta-analysis of mesophyll conductance to CO2 in relation to
 major abiotic stresses in poplar species, Journal of Experimental Botany,
 2021; erab127, https://doi.org/10.1093/jxb/erab127
DOI: 10.5061/dryad.8sf7m0cmw
title: Mangrove wetland restoration in China

description: The large-scale conversion of natural mangroves to aquaculture reduces
 species richness and diversity. Large areas of abandoned aquaculture ponds
 in areas where mangroves formerly predominated in China and Southeast Asia
 represent important potential effective targets for mangrove restoration.
 Here, we empirically assessed the α-diversity (species richness) and
 β-diversity (variation in community composition) of mangrove,
 macrobenthos, fish, and waterbird in a tropical mangrove bay on Hainan
 Island, China. We compared sites subjected to different pond-to-mangrove
 restoration programs more than 20 years ago (passive restoration without
 planting, and active restoration with planting) to nearby reference site
 with natural mangrove forests and mudflats. To better understand how
 β-diversity responds to restoration, we also distinguished between
 β-diversity turnover and nestedness (richness difference). In general,
 α-diversity values for both fish and waterbird communities, and
 β-diversity values for the mangrove, macrobenthos, and waterbird
 communities were lower at the restoration sites than at the reference
 site, suggesting that the strong homogenizing effects of anthropogenic
 habitat alternation was still apparent after more than 20 years since
 aquaculture ceased. In addition, spatial turnover, not nestedness,
 dominated total β-diversity both across the whole study area and at
 individual sites, suggesting that multiple processes, such as
 environmental filtering, helped to shape multi-taxa community structures.
 Moreover, we found no evidence that planting in the abandoned ponds, in
 addition to standard hydrological restoration, supported greater species
 diversity of taxa like macrobenthos and waterbird than the naturally
 regenerated site after more than 20 years’ recovery. Our results underline
 the importance of avoiding the conversion of natural mangrove stands to
 aquaculture wherever possible, and the urgent need to design effective
 mangrove restoration techniques in tropical Asia.
DOI: 10.5281/zenodo.18396909
title: Tailor Maid Clean – McKinney's Choice for Quality Cleaning

description: Tailor Maid Clean is your go-to provider for reliable, eco-conscious cleaning services in McKinney TX. Based at 307 S McDonald St, McKinney TX 75069, they offer fully customizable plans and a team of trustworthy professionals. Call 214-491-5506 or visit tailormaidclean.com for a clean you can count on.
DOI: 10.25338/b8h62z
title: Effects of size selection versus density dependence on life histories: a first experimental probe

description: When prey experience size-based harvesting by predators, they are not only
 subject to selection due to larger individuals being preferentially
 harvested but also selection due to reductions in population density.
 Density-dependent selection represents one of the most basic interactions
 between ecology and evolution. Yet, the reduction in density associated
 with exploitation has not been tested as a possible driving force of
 observed evolutionary changes in populations harvested size-dependently.
 Using an artificial selection experiment with a mixture of Daphnia clones,
 we partition the evolutionary effects of size-based harvesting into the
 effects of removing large individuals and the effects of lowering the
 population density. We show that both size selection and density-dependent
 selection are significant drivers of life-history evolution. Importantly,
 these drivers affected different life-history traits with size-selective
 harvesting selecting for slower juvenile growth rates and a larger size at
 maturity, and low density selecting for reduced reproductive output.
description: <b>Density and size-selection life-history
 data</b> Data in the two csv files were collected
 from individual <i>Daphnia</i> following the selection
 experiment. The column header abbreviations follow. ID (identification of
 an idividual), density (high (H) or low (L) density treated), selection
 (randomly culled (R) or size-selectively culled (S)), block (indicator of
 block), Am (age at maturity), max (estimated maximum size), growth
 (estimated growth rate measure), totegg_30 (total reproductive output up
 to day 30), size_mat (size at maturity), growth_i (size at first
 measurement), growth_f (size at third measurement), growth_rt (an
 alternate measure of growth, equal to mm grown per day), max_obs (max
 observed size). ind.data.selection.csv
 ind.data.alt.measures.csv <b>Variance
 within lines data</b> Average and standard errors
 for five life-history traits (age at maturity, size at maturity, estimated
 maximum size, days to half-maximum size, and total reproductive output up
 to day 30) for each of eight clonal lines.
 lines.summary.csv <b>Density over
 time</b> Abundances from the microcosms for all
 treatments and blocks over the three-week experiment.
 density.csv <b>R code for running
 analyses</b> R code Lyberger 2021.R
DOI: 10.5281/zenodo.18396908
title: Tailor Maid Clean – McKinney's Choice for Quality Cleaning

