bluuebunny/crossref_metadata_2025_split huggingface dataset:
Ethnic Variation Trends in the Use of Ileal Pouch–Anal Anastomosis in Patients With Ulcerative Colitis
Authors: Hashash Jana G , Mourad Fadi H , Odah Tarek , Farraye Francis A , Kroner Paul , Stocchi Luca 
Published: November 2023

Abstract

Background
Approximately 15%–20% of patients with ulcerative colitis (UC) will require surgery during their lifetime. Ileal pouch–anal anastomosis (IPAA) is the preferred surgical option, which typically requires access to a specialist experienced in surgery for inflammatory bowel diseases (IBD).

Methods
The aims of this study are the assessment of the comparative use of IPAA for UC among different racial/ethnic groups and observe trends over the past decade in the United States as well as the comparative assessment of their respective postoperative outcomes. This was an observational retrospective study using the National Inpatient Sample (NIS) 2009–2018 dataset. All patients with ICD-9/10CM codes for UC were included. The primary outcome was comparative trends in IPAA construction across races/ethnicities in the past decade, which was compared to White patients as reference. Multivariate regression analyses were used to adjust for age, gender, Charlson comorbidity index, income in patient zip code, insurance status, hospital region, location, size, and teaching status.

Results
The number of patients discharged from US hospitals with an associated diagnosis of UC increased between 2009 and 2018, but the number of patients undergoing an IPAA decreased during that time period. Of 1 153 363 admissions related to UC, 60 688 required surgery for UC, of whom 16 601 underwent IPAA in the study period. Of all the patients undergoing surgery for UC, 2862 (4.7%) were Black, while 44 351 were White. This analysis indicated that Black patients were less likely to undergo IPAA both in 2009 and in 2018 compared to Whites. Hispanic patients were significantly less likely to receive IPAA in 2009 but were no longer less likely to receive IPAA in 2018 when compared to Whites.

Conclusions
The use of IPAA among Black patients requiring surgery for UC remains less common than amongst their White counterparts. Further research is needed to determine if racial disparity is a factor in decreased access to specialized care.
Crosstalk of platelets with macrophages and fibroblasts aggravates inflammation, aortic wall stiffening, and osteopontin release in abdominal aortic aneurysm
Authors: Wagenhäuser Markus U , Mulorz Joscha , Krott Kim J , Bosbach Agnes , Feige Tobias , Rhee Yae H , Chatterjee Madhumita , Petzold Niklas , Böddeker Christopher , Ibing Wiebke , Krüger Irena , Popovic Ana M , Roseman Ann , Spin Joshua M , Tsao Philip S , Schelzig Hubert , Elvers Margitta 
Published: November 2023

Abstract

Aims
Abdominal aortic aneurysm (AAA) is a highly lethal disease with progressive dilatation of the abdominal aorta accompanied by degradation and remodelling of the vessel wall due to chronic inflammation. Platelets play an important role in cardiovascular diseases, but their role in AAA is poorly understood.

Methods and results
The present study revealed that platelets play a crucial role in promoting AAA through modulation of inflammation and degradation of the extracellular matrix (ECM). They are responsible for the up-regulation of SPP1 (osteopontin, OPN) gene expression in macrophages and aortic tissue, which triggers inflammation and remodelling and also platelet adhesion and migration into the abdominal aortic wall and the intraluminal thrombus (ILT). Further, enhanced platelet activation and pro-coagulant activity result in elevated gene expression of various cytokines, Mmp9 and Col1a1 in macrophages and Il-6 and Mmp9 in fibroblasts. Enhanced platelet activation and pro-coagulant activity were also detected in AAA patients. Further, we detected platelets and OPN in the vessel wall and in the ILT of patients who underwent open repair of AAA. Platelet depletion in experimental murine AAA reduced inflammation and ECM remodelling, with reduced elastin fragmentation and aortic diameter expansion. Of note, OPN co-localized with platelets, suggesting a potential role of OPN for the recruitment of platelets into the ILT and the aortic wall.

