bluuebunny/crossref_metadata_2025_split huggingface dataset:
Sources of bias in applying close‐kin mark–recapture to terrestrial game species with different life histories
Authors: Sévêque Anthony , Lonsinger Robert C. , Waits Lisette P. , Brzeski Kristin E. , Komoroske Lisa M. , Ott‐Conn Caitlin N. , Mayhew Sarah L. , Norton D. Cody , Petroelje Tyler R. , Swenson John D. , Morin Dana J. 
Published: January 2024

AbstractClose‐kin mark–recapture (CKMR) is a method analogous to traditional mark–recapture but without requiring recapture of individuals. Instead, multilocus genotypes (genetic marks) are used to identify related individuals in one or more sampling occasions, which enables the opportunistic use of samples from harvested wildlife. To apply the method accurately, it is important to build appropriate CKMR models that do not violate assumptions linked to the species’ and population's biology and sampling methods. In this study, we evaluated the implications of fitting overly simplistic CKMR models to populations with complex reproductive success dynamics or selective sampling. We used forward‐in‐time, individual‐based simulations to evaluate the accuracy and precision of CKMR abundance and survival estimates in species with different longevities, mating systems, and sampling strategies. Simulated populations approximated a range of life histories among game species of North America with lethal sampling to evaluate the potential of using harvested samples to estimate population size. Our simulations show that CKMR can yield nontrivial biases in both survival and abundance estimates, unless influential life history traits and selective sampling are explicitly accounted for in the modeling framework. The number of kin pairs observed in the sample, in combination with the type of kinship used in the model (parent–offspring pairs and/or half‐sibling pairs), can affect the precision and/or accuracy of the estimates. CKMR is a promising method that will likely see an increasing number of applications in the field as costs of genetic analysis continue to decline. Our work highlights the importance of applying population‐specific CKMR models that consider relevant demographic parameters, individual covariates, and the protocol through which individuals were sampled.
Contrasting roles of fungal and oomycete pathogens in mediating nitrogen addition and winter grazing effects on biomass
Authors: Zhang Peng , Huang Mengjiao , Chen Chaorui , Hu Kui , Ke Junsheng , Liu Mu , Xiao Yao , Liu Xiang 
Published: January 2024

AbstractBoth bottom‐up and top‐down processes modulate plant communities. Fungal and oomycete pathogens are most common in global grasslands, and due to differences in their physiology, function, host range, and life cycles, they may differentially affect plants (in both intensity and direction). However, how fungal and oomycete pathogens regulate bottom‐up and top‐down effects on plant community biomass remains unclear. To this end, we conducted a 3‐year field experiment in an alpine meadow incorporating mammalian herbivore exclosure, fungicide/oomyceticide application, and nitrogen addition treatments. We arranged 12 blocks with half randomly assigned to be mammalian herbivore exclosures (fenced to exclude grazing sheep), and the other half were fenced most of the year but not in winter (winter grazing control). Six 2.5 × 2.5 m square plots were established in each block, with each of the six plots assigned as control, nitrogen addition, fungicide application, oomyceticide application, nitrogen addition + fungicide application, and nitrogen addition + oomyceticide application. We found that fungicide application significantly increased plant community biomass (mainly Poaceae species) under nitrogen addition and promoted the bottom‐up effect of nitrogen addition on plant community biomass by altering the community‐weighted mean of plant height (via species turnover). Meanwhile, oomyceticide application significantly increased plant community biomass (mainly Poaceae species) when mammalian herbivores were excluded and weakened the top‐down effect of winter grazing on plant community biomass by driving intraspecific variation in plant height. Our results highlight that fungal and oomycete pathogens play important (but differing) roles in mediating the effects of nutrient availability and higher trophic levels on plant community biomass. Mechanistically, we demonstrated that plant pathogen‐related modulation of plant community biomass is achieved by alterations to plant height. Overall, this study combines both community and disease ecology to reveal complex interactions among higher trophic levels and their potential impacts on terrestrial ecosystem functioning under human disturbance.
Exploring the molecular biomarker utility of circCCT3 in multiple myeloma: A favorable prognostic indicator, particularly for R‐ISS II patients
Authors: Papatsirou Maria , Kontos Christos K. , Ntanasis‐Stathopoulos Ioannis , Malandrakis Panagiotis , Sideris Diamantis C. , Fotiou Despina , Liacos Christine‐Ivy , Gavriatopoulou Maria , Kastritis Efstathios , Dimopoulos Meletios A. , Scorilas Andreas , Terpos Evangelos 
Published: January 2024

