bluuebunny/crossref_metadata_2025_split huggingface dataset:
Development of m6A/m5C/m1A regulated lncRNA signature for prognostic prediction, personalized immune intervention and drug selection in LUAD
Authors: Ma Chao , Gu Zhuoyu , Yang Yang 
Published: April 2024

AbstractResearch indicates that there are links between m6A, m5C and m1A modifications and the development of different types of tumours. However, it is not yet clear if these modifications are involved in the prognosis of LUAD. The TCGA‐LUAD dataset was used as for signature training, while the validation cohort was created by amalgamating publicly accessible GEO datasets including GSE29013, GSE30219, GSE31210, GSE37745 and GSE50081. The study focused on 33 genes that are regulated by m6A, m5C or m1A (mRG), which were used to form mRGs clusters and clusters of mRG differentially expressed genes clusters (mRG‐DEG clusters). Our subsequent LASSO regression analysis trained the signature of m6A/m5C/m1A‐related lncRNA (mRLncSig) using lncRNAs that exhibited differential expression among mRG‐DEG clusters and had prognostic value. The model's accuracy underwent validation via Kaplan–Meier analysis, Cox regression, ROC analysis, tAUC evaluation, PCA examination and nomogram predictor validation. In evaluating the immunotherapeutic potential of the signature, we employed multiple bioinformatics algorithms and concepts through various analyses. These included seven newly developed immunoinformatic algorithms, as well as evaluations of TMB, TIDE and immune checkpoints. Additionally, we identified and validated promising agents that target the high‐risk mRLncSig in LUAD. To validate the real‐world expression pattern of mRLncSig, real‐time PCR was carried out on human LUAD tissues. The signature's ability to perform in pan‐cancer settings was also evaluated. The study created a 10‐lncRNA signature, mRLncSig, which was validated to have prognostic power in the validation cohort. Real‐time PCR was applied to verify the actual manifestation of each gene in the signature in the real world. Our immunotherapy analysis revealed an association between mRLncSig and immune status. mRLncSig was found to be closely linked to several checkpoints, such as IL10, IL2, CD40LG, SELP, BTLA and CD28, which could be appropriate immunotherapy targets for LUAD. Among the high‐risk patients, our study identified 12 candidate drugs and verified gemcitabine as the most significant one that could target our signature and be effective in treating LUAD. Additionally, we discovered that some of the lncRNAs in mRLncSig could play a crucial role in certain cancer types, and thus, may require further attention in future studies. According to the findings of this study, the use of mRLncSig has the potential to aid in forecasting the prognosis of LUAD and could serve as a potential target for immunotherapy. Moreover, our signature may assist in identifying targets and therapeutic agents more effectively.
The barcode trap—Description of a new species of Microglanis, with a review of the status of Microglanis cibelae (Siluriformes: Pseudopimelodidae)
Authors: Lehmann Albornoz Pablo , Bartzen César Sá , Malabarba Luiz R. 
Published: April 2024

AbstractIn a recent study based on the generalized mixed Yule coalescent method for delimiting species, a threshold of 2% genetic distance using cytochrome c oxidase subunit I sequences was used to delimit the species of Microglanis. That action resulted in assembling several populations of Microglanis from Atlantic coastal rivers between Rio Grande do Sul and São Paulo states as a single species, Microglanis cottoides, including Microglanis cibelae as a junior synonym. We reexamined these populations and found three species diagnosed by their morphology and that constitute separate mtDNA lineages, including a new species. The synonym of M. cibelae and M. cottoides is reviewed and refuted based on morphological and molecular evidence. M. cibelae and the new species are sympatric and occasionally syntopic in the Tramandaí, Mampituba, and Araranguá river basins. The new species is distinguished from M. cibelae and M. cottoides by the anterior margin of the posttemporosupracleitrum narrow articulated with the epioccipital, the short mental and maxillary barbels, and depressed head and body.
Is Long‐Run Risk Really Priced? Revisiting Liu and Matthies (2022)
Authors: MAIO PAULO 
Published: April 2024

