bluuebunny/crossref_metadata_2025 huggingface dataset:
Autophagy: the misty lands of Chlamydia trachomatis infection
Authors: Zhang Shan , Jiang Yufei , Yu Yonghui , Ouyang Xuan , Zhou Dongsheng , Song Yajun , Jiao Jun
Published: September 2024

Chlamydia are Gram-negative, obligate intracellular bacterial pathogens that infect eukaryotic cells and reside within a host-derived vacuole known as the inclusion. To facilitate intracellular replication, these bacteria must engage in host-pathogen interactions to obtain nutrients and membranes required for the growth of the inclusion, thereby sustaining prolonged bacterial colonization. Autophagy is a highly conserved process that delivers cytoplasmic substrates to the lysosome for degradation. Pathogens have developed strategies to manipulate and/or exploit autophagy to promote their replication and persistence. This review delineates recent advances in elucidating the interplay between Chlamydia trachomatis infection and autophagy in recent years, emphasizing the intricate strategies employed by both the Chlamydia pathogens and host cells. Gaining a deeper understanding of these interactions could unveil novel strategies for the prevention and treatment of Chlamydia infection.
Chronic thromboembolic pulmonary hypertension: the diagnostic assessment
Authors: Simeone Beatrice , Maggio Enrico , Schirone Leonardo , Rocco Erica , Sarto Gianmarco , Spadafora Luigi , Bernardi Marco , Ambrosio Luca D’ , Forte Maurizio , Vecchio Daniele , Valenti Valentina , Sciarretta Sebastiano , Vizza Carmine Dario
Published: September 2024

Chronic Thromboembolic Pulmonary Hypertension (CTEPH) presents a significant diagnostic challenge due to its complex and often nonspecific clinical manifestations. This review outlines a comprehensive approach to the diagnostic assessment of CTEPH, emphasizing the importance of a high index of suspicion in patients with unexplained dyspnea or persistent symptoms post-acute pulmonary embolism. We discuss the pivotal role of multimodal imaging, including echocardiography, ventilation/perfusion scans, CT pulmonary angiography, and magnetic resonance imaging, in the identification and confirmation of CTEPH. Furthermore, the review highlights the essential function of right heart catheterization in validating the hemodynamic parameters indicative of CTEPH, establishing its definitive diagnosis. Advances in diagnostic technologies and the integration of a multidisciplinary approach are critical for the timely and accurate diagnosis of CTEPH, facilitating early therapeutic intervention and improving patient outcomes. This manuscript aims to equip clinicians with the knowledge and tools necessary for the efficient diagnostic workflow of CTEPH, promoting awareness and understanding of this potentially treatable cause of pulmonary hypertension.
Piloting puberty content books and a teacher training guide in Sierra Leone: a qualitative assessment
Authors: Martinez Susi , Marfo Sylvia Ohene , Ibrahim Aisha Fofana , Carney Allison , Vavrus Frances , Kabba Mohamed , Wyss Natalie , Sommer Marni
Published: September 2024

Introduction

Ensuring young people receive adequate information and guidance about puberty is essential for healthy adolescent transitions. Although many countries are moving toward including comprehensive sexuality education in national curricula, content on puberty during early adolescence, including peer pressure and stigma related to physical and emotional changes, are rarely included. Limited evidence exists about the inclusion of puberty education in schools, and the role of teachers in delivering such content in low-and middle-income countries, including Sierra Leone.

Methods

We conducted a qualitative assessment using multiple methodologies (in-depth interviews with teachers; focus group discussions with girls and boys; key informant interviews with teacher training lecturers and government) to explore the feasibility and acceptability of a puberty education package (a teacher training guide and boys’ and girls’ puberty books) for primary school teachers to introduce puberty content in Sierra Leone.

Results

Three key themes were identified, including the importance of teacher comfort in discussing puberty, the value of the teacher’s guide for delivering puberty content, and system and resource constraints that impact the implementation of puberty education. Additional insights included how integrating puberty education into existing curriculum courses may be more effective than stand-alone puberty classes; education systems can enable in-service and pre-service teacher training, along with culturally appropriate puberty resources, to increase effective puberty education delivery in schools; and governments serve a key role in providing puberty education teacher training, ensuring sustainable funding to retain trained teachers, and offering guidance on national curriculum requirements on puberty education.