AbstractCircular RNAs (circRNAs) are associated with the pathobiology of multiple myeloma (MM). Recent findings regarding circCCT3 support its involvement in the development and progression of MM, through microRNA sponging. Thus, we aimed to examine the expression of circCCT3 in smoldering and symptomatic MM and to assess its clinical importance. Three cell lines from plasma cell neoplasms were cultured and bone marrow aspirate (BMA) samples were collected from 145 patients with MM or smoldering MM. Next, CD138+ enrichment was performed in BMA samples, followed by total RNA extraction and reverse transcription. Preamplification of circCCT3 and GAPDH cDNA was performed. Finally, a sensitive assay for the relative quantification of circCCT3 using nested real‐time quantitative polymerase chain reaction was developed, optimized, and implemented in the patients' samples and cell lines. MM patients exhibited significantly higher intracellular circCCT3 expression in their CD138+ plasma cells, compared to those from SMM patients. In addition, MM patients overexpressing circCCT3 had longer progression‐free and overall survival intervals. The favorable prognostic significance of high circCCT3 expression in MM was independent of disease stage (either International Staging System [ISS] or revised ISS [R‐ISS]) and age of MM patients. Interestingly, circCCT3 expression could serve as a surrogate molecular biomarker of prognosis in MM patients, especially those of R‐ISS stage II. In conclusion, our study sheds new light on the significance of circCCT3 as a promising molecular marker for predicting MM patients' prognosis.
Changes in seminal plasma microecological dynamics and the mechanistic impact of core metabolite hexadecanamide in asthenozoospermia patients
Authors: Han Baoquan , Wang Yongyong , Ge Wei , Wang Junjie , Yu Shuai , Yan Jiamao , Hua Lei , Zhang Xiaoyuan , Yan Zihui , Wang Lu , Zhao Jinxin , Huang Cong , Yang Bo , Wang Yan , Ma Qian , Zhao Yong , Jiang Hui , Zhang Yunqi , Liang Shaolin , Zhao Jianjuan , Sun Zhongyi , Shen Wei , Gui Yaoting 
Published: January 2024

AbstractAsthenozoospermia (AZS) is a prevalent contributor to male infertility, characterized by a substantial decline in sperm motility. In recent years, large‐scale studies have explored the interplay between the male reproductive system's microecology and its implications for reproductive health. Nevertheless, the direct association between seminal microecology and male infertility pathogenesis remains inconclusive. This study used 16S rDNA sequencing and multi‐omics analysis to conduct a comprehensive investigation of the seminal microbial community and metabolites in AZS patients. Patients were categorized into four distinct groups: Normal, mild AZS (AZS‐I), moderate AZS (AZS‐II), and severe AZS (AZS‐III). Microbiome differential abundance analysis revealed significant differences in microbial composition and metabolite profiles within the seminal plasma of these groups. Subsequently, patients were classified into a control group (Normal and AZS‐I) and an AZS group (AZS‐II and AZS‐III). Correlation and cross‐reference analyses identified distinct microbial genera and metabolites. Notably, the AZS group exhibited a reduced abundance of bacterial genera such as Pseudomonas, Serratia, and Methylobacterium‐Methylorubrum in seminal plasma, positively correlating with core differential metabolite (hexadecanamide). Conversely, the AZS group displayed an increased abundance of bacterial genera such as Uruburuella, Vibrio, and Pseudoalteromonas, with a negative correlation with core differential metabolite (hexadecanamide). In vitro and in vivo experiments validated that hexadecanamide significantly enhanced sperm motility. Using predictive metabolite‐targeting gene analysis and single‐cell transcriptome sequencing, we profiled the gene expression of candidate target genes PAOX and CA2. Protein immunoblotting techniques validated the upregulation protein levels of PAOX and CA2 in sperm samples after hexadecanamide treatment, enhancing sperm motility. In conclusion, this study uncovered a significant correlation between six microbial genera in seminal plasma and the content of the metabolite hexadecanamide, which is related to AZS. Hexadecanamide notably enhances sperm motility, suggesting its potential integration into clinical strategies for managing AZS, providing a foundational framework for diagnostic and therapeutic advancements.
Plasma microRNA signature associated with skeletal muscle wasting in post‐menopausal osteoporotic women
Authors: Faraldi Martina , Sansoni Veronica , Vitale Jacopo , Perego Silvia , Gomarasca Marta , Verdelli Chiara , Messina Carmelo , Sconfienza Luca M. , Banfi Giuseppe , Corbetta Sabrina , Lombardi Giovanni 
Published: January 2024

