bluuebunny/crossref_metadata_2025_split huggingface dataset:
Exploring Survey-Based Water, Sanitation, and Animal Associations With Enteric Pathogen Carriage: Comparing Results in a Cohort of Cases With Moderate-to-Severe Diarrhea to Those in Controls in the Vaccine Impact on Diarrhea in Africa (VIDA) Study, 2015–2018
Authors: Berendes David M , Omore Richard , Prentice-Mott Graeme , Fagerli Kirsten , Kim Sunkyung , Nasrin Dilruba , Powell Helen , Jahangir Hossain M , Sow Samba O , Doh Sanogo , Jones Joquina Chiquita M , Ochieng John B , Juma Jane , Awuor Alex O , Ogwel Billy , Verani Jennifer R , Widdowson Marc-Alain , Kasumba Irene N , Tennant Sharon M , Roose Anna , Zaman Syed M A , Liu Jie , Sugerman Ciara E , Platts-Mills James A , Houpt Eric R , Kotloff Karen L , Mintz Eric D 
Published: April 2023

Abstract

Background
The magnitude of pediatric enteric pathogen exposures in low-income settings necessitates substantive water and sanitation interventions, including animal feces management. We assessed associations between pediatric enteric pathogen detection and survey-based water, sanitation, and animal characteristics within the Vaccine Impact on Diarrhea in Africa case-control study.

Methods
In The Gambia, Kenya, and Mali, we assessed enteric pathogens in stool of children aged &lt;5 years with moderate-to-severe diarrhea and their matched controls (diarrhea-free in prior 7 days) via the TaqMan Array Card and surveyed caregivers about household drinking water and sanitation conditions and animals living in the compound. Risk ratios (RRs) and 95% confidence intervals (CIs) were calculated using modified Poisson regression models, stratified for cases and controls and adjusted for age, sex, site, and demographics.

Results
Bacterial (cases, 93%; controls, 72%), viral (63%, 56%), and protozoal (50%, 38%) pathogens were commonly detected (cycle threshold &lt;35) in the 4840 cases and 6213 controls. In cases, unimproved sanitation (RR, 1.56; 95% CI, 1.12–2.17), as well as cows (RR, 1.61; 95% CI, 1.16–2.24) and sheep (RR, 1.48; 95% CI, 1.11–1.96) living in the compound, were associated with Shiga toxin–producing Escherichia coli. In controls, fowl (RR, 1.30; 95% CI, 1.15–1.47) were associated with Campylobacter spp. In controls, surface water sources were associated with Cryptosporidium spp., Shigella spp., heat-stable toxin-producing enterotoxigenic E. coli, and Giardia spp.

Conclusions
Findings underscore the importance of enteric pathogen exposure risks from animals alongside more broadly recognized water and sanitation risk factors in children.
Exploration of a Potential Desirability of Outcome Ranking Endpoint for Complicated Intra-Abdominal Infections Using 9 Registrational Trials for Antibacterial Drugs
Authors: Kinamon Tori , Gopinath Ramya , Waack Ursula , Needles Mark , Rubin Daniel , Collyar Deborah , Doernberg Sarah B , Evans Scott , Hamasaki Toshimitsu , Holland Thomas L , Howard-Anderson Jessica , Chambers Henry , Fowler Vance G , Nambiar Sumati , Kim Peter , Boucher Helen W 
Published: April 2023

Abstract

Background
Desirability of outcome ranking (DOOR) is a novel approach to clinical trial design that incorporates safety and efficacy assessments into an ordinal ranking system to evaluate overall outcomes of clinical trial participants. Here, we derived and applied a disease-specific DOOR endpoint to registrational trials for complicated intra-abdominal infection (cIAI).

Methods
Initially, we applied an a priori DOOR prototype to electronic patient-level data from 9 phase 3 noninferiority trials for cIAI submitted to the US Food and Drug Administration between 2005 and 2019. We derived a cIAI-specific DOOR endpoint based on clinically meaningful events that trial participants experienced. Next, we applied the cIAI-specific DOOR endpoint to the same datasets and, for each trial, estimated the probability that a participant assigned to the study treatment would have a more desirable DOOR or component outcome than if assigned to the comparator.