Discussion

There is a strong need to integrate puberty education into formal educational systems, with well trained teachers serving a valuable role in its delivery. Research is needed on how best to scale sustainable teacher training interventions to support the delivery of puberty education to adolescents in low- and middle-income contexts.
Impact of different reserve cost allocation mechanisms on market participants’ revenues: a quantitative analysis
Authors: Wen Xu , Zhou Quan , Luo Baosong , Yang Yang , Mao Rui , Fan Dong
Published: September 2024

Insufficient flexibility is a major barrier to the development of new power systems. Leveraging the resource allocation function of the electricity market is a promising way to enhance the flexibility of power systems and promote the consumption of renewables. The reasonable allocation of ancillary service costs plays a pivotal role in this function. Towards the target of “who causes, who shares,” various research related to cost allocation has been conducted. However, there is a lack of quantitative analysis of the impact of different cost allocation mechanisms on the market participants’ revenues. Whether various cost allocation mechanisms can alleviate the insufficient flexibility problem of power systems needs to be validated. With this in mind, taking operating reserve ancillary services as an example, a long-term market operation simulation model with energy-reserve joint clearing is established in this paper based on the time series production simulation. According to this, the revenues of market participants under different reserve cost allocation mechanisms are quantified. Besides, a self-dispatch model for the energy storage (ES) equipped by renewables is established, based on which the impact of ES on the revenues of renewables under different cost allocation mechanisms is analyzed. Case studies based on practical data from a provincial power grid in China demonstrate that with the well-designed reserve cost allocation mechanism, the revenues of flexible resources can be ensured. Meanwhile, renewables are incentivized to reduce their fluctuations and uncertainties by equipping the ES. Hence, the insufficient flexibility problem of power systems can be alleviated from both supply and requirements perspectives.
In Rhodotorula mucilaginosa, active oxidative metabolism increases carotenoids to inactivate excess reactive oxygen species
Authors: Mosqueda-Martínez Edson , Chiquete-Félix Natalia , Castañeda-Tamez Paulina , Ricardez-García Carolina , Gutiérrez-Aguilar Manuel , Uribe-Carvajal Salvador , Mendez-Romero Ofelia
Published: September 2024

Carotenoids produced by bacteria, yeasts, algae and plants inactivate Free Radicals (FR). However, FR may inactivate carotenoids and even turn them into free radicals. Oxidative metabolism is a source of the highly motile Reactive Oxygen Species (ROS). To evaluate carotenoid interactions with ROS, the yeast Rhodotorula mucilaginosa was grown in dextrose (YPD), a fermentative substrate where low rates of oxygen consumption and low carotenoid expression were observed, or in lactate (YPLac), a mitochondrial oxidative-phosphorylation (OxPhos) substrate, which supports high respiratory activity and carotenoid production. ROS were high in YPLac-grown cells and these were unmasked by the carotenoid production-inhibitor diphenylamine (DPA). In contrast, in YPD-grown cells ROS were almost absent. It is proposed that YPLac cells are under oxidative stress. In addition, YPLac-grown cells were more sensitive than YPD-grown cells to menadione (MD), a FR-releasing agent. To test whether carotenoids from cells grown in YPLac had been modified by ROS, carotenoids from each, YPD- and YPLac-grown cells were isolated and added back to cells, evaluating protection from MD. Remarkably, carotenoids extracted from cells grown in YPLac medium inhibited growth, while in contrast extracts from YPD-grown cells were innocuous or mildly protective. Results suggest that carotenoid-synthesis in YPLac-cells is a response to OxPhos-produced ROS. However, upon reacting with FR, carotenoids themselves may be inactivated or even become prooxidant themselves.
Effect of pioglitazone on inflammatory response and clinical outcome in T2DM patients with COVID-19: a randomized multicenter double-blind clinical trial
Authors: Baagar Khaled , Alessa Thamer , Abu-Farha Mohamed , Abubaker Jehad , Alhumaidi Heba , Franco Ceruto Jose Antonio , Hamad Mohammad Khair , Omrani Ali , Abdelrahman Salma , Zaka-Ul Haq Muhammad , Safi Abdul Wajid , Alhariri Bassem , Barman Manish , Abdelmajid Alaaeldin , Cancio Humberto Vidal Denis , Elmekaty Eman , Al-Khairi Irina , Cherian Preethi , Jayyousi Lina , Ahmed Mohammed , Qaddoumi Mohammed , Hajji Sulaiman , Esmaeel Ahmad , Al-Andaleeb Ali , Channanath Arshad , Devarajan Sriraman , Ali Hamad , Thanaraj Thangavel Alphonse , Al-Sabah Salman , Al-Mulla Fahd , Abdul-Ghani Muhammad , Jayyousi Amin
Published: September 2024