AbstractBackgroundSkeletal muscle mass wasting almost invariably accompanies bone loss in elderly, and the coexistence of these two conditions depends on the tight endocrine crosstalk existing between the two organs, other than the biomechanical coupling. Since the current diagnostics limitation in this field, and given the progressive population aging, more effective tools are needed. The aim of this study was to identify circulating microRNAs (miRNAs) as potential biomarkers for muscle mass wasting in post‐menopausal osteoporotic women.MethodsOne hundred seventy‐nine miRNAs were assayed by quantitative real‐time polymerase chain reaction in plasma samples from 28 otherwise healthy post‐menopausal osteoporotic women (73.4 ± 6.6 years old). The cohort was divided in tertiles based on appendicular skeletal muscle mass index (ASMMI) to better highlight the differences on skeletal muscle mass (first tertile: n = 9, ASMMI = 4.88 ± 0.40 kg·m−2; second tertile: n = 10, ASMMI = 5.73 ± 0.23 kg·m−2; third tertile: n = 9, ASMMI = 6.40 ± 0.22 kg·m−2). Receiver operating characteristic (ROC) curves were calculated to estimate the diagnostic potential of miRNAs. miRNAs displaying a statistically significant fold change ≥ ±1.5 and area under the curve (AUC) > 0.800 (P < 0.05) between the first and third tertiles were considered. A linear regression model was applied to estimate the association between miRNA expression and ASMMI in the whole population, adjusting for body mass index, age, total fat (measured by total‐body dual‐energy X‐ray absorptiometry [DXA]) and bone mineral density (measured by femur DXA). Circulating levels of adipo‐myokines were evaluated by bead‐based immunofluorescent assays and enzyme‐linked immunosorbent assays.ResultsFive miRNAs (hsa‐miR‐221‐3p, hsa‐miR‐374b‐5p, hsa‐miR‐146a‐5p, hsa‐miR‐126‐5p and hsa‐miR‐425‐5p) resulted down‐regulated and two miRNAs (hsa‐miR‐145‐5p and hsa‐miR‐25‐3p) were up‐regulated in the first tertile (relative‐low ASMMI) compared with the third tertile (relative‐high ASMMI) (fold change ≥ ±1.5; P‐value < 0.05). All the corresponding ROC curves had AUC > 0.8 (P < 0.05). Two signatures hsa‐miR‐126‐5p, hsa‐miR‐146a‐5p and hsa‐miR‐425‐5p; and hsa‐miR‐126‐5p, hsa‐miR‐146a‐5p, hsa‐miR‐145‐5p and hsa‐miR‐25‐3p showed the highest AUC, 0.914 (sensitivity = 77.78%; specificity = 100.00%) and 0.901 (sensitivity = 88.89%; specificity = 100.00%), respectively.ConclusionsIn this study, we identified, for the first time, two miRNA signatures, hsa‐miR‐126‐5p, hsa‐miR‐146a‐5p and hsa‐miR‐425‐5p; and hsa‐miR‐126‐5p, hsa‐miR‐146a‐5p, hsa‐miR‐145‐5p and hsa‐miR‐25‐3p, specifically associated with muscle mass wasting in post‐menopausal osteoporotic women.
RORα–GABP–TFAM axis alleviates myosteatosis with fatty atrophy through reinforcement of mitochondrial capacity
Authors: Kim Hyeon‐Ji , Lee Sang‐Heon , Jeong Cheolhee , Han Yong‐Hyun , Lee Mi‐Ock 
Published: January 2024