Conclusion
In conclusion, our data strongly support the potential relevance of anti-platelet therapy to reduce AAA progression and rupture in AAA patients.
Evidence supporting an evolutionary trade-off between material properties and architectural design in Anolis lizard long bones
Authors: Toyama Ken S , Tinius Alexander , Mahler D Luke 
Published: November 2023

Abstract
In biology, “many-to-one mapping” occurs when multiple morphological forms can meet a particular functional demand. Knowledge of this mapping is crucial for understanding how selection on performance shapes the evolution of morphological diversity. Past research has focused primarily on the potential for geometrically alternative morphological designs to produce equivalent performance outcomes. Here, we ask whether the material properties of biological tissues hold similar potential. Through a phylogenetic comparative study of Anolis lizards, we show that the architectural design and mineral density of the femur trade off in a many-to-one functional system, yielding a morphospace featuring parallel isolines in size-relative bending strength. Anole femur evolution has largely tracked a narrow band of strength isolines over phylogenetic timescales, suggesting that geometry and mineral content shape the course of macroevolution through compensatory effects on performance. Despite this conserved evolutionary relationship, insular and continental species evolve strong bones differently, likely reflecting underlying ecological differences. Mainland anoles, which exhibit fast-paced life histories, typically have femora with lower mineralization and thinner walls than island species, which exhibit the opposite strategy. Together, our results reveal an overlooked dimension in the relationship between form and function, expanding our understanding of how many-to-one mapping can shape patterns of phenotypic diversity.
Phylogenetics and biomineralization of a novel magnetotactic Gammaproteobacterium from a freshwater lake in Beijing, China
Authors: Zhang Rongrong , Liu Peiyu , Wang Yuqin , Roberts Andrew P , Bai Jinling , Liu Yan , Zhu Kelei , Du Zongjun , Chen Guanjun , Pan Yongxin , Li Jinhua 
Published: November 2023

Abstract
Magnetotactic bacteria (MTB) have the remarkable capability of producing intracellularly membrane-enveloped magnetic nanocrystals (i.e. magnetosomes) and swimming along geomagnetic field lines. Despite more than 50 years of research, bacterial diversity and magnetosome biomineralization within MTB are relatively less known in the Gammaproteobacteria class than other groups. This is incompatible with the status of Gammaproteobacteria as the most diverse class of gram-negative bacteria with a number of ecologically important bacteria. Here, we identify a novel MTB strain YYHR-1 affiliated with the Gammaproteobacteria class of the Pseudomonadota phylum from a freshwater lake. In YYHR-1, most magnetosome crystals are organized into a long chain aligned along the cell long axis; unusually, a few small superparamagnetic crystals are located at the side of the chain, off the main chain axis. Micromagnetic simulations indicate that magnetostatic interactions among adjacent crystals within a chain reduce the Gibbs energy to enhance chain stability. Genomic analysis suggests that duplication of magnetosome gene clusters may result in off-chain magnetosomes formation. By integrating available genomic data from Gammaproteobacteria, the phylogenetic position of MTB in this class is reassigned here. Our new findings expand knowledge about MTB diversity and magnetosome biomineralization, and deepen understanding of the phylogenetics of the Gammaproteobacteria.
High velocity lower crust with anomalous rheological parameters under the Red Sea Passive Margin, SW Saudi Arabia – insight into the evolution of the Hijaz-Asir Escarpment Zone
Authors: Mukhopadhyay Manoj , Mukhopadhyay Basab , Mogren Saad , Ibrahim Elkhedr 
Published: November 2023