Results
Three key findings informed the cIAI-specific DOOR endpoint: (1) a significant proportion of participants underwent additional surgical procedures related to their baseline infection; (2) infectious complications of cIAI were diverse; and (3) participants with worse outcomes experienced more infectious complications, more serious adverse events, and underwent more procedures. DOOR distributions between treatment arms were similar in all trials. DOOR probability estimates ranged from 47.4% to 50.3% and were not significantly different. Component analyses depicted risk-benefit assessments of study treatment versus comparator.

Conclusions
We designed and evaluated a potential DOOR endpoint for cIAI trials to further characterize overall clinical experiences of participants. Similar data-driven approaches can be utilized to create other infectious disease–specific DOOR endpoints.
Targeted Community Merging provides an efficient comparison between collaboration clusters and departmental partitions
Authors: Bauza F J , Ruiz-Manzanares G , Gómez-Gardeñes J , Tarancón A , Íñiguez D 
Published: April 2023

Abstract
Community detection theory is vital for the structural analysis of many types of complex networks, especially for human-like collaboration networks. In this work, we present a new community detection algorithm, the Targeted Community Merging algorithm, based on the well-known Girvan–Newman algorithm, which allows obtaining community partitions with high values of modularity and a small number of communities. We then perform an analysis and comparison between the departmental and community structure of scientific collaboration networks within the University of Zaragoza. Thus, we draw valuable conclusions from the inter- and intra-departmental collaboration structure that could be useful to take decisions on an eventual departmental restructuring.
Development of a new ‘human cyber-resilience scale’
Authors: Joinson Adam N , Dixon Matt , Coventry Lynne , Briggs Pam 
Published: April 2023

Abstract
While there has been an upsurge in interest in cyber resilience in organizations, we know little about the resilience of individuals to cyber attacks. Cyber resilience in a domestic or non-work setting is important because we know that the majority of people will face cyber threats in their use of technology across a range of contexts, and the ability to resist a cyber attack, or quickly recover and learn from a successful attack, is as important for individuals’ wellbeing as it is for organizations. There is, unfortunately, a dearth of studies on the cyber resilience of people, in part because it is not clear how such a construct could be defined and then measured. In the present work, we present a series of five studies—with a total sample of n = 1503—that sought to develop and validate a theoretically based measure of cyber resilience for individuals. The final scale, comprising 16 items and 4 subscales (self-efficacy, learning and growth, social support, and helplessness), demonstrates good internal reliability and validity.
Successful treatment of refractory chylothorax with MEK inhibitor trametinib in a child with Noonan syndrome: case report
Authors: Hribernik Ines , Brooks Teresa , Dunlop-Jones Alix , Bentham James R 
Published: April 2023

Abstract

Background
Refractory chylous effusions due to lymphatic dysplasia related to Noonan syndrome cause significant morbidity and mortality due to protein and immunoglobulin losses. Very few cases have been published reporting successful treatment of patients with trametinib where all conventional treatments had failed.

Case summary
We present a girl with Noonan syndrome and hypertrophic cardiomyopathy who presented with life-threatening refractory chylothorax where all conventional treatment options failed. She was successfully treated with mitogen-activated extracellular signal-regulated kinase inhibitor trametinib.

Discussion
MEK inhibition with trametinib is emerging as a possible salvage treatment option for a subset of patients with Noonan syndrome and severe pulmonary lymphangiectasia. More experience is required to establish optimal treatment regimen and long-term outcomes.
Shared patterns of segment size development in trilobites and vertebrates
Authors: Nikolic Mark C , Hopkins Melanie J , Evans Alistair R 
Published: April 2023