AbstractBackgroundFat infiltration in muscle, called ‘myosteatosis’, precedes muscle atrophy, which subsequently results in sarcopenia. Myosteatosis is frequently observed in patients with nonalcoholic fatty liver disease (NAFLD). We have previously reported that retinoic acid receptor‐related orphan receptor‐α (RORα) regulates mitochondrial dynamics and mitophagy in hepatocytes, resulting in an alleviation of NAFLD. In this study, we aimed to investigate the role of RORα in skeletal muscle and to understand molecular mechanisms by which RORα controls mitochondrial capacity, using an NAFLD‐associated myosteatosis mouse model.MethodsTo establish a myosteatosis model, 7‐week‐old C57BL/6N mice were fed with high‐fat diet (HFD). After 15 weeks of diet feeding, an adeno‐associated virus vector encoding RORα (AAV‐RORα) was injected to gastrocnemius (GA) muscles, or after 7 weeks of HFD feeding, JC1‐40, an RORα agonistic ligand, was administered daily at a dose of 5 mg/kg/day by oral gavage for 5 weeks. Histological, biochemical and molecular analyses in various in vivo and in vitro experiments were performed.ResultsFirst, the number of oxidative MyHC2a fibres with intensive lipid infiltration increased by 3.8‐fold in the red region of the GA of mice with myosteatosis (P < 0.001). RORα was expressed around MyHC2a fibres, and its level increased by 2.7‐fold after HFD feeding (P < 0.01). Second, treatment of RORα ligands in C2C12 myoblasts, such as cholesterol sulfate and JC1‐40, enhanced the number of oxidative fibres stained for MyHC1 and MyHC2a by two‐fold to four‐fold (P < 0.01), while it reduced the lipid levels in MyHC2a fibres by 20–50% (P < 0.001) in the presence of palmitic acids. Third, mitochondrial membrane potential (P < 0.01) and total area of mitochondria (P < 0.01) were enhanced by treatment of these ligands. Chromatin immunoprecipitation analysis showed that RORα bound the promoter of GA‐binding protein α subunit gene that led to activation of mitochondrial transcription factor A (TFAM) in C2C12 myoblasts (P < 0.05). Finally, intramuscular transduction of AAV‐RORα alleviated the HFD‐induced myosteatosis with fatty atrophy; lipid contents in MyHC2a fibres decreased by 48% (P < 0.001), whereas the number of MyHC2b fibre increased by 22% (P < 0.001). Also, administration of JC1‐40 improved the signs of myosteatosis in that it decreased the level of adipose differentiation‐related protein (P < 0.01) but increased mitochondrial proteins such as cytochrome c oxidase 4 and TFAM in GA muscle (P < 0.01).ConclusionsRORα plays a versatile role in regulating the quantity of mitochondria and the oxidative capacity, ultimately leading to an improvement in myosteatosis symptoms.
Discerning the influence of climate variability modes, regional weather features and time series persistence on streamflow using Bayesian networks and multiple linear regression
Authors: Bates Bryson C. , Dowdy Andrew J. 
Published: January 2024

AbstractA large literature on the sensitivity of streamflow response to climate variations has emerged over the past several decades, but the underlying mechanisms are not fully understood. The usual approaches to this problem have been simple and do not fully address its complexity, which involves the individual and joint effects of large‐scale climate modes and smaller‐scale weather features on streamflow volumes, the presence of persistence in these time series and their effects on antecedent conditions. Ongoing improvements in observational and reanalysis datasets and online access allow for better quantification of the connections between streamflow response, climate variability modes and regional weather features. The purpose of this paper is to determine whether Bayesian networks can be used to better identify key factors and their associated pathways leading to streamflow generation. A Markov blanket approach is described and illustrated using monthly streamflow series recorded at eight gauging stations within or immediately adjacent to the coastal region of eastern mainland Australia. The method is compared and contrasted with conventional multiple linear regression with discussion around this type of approach as part of a growing interest in machine learning applications. One example is used to illustrate the application of both approaches to a streamflow series exhibiting strong non‐stationarity. Results for the other streamflow series are included in a concise synthesis. Overall, the results suggest that Bayesian networks have several desirable features in terms of transparency, interpretability and explanatory insight. The findings from this study lend support to the use of Bayesian networks for modelling connections between streamflow volume and the variability of climate and regional weather. This improved understanding of the key controls of streamflow variability is intended to help address growing needs around informing social, cultural, economic and ecological aspects of water planning and management.
The comparative burden of chronic spontaneous urticaria, atopic dermatitis and psoriasis in five European countries
Authors: Balp Maria‐Magdalena , Krupsky Kathryn , Gupta Shaloo , Balkaran Bridget L. , Kohli Ravneet K. , Lienhard Clementine , Loh Jaclyn , Rodriguez Barrios Jose M. , Patil Dhaval , Tétart Florence , El‐Shanawany Tariq , Reed John 
Published: January 2024