ABSTRACTThe claim by Liu and Matthies (LM) that their macro news risk factor (NI) prices 51 portfolios (associated with four different portfolio groups) is not appropriate. In fact, their single‐factor model is successful only in explaining the momentum deciles, while producing strongly negative performance for the remaining groups. The pricing performance is more doubtful in the case of the alternative news factor (HNI), as the respective risk price is not identified. LM's conclusions stem from a combination of questionable empirical choices and misinterpretation of their results. Moreover, the NI model cannot explain prominent capital asset pricing model anomalies not considered in their study.
Transactive Memory Systems and Acquisition Performance: A Strategic Decision Making Process Perspective
Authors: Lou Bowen , Bauer Florian , Samba Codou , Shepherd Neil 
Published: April 2024

AbstractDuring the pre‐merger phase of an acquisition, fundamental decisions are made concerning whether to buy, which company to buy, and how much to pay. Further, acquisitions carry significant firm‐wide implications requiring input from multiple different specializations, and hence, they are the product of the judgements, decisions, and social interactions between top managers. We focus our theory development on a pivotal yet under‐researched top management team characteristic, transactive memory system (TMS). TMS is the shared division of cognitive labour with respect to encoding, storing, and retrieving knowledge from individual areas of expertise. We theorize that TMT transactive memory directly influences the strategic decision making process, which in turn determines acquisition performance. We test our hypotheses with a sample of 109 acquisitions, combining survey and archival data. We find that TMT transactive memory increases reliance on expert intuition and procedural rationality, while reducing political behaviour; and each of these three strategic decision processes carries different implications for acquisition performance. Our study advances theory by explaining the team‐level behavioural mechanisms that underlie acquisition performance.
Unveiling the consequences of early human saliva contamination on membranes for guided bone regeneration
Authors: Kunrath Marcel F. , Giraldo‐Osorno Paula Milena , Mendes Karina , Gomes Ana T. P. C. , Rosa Nuno , Barros Marlene , Dahlin Christer 
Published: April 2024

AbstractAimsGBR membranes have various surface properties designed to elicit positive responses in regenerative clinical procedures; dental clinicians attempt to employ techniques to prevent the direct interaction of contaminated oral fluids with these biomaterials. However, saliva is uninterruptedly exhibited in oral surgical procedures applying GBR membranes, suggesting a persistent interaction with biomaterials and the surrounding oral tissues. This fundamental study aimed to investigate potential alterations in the physical, chemical, and key biological properties of membranes for guided bone regeneration (GBR) caused by isolated early interaction with human saliva.MethodsA reproducible step‐by‐step protocol for collecting and interacting human saliva with membranes was developed. Subsequently, membranes were evaluated for their physicochemical properties, protein quantification, DNA, and 16S rRNA levels viability of two different cell lines at 1 and 7 days, and ALP activity. Non‐interacted membranes and pure saliva of donors were applied as controls.ResultsQualitative morphological alterations were noticed; DNA extraction and 16S quantification revealed significantly higher values. Furthermore, the viability of HGF‐1 and MC3T3‐E1 cells was significantly (p < .05) reduced following saliva interaction with biodegradable membranes. Saliva contamination did not prejudice PTFE membranes significantly in any biological assay.ConclusionsThese outcomes demonstrated a susceptible response of biodegradable membranes to isolated early human saliva interaction, suggesting impairment of structural morphology, reduced viability to HGF‐1 and MC3T3‐E1, and higher absorption/adherence of DNA/16S rRNA. As a result, clinical oral procedures may need corresponding refinements.
Pulmonary dimorphic fungal infections among HIV/AIDS non‐TB patients with chronic cough in Kampala, Uganda
Authors: Kiconco Prossy , Achan Beatrice , Sanya Moses , Najjingo Irene , Okeng Alfred , Bwanga Freddie 
Published: April 2024