Abstract
The relative sizes of body segments are a major determinant of the shape and functionality of an animal. Developmental biases affecting this trait can therefore have major evolutionary implications. In vertebrates, a molecular activator/inhibitor mechanism, known as the inhibitory cascade (IC), produces a simple and predictable pattern of linear relative size along successive segments. The IC model is considered the default mode of vertebrate segment development and has produced long-term biases in the evolution of serially homologous structures such as teeth, vertebrae, limbs, and digits. Here we investigate whether the IC model or an IC-like model also has controls on segment size development in an ancient and hyperdiverse group of extinct arthropods, the trilobites. We examined segment size patterning in 128 trilobite species, and during ontogenetic growth in three trilobite species. Linear relative segment size patterning is prominent throughout the trunk of trilobites in the adult form, and there is strict regulation of this patterning in newly developing segments in the pygidium. Extending the analysis to select stem and modern arthropods suggests that the IC is a common default mode of segment development capable of producing long-term biases in morphological evolution across arthropods as it does in vertebrates.
Body size and substrate use affect ventral, but not dorsal, brightness evolution in lizards
Authors: Goldenberg Jonathan , Massetti Federico , D’Alba Liliana , Shawkey Matthew D 
Published: April 2023

AbstractSubstrate properties can affect the thermal balance of organisms, and the colored integument, alongside other factors, may influence heat transfer via differential absorption and reflection. Dark coloration may lead to higher heat absorption and could be advantageous when substrates are cool (and vice versa for bright coloration), but these effects are rarely investigated. Here, we examined the effect of substrate reflectance, specific heat capacity (cp), and body size on the dorso-ventral brightness using 276 samples from 12 species of cordylid lizards distributed across 26 sites in South Africa. We predicted, and found, that bright ventral colors occur more frequently in low cp (i.e., drier, with little energy needed for temperature change) substrates, especially in larger body-sized individuals, possibly to better modulate heat transfer with the surrounding environment. By contrast, dorsal brightness was not associated with body size nor any substrate thermal property, suggesting selection pressures other than thermoregulation. Ancestral estimation and evolutionary rate analyses suggest that ventral brightness rapidly differentiated within the Cordylinae starting 25 Mya, coinciding with an aridification period, further hinting at a thermoregulatory role for ventral colors. Our study indicates that substrate properties can have a direct role in shaping the evolution of ventral brightness in ectotherms.
Continuity of care and mortality for patients with chronic disease: an observational study using Norwegian registry data
Authors: Pahlavanyali Sahar , Hetlevik Øystein , Baste Valborg , Blinkenberg Jesper , Hunskaar Steinar 
Published: April 2023

Abstract

Background
Research on continuity of care (CoC) is mainly conducted in primary care and has received little acknowledgment in other levels of care. This study sought to investigate CoC across care levels for patients with selected chronic diseases, along with its association with mortality.

Methods
In a registry-based cohort study, patients with ≥1 consultation in primary or specialist healthcare or hospital admission with asthma, chronic obstructive pulmonary disease (COPD), diabetes mellitus, or heart failure in 2012 were linked to disease-related consultation data in 2013–2016. CoC was measured by Usual Provider of Care index (UPC) and Bice–Boxermann continuity of care score (COCI). Values equal to one were categorized into one group and the rest into three equal groups (tertiles). The association with mortality was determined by Cox regression models.

Results
The highest mean UPCtotal was measured for patients with diabetes mellitus (0.58) and the lowest for those with asthma (0.46). The population with heart failure had the highest death rate (26.5). In adjusted Cox regression analyses for COPD, mortality was 2.6 times higher (95% CI 2.25–3.04) for patients in the lowest tertile of continuity compared to those with UPCtotal = 1. Patients with diabetes mellitus and heart failure showed similar results.

Conclusion
CoC was moderate to high for disease-related contacts across care levels. A higher mortality associated with lower CoC was observed for patients with COPD, diabetes mellitus, and heart failure. A similar, but not statistically significant trend was found for patients with asthma. This study suggests that higher CoC across levels of care can decrease mortality.
Lymphatic contractile dysfunction in mouse models of Cantú Syndrome with KATP channel gain-of-function
Authors: Davis Michael J , Castorena-Gonzalez Jorge A , Kim Hae Jin , Li Min , Remedi Maria , Nichols Colin G 
Published: April 2023