SUMMARY
The Red Sea Passive Margin (RSPM) in SW Saudi Arabia is characterized by two morphological provinces; the Red Sea Coastal Plains (RSCP) and the Hijaz-Asir Escarpment Zone (HAEZ) at the Arabian Shield Edge (ASE). Of these, the HAEZ is conspicuous by its seaward-facing heights of &gt; 3 km. Based on the available receiver function analysis (REF) results from 25 seismic stations, we first present the Moho relief map underlying the RSPM to demonstrate that: (i) the transitional crust under the coastal region is 20–25 km thick which steadily increases landward to attain a thickness of ∼40 km below ASE, across an intervening region of depressed Moho with depths of 45–52 km. The latter exhibits significant regional extent and displays a close correlation with the topography of the HAEZ, suggesting a tectonic control on its formation. Eight rheological parameters for the upper as well as the lower crust are computed from the REF data, namely; Vp, Vp/Vs, density (ρ), Lame's first constant (λ), Lame's second constant (μ), Poisson's ratio (σ), bulk modulus (K) and acoustic impedance (AI). Their 2-D distribution for the lower crust unravels, for the first time, a high velocity lower crust (HVLC) underneath the HAEZ. The rheological character of the HVLC is further elucidated by investigating the relations between six rheological parameters: Vp–Vp/Vs, Vp/Vs–lower crustal thickness (hLC), Vs/ρ–hLC, λ–ρ, σ–ρ and λ–μ. The results indicate that lithology of the lower crust varies from diorite–felsic gneiss under RSCP to gabbro–diabase and mafic gneiss under HAEZ. We conjecture that the HVLC is an outcome of the exchange of materials from the subcrust at the hinterland of the RSPM directly underlying the HAEZ. Deep seismic control can only resolve the finer details of such crustal transformation.
Integrated proteomic analysis reveals interactions between phosphorylation and ubiquitination in rose response to Botrytis infection
Authors: Li Rui , Yao Juanni , Ming Yue , Guo Jia , Deng Jingjing , Liu Daofeng , Li Zhengguo , Cheng Yulin 
Published: November 2023

Abstract
As two of the most abundant post-translational modifications, phosphorylation and ubiquitination play a significant role in modulating plant–pathogen interactions and increasing evidence indicates their crosstalk in plant immunity. Rose (Rosa sp.) is one of the most important ornamental plants and can be seriously infected by Botrytis cinerea. Here, integrated proteomics analysis was performed to detect global proteome, phosphorylation, and ubiquitination changes in rose upon B. cinerea infection and investigate the possible phosphorylation and ubiquitination crosstalk. A total of 6165 proteins, 11 774 phosphorylation and 10 582 ubiquitination sites, and 77 phosphorylation and 13 ubiquitination motifs were identified. Botrytis cinerea infection resulted in 169 up-regulated and 122 down-regulated proteins, 291 up-regulated and 404 down-regulated phosphorylation sites, and 250 up-regulated and 634 down-regulated ubiquitination sites. There were 12 up-regulated PR10 proteins and half of them also showed reduced ubiquitination. A lot of kinases probably involved in plant pattern-triggered immunity signaling were up-regulated phosphoproteins. Noticeably, numerous kinases and ubiquitination-related proteins also showed a significant change in ubiquitination and phosphorylation, respectively. A cross-comparison of phosphoproteome and ubiquitylome indicated that both of two post-translational modifications of 104 proteins were dynamically regulated, and many putative pattern-triggered immunity signaling components in the plant plasma membrane were co-regulated. Moreover, five selected proteins, including four PR10 proteins and a plasma membrane aquaporin, were proven to be involved in rose resistance to B. cinerea. Our study provides insights into the molecular mechanisms underlying rose resistance to B. cinerea and also increases the database of phosphorylation and ubiquitination sites in plants.
Rosaceae fruit transcriptome database (ROFT)—a useful genomic resource for comparing fruits of apple, peach, strawberry, and raspberry
Authors: Li Muzi , Mount Stephen M , Liu Zhongchi 
Published: November 2023

Abstract
Rosaceae is a large plant family consisting of many economically important fruit crops including peach, apple, pear, strawberry, raspberry, plum, and others. Investigations into their growth and development will promote both basic understanding and progress toward increasing fruit yield and quality. With the ever-increasing high-throughput sequencing data of Rosaceae, comparative studies are hindered by inconsistency of sample collection with regard to tissue, stage, growth conditions, and by vastly different handling of the data. Therefore, databases that enable easy access and effective utilization of directly comparable transcript data are highly desirable. Here, we describe a database for comparative analysis, ROsaceae Fruit Transcriptome database (ROFT), based on RNA-seq data generated from the same laboratory using similarly dissected and staged fruit tissues of four important Rosaceae fruit crops: apple, peach, strawberry, and red raspberry. Hence, the database is unique in allowing easy and robust comparisons among fruit gene expression across the four species. ROFT enables researchers to query orthologous genes and their expression patterns during different fruit developmental stages in the four species, identify tissue-specific and tissue-/stage-specific genes, visualize and compare ortholog expression in different fruit types, explore consensus co-expression networks, and download different data types. The database provides users access to vast amounts of RNA-seq data across the four economically important fruits, enables investigations of fruit type specification and evolution, and facilitates the selection of genes with critical roles in fruit development for further studies.
The antiplasmodial activity of the carboxylic acid metabolite of piperaquine and its pharmacokinetic profiles in healthy volunteers
Authors: Liu Huixiang , Zhou Hongchang , Xing Jie 
Published: November 2023

Abstract

Background
The long-acting antimalarial drug piperaquine can be metabolized into the carboxylic acid metabolite (PQM). However, the clinical relevance of PQM remains unclear.