AbstractIntroductionDimorphic fungi cause infection following the inhalation of spores into the pulmonary system. In the lower respiratory tract, the conidia transform into yeasts, which are engulfed by alveolar macrophages and may be destroyed without disease manifestation. However, in some immunocompromised individuals, they may persist and cause active fungal disease characterized by formation of granulomas in the infected tissues, which may mimic Mycobacterium tuberculosis (MTB).ObjectiveTo determine the prevalence of pulmonary dimorphic fungal infections among HIV/AIDS patients with non‐TB chronic cough at Mulago National Referral and Teaching Hospital in Kampala, Uganda.MethodsSputum samples were collected from 175 consented HIV/AIDS patients attending the immuno‐suppression syndrome (ISS) clinic at the hospital. Upon Xpert MTB/RIF sputum testing, 21 patients tested positive for MTB, and these were excluded from further analysis. The other 154 sputum negative samples were then subjected to PCR for dimorphic fungi at MBN Clinical Laboratories. Singleplex PCR was used to detect the target sequences in selected respective genes of each dimorphic fungal species of interest. DNA amplicons were detected based on gel electrophoresis.ResultsDimorphic fungi were detected in 16.2% (25/154) of the studied population. Of these 9.1% (14/154) had Blastomyces dermatitidis and 7.1% (11/154) had Talaromyces marneffei. The remaining 84% of the studied participants had no dimorphic fungi. Histoplasma capsulatum, Coccidioides immitis and Paracoccidioides brasiliensis were not detected in any of the participants.ConclusionDimorphic fungi (B. dermatitidis and T. marneffei) were found in 16.2% of the HIV/AIDS patients with non‐TB chronic cough in Kampala, Uganda. We recommend routine testing for these pathogens among HIV/AIDS patients with chronic cough.
Do Age and Timing Influence the Outcomes of Single‐stage Reconstruction of Multiple Ligament Knee Injuries? 5‐10 Years Follow Up
Authors: He Jinwen , Geng Bin , Xu Peng , Xia Yayi 
Published: April 2024

ObjectivesMultiple ligament knee injuries (MLKIs) are disruptive injuries, however, there are controversies in the results of acute and delayed reconstruction. Also, clinical outcomes between patients older or younger than 40 have not been compared in MLKIs. This study was designed to investigate the influence of age and timing of reconstruction on the outcomes of single‐stage reconstruction of MLKIs.MethodsThe patients who underwent reconstruction of multiple injured ligaments because of MLKIs between May 2013 and July 2019 were added to the cohort. The postoperative complications, knee range of motion (ROM), Lysholm score, International Knee Documentation Committee (IKDC) 2000 score, Tegner activity level, patient satisfaction, and SF‐36 score were compared between young (≤ 40 years old, n = 41) and old patients (n = 61); acute (≤ 3 weeks after injury, n = 75) and delayed reconstruction (n = 27), using Mann–Whitney U test or χ2 test.ResultsA total of 102 MLKI patients managed by single‐stage multi‐ligament reconstruction were retrospectively reviewed. Patients were followed up after surgery for a mean of 7.3 years (5.2‐10.7 years). At the last follow‐up, no significant difference was found in knee ROM, functional scores, and patient‐reported outcomes between patients older or younger than 40; acute and delayed reconstruction (p > 0.05). The rate of complications in the delayed reconstruction group was higher than that of the acute reconstruction group (22.2% vs 5.3%, p < 0.05). The IKDC objective scores reached grade A in 63.7%–80.4% of patients, and grade B in 11.8%–23.5% patients.ConclusionThe single‐stage reconstruction of MLKIs can obtain comparative long‐term functional and objective outcomes regardless of patients older or younger than 40; acute and delayed reconstruction, however, delayed reconstruction is related to a high rate of postoperative complications.
Milestone Moments: Community Violence and Women's Life‐Course Transitions in Colombia, the Dominican Republic, and Guatemala
Authors: Svallfors Signe 
Published: April 2024

AbstractDeadly violence has drastically increased in Latin America, posing a serious threat to women's sexual and reproductive health. Previous research has documented both increases and declines in youth‐to‐adulthood transitions associated with exposure to violence globally. However, there has been a lack of comparative studies focusing on multiple life‐course transitions. This study investigated the impact of community violence on women's life‐course transitions in Colombia, the Dominican Republic, and Guatemala. Drawing on nationally representative surveys and homicide statistics, fixed effects models are employed to estimate the correlation between women's exposure to community violence and the intensity, timing, and sequencing of their critical life events: first cohabitation and childbirth. The results revealed that exposure to violence was associated with an increase in the quantum and tempo of transitions to first cohabitation and birth in Colombia. Competing risk models showed that community violence correlated with the sequencing of cohabitation and birth in the Dominican Republic, as identified by an increase in precohabiting fertility. There was suggestive but inconclusive evidence of an association between community violence and transitions to first birth in Guatemala. In conclusion, community violence indeed predicts women's youth‐to‐adulthood transitions in Colombia, the Dominican Republic, and potentially Guatemala, with repercussions for the subsequent life experiences of individuals and entire cohorts.
A bamboo bHLH transcription factor PeRHL4 has dual functions in enhancing drought and phosphorus starvation tolerance
Authors: Zhu Chenglei , Lin Zeming , Liu Yan , Li Hui , Di Xiaolin , Li Tiankuo , Wang Jiangfei , Gao Zhimin 
Published: April 2024