description: Tailor Maid Clean is your go-to provider for reliable, eco-conscious cleaning services in McKinney TX. Based at 307 S McDonald St, McKinney TX 75069, they offer fully customizable plans and a team of trustworthy professionals. Call 214-491-5506 or visit tailormaidclean.com for a clean you can count on.
DOI: 10.6084/m9.figshare.31165357
title: Datasets for Mapping Overcapacity Risk in Indonesian Correctional Institutions (Capacity, Inmates, Crimes, Drug Cases, and Supreme Court Resolution Ratio), 2024

description: This dataset compiles multi-source quantitative indicators used to map the risk of overcapacity in correctional institutions in Indonesia (2024). It includes provincial correctional capacity and inmate population statistics for calculating overcapacity ratios, inmate counts per correctional unit (prisons and detention centers) to represent facility-level occupancy distribution, crime statistics by regional police forces to describe crime burden, provincial drug case statistics for Q4 2024 as a criminogenic indicator, and Supreme Court case resolution ratios as a complementary measure of justice system performance. The data are prepared to support reproducible risk mapping and clustering analysis using Principal Component Analysis (PCA) for dimensionality reduction and Fuzzy C-Means (FCM) clustering for grouping regions based on overcapacity risk profiles. This dataset is intended for research and policy analysis related to prison overcrowding, correctional management, and criminology in Indonesia.
DOI: 10.6084/m9.figshare.31165357.v1
title: Datasets for Mapping Overcapacity Risk in Indonesian Correctional Institutions (Capacity, Inmates, Crimes, Drug Cases, and Supreme Court Resolution Ratio), 2024

description: This dataset compiles multi-source quantitative indicators used to map the risk of overcapacity in correctional institutions in Indonesia (2024). It includes provincial correctional capacity and inmate population statistics for calculating overcapacity ratios, inmate counts per correctional unit (prisons and detention centers) to represent facility-level occupancy distribution, crime statistics by regional police forces to describe crime burden, provincial drug case statistics for Q4 2024 as a criminogenic indicator, and Supreme Court case resolution ratios as a complementary measure of justice system performance. The data are prepared to support reproducible risk mapping and clustering analysis using Principal Component Analysis (PCA) for dimensionality reduction and Fuzzy C-Means (FCM) clustering for grouping regions based on overcapacity risk profiles. This dataset is intended for research and policy analysis related to prison overcrowding, correctional management, and criminology in Indonesia.
DOI: 10.5061/dryad.c866t1g6c
title: Litter commensal bacteria can limit the horizontal gene transfer of antimicrobial resistance to Salmonella in chickens

description: Fostering a 'balanced' gut microbiome through the administration
 of beneficial microbes that can competitively exclude pathogens has gained
 a lot of attention and use in human and animal medicine. However, little
 is known on how microbes affect the horizontal gene transfer of
 antimicrobial resistance (AMR). To shed more light on this question, we
 challenged neonatal broiler chicks raised on reused broiler chicken litter
 – a complex environment made up of decomposing pine shavings, feces, uric
 acid, feathers, and feed, with Salmonella Heidelberg (S. Heidelberg), a
 model pathogen. We used 16S rRNA gene sequencing and metagenomics to show
 that chicks raised on reused litter harbored a uniform and diverse
 microbiome compared to chicks raised on fresh litter. Furthermore, whole
 genome sequencing revealed that chicks grown on reused litter were at a
 lower risk of colonization with S. Heidelberg strains that encoded AMR on
 plasmids. We found that E. coli was the main reservoir of plasmids
 encoding AMR and that IncI1 plasmid was maintained at a significantly
 lower copy per cell in reused litter compared to fresh litter. These
 results supports the notion that commensal bacteria can competitively
 exclude pathogens that harbor plasmids encoding AMR.
DOI: 10.5281/zenodo.18396911
title: PEDAGOGICAL BASIS OF DIRECTING YOUNG STUDENTS TOWARDS ENGINEERING PROFESSIONS