Objectives
The pharmacodynamics/pharmacokinetics of PQM were studied.

Methods
The antimalarial activity of PQM was studied in vitro (Plasmodium strains Pf3D7 and PfDd2) and in vivo (murine Plasmodium yoelii). The toxicity of PQM was evaluated in mice, in terms of the general measures of animal well-being, serum biochemical examination and ECG monitoring. The pharmacokinetic profiles of piperaquine and its metabolite PQM were investigated in healthy subjects after recommended oral doses of piperaquine.

Results
PQM showed no relevant in vitro antimalarial activity (IC50 &gt; 1.0 μM) with no significant toxicity. After recommended oral administration of piperaquine to healthy subjects, the maximum concentration of PQM was less than 30.0 nM, and it did not accumulate after repeated dosing.

Conclusions
With a low antimalarial potency, PQM should not contribute to the efficacy of piperaquine with clinically acceptable doses.
Species assemblage, abundance, and distribution of Phytoseiid mites (Parasitiformes: Phytoseiidae) in Citrus Under Protective Screen
Authors: Demard Emilie P , Döker Ismail , Qureshi Jawwad A 
Published: November 2023

Abstract
Citrus Under Protective Screen (CUPS) production system excludes the Asian citrus psyllid (ACP), Diaphorina citri Kuwayama, vector of Huanglongbing (HLB), and large predators. However, small pests and beneficial arthropods such as predatory mites may enter the CUPS. Predatory mites from the family Phytoseiidae attack several economically important pests, especially phytophagous mites common in CUPS. The species assemblage, abundance, and distribution of phytoseiid mites in CUPS and open-air (control) were investigated in Ray Ruby grapefruit from 2018 to 2020. Foliar sprays of chemicals for pest suppression were used in both systems and evaluated for effect on predatory mite populations. In the 2 production systems, a significant peak in the phytoseiid mite population was observed in February 2019 and 2020. This increase coincided with the blooming period of grapefruit, which likely provided pollen as an alternative food. A total of 2,234 specimens of 11 species were identified. Amblyseius tamatavensis Blommers and Typhlodromalus peregrinus (Muma) were dominant in both systems. Amblyseius tamatavensis was slightly more abundant in CUPS (50% of total specimens) than T. peregrinus (47%), while T. peregrinus was prevalent (82%) in open-air compared with A. tamatavensis (16%). Shannon index and evenness were significantly higher in CUPS, but species richness was similar. Chlorpyrifos with abamectin and oil, cyantraniliprole with spirodiclofen, copper, and oil as well as pyridaben alone reduced phytoseiid populations between 87% and 96%. Fenbutatin oxide mixed with copper reduced phytoseiids by 48% in open-air only. Our results demonstrate phytoseiid survival, reproduction, and contribution to biological control in CUPS, despite high temperature and humidity.
Investigation of eligibility for adjuvant therapy from real-world data of patients with urothelial carcinoma undergoing radical cystectomy and radical nephroureterectomy
Authors: Matsue Taisuke , Kato Minoru , Kosugi Yuki , Ishizaki Kota , Masuda Hiroo , Yamamoto Shoma , Takeyama Yuji , Yukimatsu Nao , Otoshi Taiyo , Yamasaki Takeshi , Kuratsukuri Katsuyuki , Uchida Junji 
Published: November 2023

Abstract

Objective
Adjuvant nivolumab prolonged disease-free survival compared with placebo in patients at high risk of recurrence following radical cystectomy or radical nephroureterectomy in the CheckMate 274 trial. However, the ideal eligibility criteria for adjuvant therapy in real-world clinical practice remain controversial.

Methods
We retrospectively analyzed clinical data of 409 patients who underwent radical cystectomy (n = 252) or radical nephroureterectomy (n = 157) and validated the risk of recurrence based on the classification used in the CheckMate 274 trial. We also investigated the impact of perioperative chemotherapy, lymph node dissection and pathological factors on prognosis.