Abstract
Cantú Syndrome (CS) is an autosomal dominant disorder caused by gain-of-function (GoF) mutations in the Kir6.1 and SUR2 subunits of KATP channels. KATP overactivity results in a chronic reduction in arterial tone and hypotension, leading to other systemic cardiovascular complications. However, the underlying mechanism of lymphedema, developed by &gt;50% of CS patients, is unknown. We investigated whether lymphatic contractile dysfunction occurs in mice expressing CS mutations in Kir6.1 (Kir6.1[V65M]) or SUR2 (SUR2[A478V], SUR2[R1154Q]). Pressure myograph tests of contractile function of popliteal lymphatic vessels over the physiological pressure range revealed significantly impaired contractile strength and reduced frequency of spontaneous contractions at all pressures in heterozygous Kir6.1[V65M] vessels, compared to control littermates. Contractile dysfunction of intact popliteal lymphatics in vivo was confirmed using near-infrared fluorescence microscopy. Homozygous SUR2[A478V] vessels exhibited profound contractile dysfunction ex vivo, but heterozygous SUR2[A478V] vessels showed essentially normal contractile function. However, further investigation of vessels from all three GoF mouse strains revealed significant disruption in contraction wave entrainment, decreased conduction speed and distance, multiple pacemaker sites, and reversing wave direction. Tests of 2-valve lymphatic vessels forced to pump against an adverse pressure gradient revealed that all CS-associated genotypes were essentially incapable of pumping under an imposed outflow load. Our results show that varying degrees of lymphatic contractile dysfunction occur in proportion to the degree of molecular GoF in Kir6.1 or SUR2. This is the first example of lymphatic contractile dysfunction caused by a smooth muscle ion channel mutation and potentially explains the susceptibility of CS patients to lymphedema.
A novel ubiquitin–proteasome system regulation of Sgf73/ataxin-7 that maintains the integrity of the coactivator SAGA in orchestrating transcription
Authors: Barman Priyanka , Kaja Amala , Chakraborty Pritam , Guha Shalini , Roy Arpan , Ferdoush Jannatul , Bhaumik Sukesh R 
Published: April 2023

Abstract
Ataxin-7 maintains the integrity of Spt-Ada-Gcn5-Acetyltransferase (SAGA), an evolutionarily conserved coactivator in stimulating preinitiation complex (PIC) formation for transcription initiation, and thus, its upregulation or downregulation is associated with various diseases. However, it remains unknown how ataxin-7 is regulated that could provide new insights into disease pathogenesis and therapeutic interventions. Here, we show that ataxin-7's yeast homologue, Sgf73, undergoes ubiquitylation and proteasomal degradation. Impairment of such regulation increases Sgf73's abundance, which enhances recruitment of TATA box-binding protein (TBP) (that nucleates PIC formation) to the promoter but impairs transcription elongation. Further, decreased Sgf73 level reduces PIC formation and transcription. Thus, Sgf73 is fine-tuned by ubiquitin–proteasome system (UPS) in orchestrating transcription. Likewise, ataxin-7 undergoes ubiquitylation and proteasomal degradation, alteration of which changes ataxin-7's abundance that is associated with altered transcription and cellular pathologies/diseases. Collectively, our results unveil a novel UPS regulation of Sgf73/ataxin-7 for normal cellular health and implicate alteration of such regulation in diseases.
Homogenization of magnitudes of the ISC Bulletin
Authors: Lolli Barbara , Randazzo Daniele , Vannucci Gianfranco , Biondini Emanuele , Gasperini Paolo 
Published: April 2023

SUMMARY
We implemented an automatic procedure to download the hypocentral data of the online Bulletin of the International Seismological Centre (ISC) in order to produce in near real-time a homogeneous catalogue of the Global and EuroMediterranean instrumental seismicity to be used for forecasting experiments and other statistical analyses. For the interval covered by the reviewed ISC Bulletin, we adopt the ISC locations and convert the surface wave magnitude (Ms) and short-period body-wave magnitude (mb) as computed by the ISC to moment magnitude (Mw), using empirical relations. We merge the so obtained proxies with real Mw provided by global and EuroMediterranean moment tensor catalogues. For the most recent time interval (about 2 yr) for which the reviewed ISC Bulletin is not available, we do the same but using the preferred (prime) location provided by the ISC Bulletin and converting to Mw the Ms and mb provided by some authoritative agencies. For computing magnitude conversion equations, we use curvilinear relations defined in a previous work and the chi-square regression method that accounts for the uncertainties of both x and y variables.
Observation site selection for physical model parameter estimation towards process-driven seismic wavefield reconstruction
Authors: Nakai K , Nagata T , Yamada K , Saito Y , Nonomura T , Kano M , Ito S , Nagao H 
Published: April 2023