AbstractROOTHAIRLESS (RHL) is a typical type of basic helix‐loop‐helix (bHLH) transcription factor (TF), which has been reported to participate in various aspects of plant growth and in response to stress. However, the functions of RHL subfamily members in moso bamboo (Phyllostachys edulis) remain unknown. In this study, we identified 14 bHLH genes (PeRHL1–PeRHL14) in moso bamboo. Phylogenetic tree and conserved motif analyses showed that PeRHLs were clustered into three clades. The expression analysis suggested that PeRHL4 was co‐expressed with PeTIP1‐1 and PePHT1‐1 in moso bamboo. Moreover, these three genes were all up‐regulated in moso bamboo under drought stress and phosphate starvation. Y1H, DLR and EMSA assays demonstrated that PeRHL4 could activate the expression of PeTIP1‐1 and PePHT1‐1. Furthermore, overexpression of PeRHL4 could increase both drought and phosphate starvation tolerance in transgenic rice, in which the expression of OsTIPs and OsPHT1s was significantly improved, respectively. Overall, our results indicated that drought stress and phosphate starvation could induce the expression of PeRHL4, which in turn activated downstream genes involved in water and phosphate transport. Collectively, our findings reveal that PeRHL4 acting as a positive regulator contributes to enhancing the tolerance of moso bamboo under drought stress and phosphate starvation.
Coupled hydraulics and carbon economy underlie age‐related growth decline and revitalisation of sand‐fixing shrubs after crown removal
Authors: Guo Jing‐Jing , Gong Xue‐Wei , Li Xue‐Hua , Zhang Chi , Duan Chun‐Yang , Lohbeck Madelon , Sterck Frank , Hao Guang‐You 
Published: April 2024

AbstractCrown removal revitalises sand‐fixing shrubs that show declining vigour with age in drought‐prone environments; however, the underlying mechanisms are poorly understood. Here, we addressed this knowledge gap by comparing the growth performance, xylem hydraulics and plant carbon economy across different plant ages (10, 21 and 33 years) and treatments (control and crown removal) using a representative sand‐fixing shrub (Caragana microphylla Lam.) in northern China. We found that growth decline with plant age was accompanied by simultaneous decreases in soil moisture, plant hydraulic efficiency and photosynthetic capacity, suggesting that these interconnected changes in plant water relations and carbon economy were responsible for this decline. Following crown removal, quick resprouting, involving remobilisation of root nonstructural carbohydrate reserves, contributed to the reconstruction of an efficient hydraulic system and improved plant carbon status, but this became less effective in older shrubs. These age‐dependent effects of carbon economy and hydraulics on plant growth vigour provide a mechanistic explanation for the age‐related decline and revitalisation of sand‐fixing shrubs. This understanding is crucial for the development of suitable management strategies for shrub plantations constructed with species having the resprouting ability and contributes to the sustainability of ecological restoration projects in water‐limited sandy lands.
The good thief: A note on revisits in long‐running ethnography
Authors: Hopper Kim 
Published: April 2024