Background

Coronavirus disease 2019 (COVID-19) caused by the coronavirus SARS-CoV-2, has emerged as a rapidly spreading contagious disease across the globe. Recent studies showed that people with diabetes mellitus, severe obesity, and cardiovascular disease are at higher risk of mortality from COVID-19. It has been suggested that the increased risk is due to the chronic inflammatory state associated with type 2 diabetes. This study aimed to evaluate the efficacy of pioglitazone, a strong insulin sensitizer with anti-inflammatory properties, in improving the clinical outcomes of patients with type 2 diabetes admitted with moderate–severe COVID-19.

Method

We enrolled 350 patients with type 2 diabetes who were admitted to hospitals in Qatar and Kuwait with COVID-19. Patients were randomized to receive, in a double-blind fashion, pioglitazone (n = 189) or a matching placebo (n = 161) for 28 days. The study had two primary outcomes: (1) the incidence of a composite outcome composed of (a) the requirement for mechanical ventilation, (b) death, and (c) myocardial damage; and (2) an increase in C-reactive protein (CRP) levels.

Results

The first primary outcome occurred in 28 participants (8%), and the secondary outcome occurred in 17. Treatment with pioglitazone showed a significant reduction in interleukin (IL)-3 levels compared with placebo treatment (mean (SD) 2.73 (± 2.14) [95% CI: 0.02, 1.1], p = 0.043 vs. 2.28 (± 1.67) [95% CI: − 0.23, 0.86], p = 0.3, respectively), with no effect seen in the levels of other inflammatory markers. Even though not significant, a few of the patients on pioglitazone exhibited serum troponin levels > 3 times higher than the normal range seen in patients on placebo. On the other hand, more patients on pioglitazone were admitted to the ICU than those with placebo, and no significant difference in the CRP reduction was observed between the two groups.

Conclusion

The results of the present study demonstrate that pioglitazone treatment did not independently provide any additional clinical benefit to patients with type 2 diabetes admitted with a COVID-19 infection.

Clinical trial registration

https://clinicaltrials.gov, identifier NCT04604223.
Inter-individual and inter-regional variability of breast milk antibody reactivity to bacterial lipopolysaccharides
Authors: Crone Lisa , Sobek Jens , Müller Nicole , Restin Tanja , Bassler Dirk , Paganini Daniela , Zimmermann Michael B. , Zarnovican Patricia , Routier Françoise H. , Romero-Uruñuela Tais , Izquierdo Luis , Hennet Thierry
Published: September 2024