SUMMARYThe ‘big’ seismic data not only acquired by seismometers but also acquired by vibrometers installed in buildings and infrastructure and accelerometers installed in smartphones will be certainly utilized for seismic research in the near future. Since it is impractical to utilize all the seismic big data in terms of the computational cost, methods which can select observation sites depending on the purpose are indispensable. We propose an observation site selection method for the accurate reconstruction of the seismic wavefield by process-driven approaches. The proposed method selects observation sites suitable for accurately estimating physical model parameters such as subsurface structures and source information to be input into a numerical simulation of the seismic wavefield. The seismic wavefield is reconstructed by the numerical simulation using the parameters estimated based on the observed signals at only observation sites selected by the proposed method. The observation site selection in the proposed method is based on the sensitivity of each observation site candidate to the physical model parameters; the matrix corresponding to the sensitivity is constructed by approximately calculating the derivatives based on the simulations, and then, observation sites are selected by evaluating the quantity of the sensitivity matrix based on the D-optimality criterion proposed in the optimal design of experiments. In this study, physical knowledge on the sensitivity to the parameters such as seismic velocity, layer thickness, and hypocentre location was obtained by investigating the characteristics of the sensitivity matrix. Furthermore, the effectiveness of the proposed method was shown by verifying the accuracy of seismic wavefield reconstruction using the observation sites selected by the proposed method.
Genomic features of meiotic crossovers in diploid potato
Authors: Jiang Xiuhan , Li Dawei , Du Hui , Wang Pei , Guo Liang , Zhu Guangtao , Zhang Chunzhi 
Published: April 2023

Abstract
Meiotic recombination plays an important role in genome evolution and crop improvement. Potato (Solanum tuberosum L.) is the most important tuber crop in the world, but research about meiotic recombination in potato is limited. Here, we resequenced 2163 F2 clones derived from five different genetic backgrounds and identified 41 945 meiotic crossovers. Some recombination suppression in euchromatin regions was associated with large structural variants. We also detected five shared crossover hotspots. The number of crossovers in each F2 individual from the accession Upotato 1 varied from 9 to 27, with an average of 15.5, 78.25% of which were mapped within 5 kb of their presumed location. We show that 57.1% of the crossovers occurred in gene regions, with poly-A/T, poly-AG, AT-rich, and CCN repeats enriched in the crossover intervals. The recombination rate is positively related with gene density, SNP density, Class II transposon, and negatively related with GC density, repeat sequence density and Class I transposon. This study deepens our understanding of meiotic crossovers in potato and provides useful information for diploid potato breeding.
Creation of a watermelon haploid inducer line via ClDMP3-mediated single fertilization of the central cell
Authors: Chen Xiner , Li Yuxiu , Ai Gongli , Chen Jinfan , Guo Dalong , Zhu Zhonghou , Zhu Xuejie , Tian Shujuan , Wang Jiafa , Liu Man , Yuan Li 
Published: April 2023

Abstract
The use of doubled haploids is one of the most efficient breeding methods in modern agriculture. Irradiation of pollen grains has been shown to induce haploids in cucurbit crops, possibly because it causes preferential fertilization of the central cell over the egg cell. Disruption of the DMP gene is known to induce single fertilization of the central cell, which can lead to the formation of haploids. In the present study, a detailed method of creating a watermelon haploid inducer line via ClDMP3 mutation is described. The cldmp3 mutant induced haploids in multiple watermelon genotypes at rates of up to 1.12%. These haploids were confirmed via fluorescent markers, flow cytometry, molecular markers, and immuno-staining. The haploid inducer created by this method has the potential to greatly advance watermelon breeding in the future.