AbstractThis commentary revisits Nancy Scheper‐Hughes’ Saints, Scholars and Schizophrenics ([1979] 2001) and opens up its contentious history as resented exposé, unflinching portrait of a demoralized and anomic landscape, and ethnographic test‐case of the terms of engagement. I suggest that the controversy may betoken what long‐haul ethnography in the present era might hold in store, not for individual researchers alone but for our discipline as well. Wholesale rewrites or retractions may not be in the cards, but reparation comes in many shades. At times what it creates is the necessary clearance to build out what was missed—with what may look like deliberate provocation—the first time around. The trick is not to confuse contrition with renunciation … or the space of a landing with the finality of an ending.
Unveiling unique alternative splicing responses to low temperature in Zoysia japonica through ZjRTD1.0, a high‐quality reference transcript dataset
Authors: Wu Zhi‐Hao , He Liang‐Liang , Wang Cong‐Cong , Liang Chen , Li Han‐Ying , Zhong Dan‐Wen , Dong Zhao‐Xia , Zhang Li‐Juan , Zhang Xiang‐Qian , Ge Liang‐Fa , Chen Shu 
Published: April 2024

AbstractInadequate reference databases in RNA‐seq analysis can hinder data utilization and interpretation. In this study, we have successfully constructed a high‐quality reference transcript dataset, ZjRTD1.0, for Zoysia japonica, a widely‐used turfgrass with exceptional tolerance to various abiotic stress, including low temperatures and salinity. This dataset comprises 113,089 transcripts from 57,143 genes. BUSCO analysis demonstrates exceptional completeness (92.4%) in ZjRTD1.0, with reduced proportions of fragmented (3.3%) and missing (4.3%) orthologs compared to prior datasets. ZjRTD1.0 enables more precise analyses, including transcript quantification and alternative splicing assessments using public datasets, which identified a substantial number of differentially expressed transcripts (DETs) and differential alternative splicing (DAS) events, leading to several novel findings on Z. japonica's responses to abiotic stresses. First, spliceosome gene expression influenced alternative splicing significantly under abiotic stress, with a greater impact observed during low‐temperature stress. Then, a significant positive correlation was found between the number of differentially expressed genes (DEGs) encoding protein kinases and the frequency of DAS events, suggesting the role of protein phosphorylation in regulating alternative splicing. Additionally, our results suggest possible involvement of serine/arginine‐rich (SR) proteins and heterogeneous nuclear ribonucleoproteins (hnRNPs) in generating inclusion/exclusion isoforms under low‐temperature stress. Furthermore, our investigation revealed a significantly enhanced overlap between DEGs and differentially alternatively spliced genes (DASGs) in response to low‐temperature stress, suggesting a unique co‐regulatory mechanism governing transcription and splicing in the context of low‐temperature response. In conclusion, we have proven that ZjRTD1.0 will serve as a reliable and useful resource for future transcriptomic analyses in Z. japonica.
Impact of autologous platelet concentrates on the osseointegration of dental implants
Authors: Ivanovski Sašo , Lee Ryan S. B. , Fernandez‐Medina Tulio , Pinto Nelson , Andrade Catherine , Quirynen Marc 
Published: April 2024

AbstractOsseointegration is defined as the direct deposition of bone onto biomaterial devices, most commonly composed from titanium, for the purpose of anchoring dental prostheses. The use of autologous platelet concentrates (APC) has the potential to enhance this process by modifying the interface between the host and the surface of the titanium implant. The rationale is to modify the implant surface and implant–bone interface via “biomimicry,” a process whereby the deposition of the host's own proteins and extracellular matrix enhances the biocompatibility of the implant and hence accelerates the osteogenic healing process. This review of the available evidence reporting on the effect of APC on osseointegration explores in vitro laboratory studies of the interaction of APC with different implant surfaces, as well as the in vivo and clinical effects of APC on osseointegration in animal and human studies. The inherent variability associated with using autologous products, namely the unique composition of each individual's blood plasma, as well as the great variety in APC protocols, combination of biomaterials, and clinical/therapeutic application, makes it is difficult to make any firm conclusions about the in vivo and clinical effects of APC on osseointegration. The available evidence suggests that the clinical benefits of adding PRP and the liquid form of L‐PRF (liquid fibrinogen) to any implant surface appear to be limited. The application of L‐PRF membranes in the osteotomy site, however, may produce positive clinical effects at the early stage of healing (up to 6 weeks), by promoting early implant stability and reducing marginal bone loss, although no positive longer term effects were observed. Careful interpretation and cautious conclusions should be drawn from these findings as there were various limitations in methodology. Future studies should focus on better understanding of the influence of APCs on the biomaterial surface and designing controlled preclinical and clinical studies using standardized APC preparation and application protocols.