description: This article examines the pedagogical foundations of orienting school students toward engineering professions. In the context of rapid technological development and increasing demand for engineering specialists, the issue of early and purposeful career guidance becomes particularly relevant. The study analyzes theoretical approaches to career guidance, pedagogical conditions for developing students’ interest in engineering fields, and effective educational strategies such as STEAM education and project-based learning. The findings highlight the importance of integrating innovative pedagogical methods into the educational process to foster students’ technical thinking, creativity, and professional motivation.
DOI: 10.5061/dryad.2v6wwpzmz
title: Rhodocybe brunneoaurantiaca (sect. Rufrobrunnea, Entolomataceae): A new species from India

description: We describe a new species of Rhodocybe, R. brunneoaurantiaca, from West
 Bengal, India. Field photographs of the collected basidiocarps
 are provided and the new species is compared with its allied taxa
 based on morphological and molecular (nrITS and nrLSU sequence)
 data. Rhodocybe brunneoaurantiaca is characterized by
 clitocyboid basidiomata with a small (25–41 mm), infundibuliform,
 brownish orange to brown pileus; decurrent, brittle, greyish
 orange to light brown lamellae; a smooth light brown to brown
 stipe; ellipsoid to broadly ellipsoid basidiospores; 2–4-spored
 basidia; cylindrical to slender clavate, flexuous cheilocystidia;
 and unique sequences. A full description with illustrations, and
 phylogenetic trees showing the placement of the new species based
 on molecular sequence data are provided as well as an artificial
 key to the reported species of Rhodocybe from India.
description: <strong>Morphological studies</strong>
 Specimens were collected from the Burdwan district of the state
 West Bengal in August 2019; a detailed description of the
 macro-morphological features was made from the fresh collections. Colour
 determination codes followed Kornerup and Wanscher (1978). Collected
 specimens were taken to the laboratory and dried by a cost effective,
 handmade field drier using a 40-watt bulb as the heat source
 (40–50°C). <br> To examine the microscopic features, thin handmade
 sections were made from different parts of the dried basidiomata and
 rehydrated in 5% KOH and distilled water and stained with Congo Red.
 Melzer’s reagent was used to test the amyloid or inamyloid nature of the
 basidiospores. Measurements of the basidiospores were based on 30 spores
 from each of the two collections. Basidiospore measurements exclude the
 apiculus. Minimum and maximum measured values are given in parentheses. Xm
 denotes mean spore length ± SD × mean spore width ± SD. Q values were
 calculated from length/width ratio of each of the measured basidiospores
 and are provided as range variation. Qm denotes mean of Q values ± SD. The
 holotype specimen was deposited in the Central National Herbarium, Howrah
 (CAL) and the paratype specimen was deposited in the Calcutta University
 herbarium (CUH). <strong>DNA extraction, PCR
 amplification and sequencing</strong> Genomic DNA
 was extracted following Dutta et al. (2020). The primer pairs, ITS1/ITS4
 (White et al. 1990) and LR0R/LR3 (Vilgalys and Hester 1990), were used for
 selective amplification of the nrITS and nrLSU regions. The PCR cycling
 conditions for the amplification of desired regions followed Dutta et al.
 (2015b). Sequencing of the amplified regions was done using the same
 primers used for PCR amplifications. The qualities of the generated
 sequences were determined by observing the chromatogram with BioEdit v.
 7.2.5 (Hall 1999). The newly generated sequences were deposited in GenBank
 (&lt;www.ncbi.nlm.nih.gov&gt;), and their accession numbers along
 with details of vouchers are listed in Table 1.
DOI: 10.5281/zenodo.18396910
title: PEDAGOGICAL BASIS OF DIRECTING YOUNG STUDENTS TOWARDS ENGINEERING PROFESSIONS

description: This article examines the pedagogical foundations of orienting school students toward engineering professions. In the context of rapid technological development and increasing demand for engineering specialists, the issue of early and purposeful career guidance becomes particularly relevant. The study analyzes theoretical approaches to career guidance, pedagogical conditions for developing students’ interest in engineering fields, and effective educational strategies such as STEAM education and project-based learning. The findings highlight the importance of integrating innovative pedagogical methods into the educational process to foster students’ technical thinking, creativity, and professional motivation.
DOI: 10.5061/dryad.sqv9s4n3r
title: Metabolic depression in sea urchin barrens associated with food deprivation