AbstractBackgroundSkin diseases can have a significant impact on the physical, psychological and social well‐being of patients. Quantification of the burden of chronic spontaneous urticaria (CSU) compared to other dermatological conditions is limited.ObjectivesTo evaluate the comparative humanistic and economic burden of CSU, atopic dermatitis (AD), and psoriasis (PSO) in five European countries (EU5).MethodsThis cross‐sectional analysis compared data from adult respondents with a physician diagnosis of CSU, AD and PSO from the 2020 National Health and Wellness Survey in EU5 (France, Germany, Italy, Spain and the United Kingdom). Outcomes included Short Form (SF)‐12v2 [mental (MCS) and physical component (PCS) summary scores], SF‐6D, EQ‐5D, EQ‐Visual Analogue Scale (VAS), Dermatology Life Quality Index (DLQI), General Anxiety Disorder‐7 (GAD‐7), Patient Health Questionnaire‐9 (PHQ‐9), Work Productivity and Activity Impairment (WPAI) and healthcare resource utilization (HRU). Multivariable analyses comparing CSU to AD and PSO, respectively, were conducted for each outcome.ResultsThis analysis included 379 CSU, 788 AD and 2,636 PSO patients. Adjusted MCS and PCS scores were lower among CSU patients than AD (MCS, p = 0.006; PCS, p < 0.001) and PSO (p < 0.001 for all). SF‐6D and EQ‐5D scores were consistently lower among CSU patients versus AD and PSO (p < 0.001 for all), whereas the EQ VAS was lower in CSU cohort versus PSO cohort (p = 0.003). Higher DLQI scores were reported in the CSU cohort versus AD and PSO (p < 0.001 for both) and the proportion of patients with anxiety and depression, respectively, (GAD‐7 and PHQ‐9 scores ≥5) was greater among the CSU cohort versus AD and PSO (p < 0.001 for all). Finally, higher HRUs and worse WPAI scores (p < 0.005) were observed in the CSU cohort relative to AD and PSO cohort.ConclusionsCSU is associated with significantly worse health‐related quality of life, more mental comorbidities, negative impact on patients' daily lives and the ability to work, ultimately leading to higher HRU compared with AD and PSO.
Consumption network externalities, corporate social responsibility, and conflicting interests: Cournot vs. Bertrand competition
Authors: Zhang Zhining , Ko Po‐Sheng , Hsu Chu‐Chuan , Tsai Chien‐Shu 
Published: January 2024

AbstractIn this paper, we will delineate the nexus of consumption network externalities, corporate social responsibility (CSR), and conflicting interest issues under Cournot and Bertrand competition. We find that a stronger degree of network externalities may bring conflicting interests between firms and the consumers, benefiting firms while hurting consumers. The degree of conflicting interests caused by network externalities is consistent in Cournot and Bertrand competition. Furthermore, when firms do CSR activities, the presence of network externalities may alleviate the conflicting interests caused by CSR activities and bring a “win–win” outcome between firms and consumers in two competition modes.
Simultaneous fMRI and metabolic MRS of hyperpolarized [1‐13C]pyruvate during nicotine stimulus in rat
Authors: Hyppönen Viivi‐Elina A. , Rosa Jessica , Kettunen Mikko I. 
Published: January 2024

AbstractFunctional MRI (fMRI) and MRS (fMRS) can be used to noninvasively map cerebral activation and metabolism. Recently, hyperpolarized 13C spectroscopy and metabolic imaging have provided an alternative approach to assess metabolism. In this study, we combined 1H fMRI and hyperpolarized [1‐13C]pyruvate MRS to compare cerebral blood oxygenation level‐dependent (BOLD) response and real‐time cerebral metabolism, as assessed with lactate and bicarbonate labelling, during nicotine stimulation. Simultaneous 1H fMRI (multislice gradient echo echo‐planar imaging) and 13C spectroscopic (single slice pulse‐acquire) data were collected in urethane‐anaesthetized female Sprague–Dawley rats (n = 12) at 9.4 T. Animals received an intravenous (i.v.) injection of either nicotine (stimulus; 88 μg/kg, n = 7, or 300 μg/kg, n = 5) or 0.9% saline (matching volume), followed by hyperpolarized [1‐13C]pyruvate injection 60 s later. Three hours later, a second injection was administered: the animals that had previously received saline were injected with nicotine and vice versa, both followed by another hyperpolarized [1‐13C]pyruvate i.v. injection 60 s later. The low‐dose (88 μg/kg) nicotine injection led to a 12% ± 4% (n = 7, t‐test, p ~ 0.0006 (t‐value −5.8, degrees of freedom 6), Wilcoxon p ~ 0.0078 (test statistic 0)) increase in BOLD signal. At the same time, an increase in 13C‐bicarbonate signal was seen in four out of six animals. Bicarbonate‐to‐total carbon ratios were 0.010 ± 0.004 and 0.018 ± 0.010 (n = 6, t‐test, p ~ 0.03 (t‐value −2.3, degrees of freedom 5), Wilcoxon p ~ 0.08 (test statistic 3)) for saline and nicotine experiments, respectively. No increase in the lactate signal was seen; lactate‐to‐total carbon was 0.16 ± 0.02 after both injections. The high (300 μg/kg) nicotine dose (n = 5) caused highly variable BOLD and metabolic responses, possibly due to the apparent respiratory distress. Simultaneous detection of 1H fMRI and hyperpolarized 13C‐MRS is feasible. A comparison of metabolic response between control and stimulated states showed differences in bicarbonate signal, implying that the hyperpolarization technique could offer complimentary information on brain activation.