Results
The median follow-up time was 37.5 and 32.1 months in bladder cancer and upper tract urothelial carcinoma, respectively. Among the high-risk patients based on CheckMate 274 trial, disease-free survival was considerably shorter for bladder cancer and upper tract urothelial carcinoma patients than for low-risk patients (hazard ratios: 4.132 and 7.101, respectively). The prevalence of adjuvant chemotherapy in high-risk patients was low (24 and 38% for bladder cancer and upper tract urothelial carcinoma, respectively). The extent of lymph node dissection in bladder cancer and presence of lymph node dissection in upper tract urothelial carcinoma did not affect prognosis. Cox proportional multivariate analysis revealed CheckMate 274-high-risk as a poor prognostic factor in bladder cancer and upper tract urothelial carcinoma.

Conclusions
This study validated the risk classification for recurrence following radical cystectomy and radical nephroureterectomy using the CheckMate 274 criteria in real-world practice. Further research would help assess the degree of benefit obtained from adjuvant nivolumab.
Exercise training improves long-term memory in obese mice
Authors: Fuller Oliver K , Egan Casey L , Robinson Tina L , Perera Nimna , Latchman Heidy K , Terry Lauren V , McLennan Emma D , Chavez Carolina , Burrows Emma L , Scott John W , Murphy Robyn M , van Praag Henriette , Whitham Martin , Febbraio Mark A 
Published: November 2023

Abstract
Obesity has been linked to a range of pathologies, including dementia. In contrast, regular physical activity is associated with the prevention or reduced progression of neurodegeneration. Specifically, physical activity can improve memory and spatial cognition, reduce age-related cognitive decline, and preserve brain volume, but the mechanisms are not fully understood. Accordingly, we investigated whether any detrimental effects of high-fat diet (HFD)-induced obesity on cognition, motor behavior, adult hippocampal neurogenesis, and brain-derived neurotrophic factor (BDNF) could be mitigated by voluntary exercise training in male C57Bl/6 mice. HFD-induced impairment of motor function was not reversed by exercise. Importantly, voluntary wheel running improved long-term memory and increased hippocampal neurogenesis, suggesting that regular physical activity may prevent cognitive decline in obesity.
Force Health Surveillance in NATO Does Not Meet the Needs of Its Users: A Structured Evaluation of EpiNATO-2
Authors: Rowh Adam , Lindfield Robert , Gaines Joanna 
Published: November 2023

ABSTRACT

Introduction
Disease and non-battle injuries (DNBIs) cause substantial losses among military personnel. NATO has monitored DNBIs among its personnel since 1996 using multiple versions of a tool now called EpiNATO-2, but the surveillance system has never been systematically evaluated. Following a request from NATO to the CDC, the objective of this study was to assess surveillance system attributes of EpiNATO-2 using CDC’s updated guidelines for evaluating public health surveillance systems.

Materials and Methods
Between June and October 2022, a literature review and key informant interviews were conducted to assess the following attributes: usefulness, simplicity, flexibility, data quality, acceptability, sensitivity, positive predictive value, representativeness, timeliness, stability, informatics system quality, informatics service quality, and informatics interoperability. Key informant interviews were conducted in Kosovo, Germany, and remotely with EpiNATO-2 users spanning three levels: clinical and data entry personnel (tactical level); regional medical and public health officers (operational level); and senior commanders and other governmental entities (strategic level).

Results
Fourteen EpiNATO-2 users participated in interviews, representing 3 of the 5 major NATO missions, 3 partner entities, and 7 nationalities. All users (100%) reported that the system did not meet their needs, with most users noting the following challenges: lack of clearly defined system objectives; poor data quality due to ambiguous case definitions and frequently unsubmitted reports (37% missing during January to June 2022); long delay between the occurrence of health events and the availability of corresponding data (≥2 weeks); and an antiquated and inflexible data management system. Overall, performance was deemed unsatisfactory on 11 of the 13 attributes.

Conclusions
This multinational sample of EpiNATO-2 users at all military levels reported that the system is currently not useful with respect to its stated objectives. Opportunities exist to improve the performance and usefulness of EpiNATO-2: improve case definitions, modernize data infrastructure, and regularly evaluate the surveillance system.