description: The proliferation of sea urchins can decimate macroalgal forests in
 coastal ecosystems, leading to persistent barren seascapes. While kelp
 forests are among the most productive ecosystems on the planet,
 productivity in these urchin barrens is dramatically reduced. Moreover,
 urchins inhabiting these food-depauperate barrens face starvation and many
 survive in these barrens for years or decades. Urchins in barrens can
 persist by eating food subsidies from drift algae, pelagic salps,
 tubeworms, as well as encrusting and filamentous algae, microbial mats,
 and slow-growing species resistant to herbivory. Despite both food from
 endogenous production and exogenous subsidies, many urchins in barrens
 likely experience prolonged food deprivation. This resource limitation may
 create a trade-off between reproduction and survival; for example,
 fecundity of purple sea urchins (Strongylocentrotus purpuratus) is 99.9%
 lower in barrens. Despite food constraints, red sea urchins (Mesocentrotus
 franciscanus), the dominant urchin species at our study sites, can live in
 excess of 100 years and barrens in Haida Gwaii, British Columbia (BC),
 Canada, have persisted for at least 143 years. While these phenomena are
 widespread and well documented, the bioenergetic adaptations that allow
 urchins to persist in these food-depauperate barrens remain poorly
 understood. To quantify habitat-specific differences in metabolic rates
 and energy reserves (as measured by gonadal mass), we conducted
 respirometry on and measured gonadal mass in M.
 franciscanus at three locations in BC inside and outside of
 adjacent kelp forest and barrens habitat. Here we demonstrate
 that M. franciscanus in barrens versus kelp forests have
 substantially lower energy reserves and, importantly, also exhibit
 dramatic reductions in size-specific resting metabolic rates (RMR), even
 after standardizing by metabolically active body mass. On average, gonadal
 mass was 44.6% lower and RMR scaled to metabolically active body mass was
 40% lower in barrens urchins than in kelp forest urchins. Such a shift in
 metabolic rate may provide a mechanism that facilitates barren state
 stability over long time scales as M. franciscanus can
 lower energetic demands while they wait for small pulses of food, scrape
 by on low-productivity resources, and suppress recruitment of macroalgae
 for months, years, or decades.
description: This respirometry dataset was collected using custom-built sealed
 chambers fitted with flow-through optical oxygen sensors and a temperature
 sensor (Presens Precision Sensing GmbH). We conducted quality control on
 oxygen time series data using the R package respR (Harianto et al.
 2019).
DOI: 10.5061/dryad.9cnp5hqhp
title: Mesophyll conductance to CO2 in relation to drought in hybrid poplar

description: The study examines the physiological response of two hybrid poplar clones
 to two soil moisture: control (80% field capacity) and drought (40 % field
 capacity). Four weeks after treatments, we measured the photosynthetic CO2
 response curve and estimated mesophyll conductance, Vcmax and
 Jmax. Amax, gse,  gm et Vcmax decreased under drought.
 The ratio gm to gs increased under drought conditions.
description: <i>A–C</i><sub>i</sub> response curves of
 photosynthesis measured at saturating light using Li-6400
description: This data includes the files needed to reproduce the analyses of
 the following paper: Raed Elferjani, Lahcen Benomar,
 Mina Momayyezi, Roberto Tognetti, Ülo Niinemets, Raju Y
 Soolanayakanahally, Guillaume Théroux-Rancourt, Tiina Tosens, Francesco
 Ripullone, Simon Bilodeau-Gauthier, Mohammed S Lamhamedi, Carlo
 Calfapietra, Mebarek Lamara, A meta-analysis of mesophyll conductance to
 CO<sub>2</sub> in relation to major abiotic stresses in poplar
 species, <em>Journal of Experimental Botany</em>, 2021,
 erab127, https://doi.org/10.1093/jxb/erab127
DOI: 10.5061/dryad.wh70rxwn5
title: Sequences and triplets for rooted phylogenetic networks construction

description: Reconstruction of rooted phylogenetic networks opens exciting new
 possibilities for determining the evolution process of organisms and
 genes. While most of the presented methods produce rooted phylogenetic
 networks just using the set of reliable triplets, category of unlikely
 relationships between taxa will improve the quality and reliability of
 these networks. Here we present two approaches to produce a rooted
 phylogenetic network from a given set of reliable triplets and a given set
 of forbidden triplets, which is known as mixed triplets problem or MT. The
 first approach produces a rooted phylogenetic network containing the whole
 set of reliable triplets and inconsistent with any triplet of forbidden
 set. The second one is an efficient heuristic method for constructing
 rooted phylogenetic networks consistent with the maximum number of
 reliable triplets and avoiding the most probable part of forbidden
 triplets. We show that our heuristic method provides optimum
 rooted phylogenetic networks in all cases via some experiments using
 simulated and real data.