Breast milk is a vital source of nutrients, prebiotics, probiotics, and protective factors, including antibodies, immune cells and antimicrobial proteins. Using bacterial lipopolysaccharide arrays, we investigated the reactivity and specificity of breast milk antibodies towards microbial antigens, comparing samples from rural Kenya and urban Switzerland. Results showed considerable variability in antibody reactivity both within and between these locations. Kenyan breast milk demonstrated broad reactivity to bacterial lipopolysaccharides, likely due to increased microbial exposure. Antibodies primarily recognized the O-antigens of lipopolysaccharides and showed strong binding to specific carbohydrate motifs. Notably, antibodies against specific Escherichia coli O-antigens showed cross-reactivity with parasitic pathogens like Leishmania major and Plasmodium falciparum, thus showing that antibodies reacting against lipopolysaccharide O-antigens can recognize a wide range of antigens beyond bacteria. The observed diversity in antigen recognition highlights the significance of breast milk in safeguarding infants from infections, particularly those prevalent in specific geographic regions. The findings also offer insights for potential immunobiotic strategies to augment natural antibody-mediated defense against diverse pathogens.
RNA editing in response to COVID-19 vaccines: unveiling dynamic epigenetic regulation of host immunity
Authors: Jin Yun-Yun , Liang Ya-Ping , Pan Jia-Qi , Huang Wen-Hao , Feng Yan-Meng , Sui Wei-Jia , Yu Han , Tang Xiao-Dan , Zhu Lin , Chen Jian-Huan
Published: September 2024

Background

COVID-19 vaccines are crucial for reducing the threat and burden of the pandemic on global public health, yet the epigenetic, especially RNA editing in response to the vaccines remains unelucidated.

Results

Our current study performed an epitranscriptomic analysis of RNA-Seq data of 260 blood samples from 102 healthy and SARS-CoV-2 naïve individuals receiving different doses of the COVID-19 vaccine and revealed dynamic, transcriptome-wide adenosine to inosine (A-to-I) RNA editing changes in response to COVID-19 vaccines (RNA editing in response to COVID-19 vaccines). 5592 differential RNA editing (DRE) sites in 1820 genes were identified, with most of them showing up-regulated RNA editing and correlated with increased expression of edited genes. These deferentially edited genes were primarily involved in immune- and virus-related gene functions and pathways. Differential ADAR expression probably contributed to RNA editing in response to COVID-19 vaccines. One of the most significant DRE in RNA editing in response to COVID-19 vaccines was in apolipoprotein L6 (APOL6) 3’ UTR, which positively correlated with its up-regulated expression. In addition, recoded key antiviral and immune-related proteins such as IFI30 and GBP1 recoded by missense editing was observed as an essential component of RNA editing in response to COVID-19 vaccines. Furthermore, both RNA editing in response to COVID-19 vaccines and its functions dynamically depended on the number of vaccine doses.

Conclusion

Our results thus underscored the potential impact of blood RNA editing in response to COVID-19 vaccines on the host’s molecular immune system.
Analysis of the primary factors influencing donor derived cell-free DNA testing in kidney transplantation
Authors: Cao Changling , Yuan Li , Wang Yinfeng , Liu Haitao , Cuello Garcia Haider , Huang Huiqiang , Tan Weiqiang , Zhou Yang , Shi Haifeng , Jiang Tingya
Published: September 2024

The donor-derived cell-free DNA (ddcfDNA) is found in the plasma and urine of kidney transplant recipients and displays notable potential in diagnosing rejection, specifically antibody-mediated rejection (ABMR). Nonetheless, the quantitative methods of ddcfDNA lacking standardization and diverse detection techniques can impact the test outcomes. Besides, both the fraction and absolute values of ddcfDNA have been reported as valuable markers for rejection diagnosis, but they carry distinct meanings and are special in various pathological conditions. Additionally, ddcfDNA is highly sensitive to kidney transplant injury. The various sampling times and combination with other diseases can indeed impact ddcfDNA detection values. This review comprehensively analyses the various factors affecting ddcfDNA detection in kidney transplantation, including the number of SNPs and sequencing depths. Furthermore, different pathological conditions, distinct sampling time points, and the presence of complex heterologous signals can influence ddcfDNA testing results in kidney transplantation. The review also provides insights into ddcfDNA testing on different platforms along with key considerations.
The efficacy and safety of probiotics in the adjuvant treatment of psoriasis: a systematic review and meta-analysis of randomized controlled trials
Authors: Zhu Yiran , Xu Fan , Chen Hao , Zheng Quanhui
Published: September 2024

Background

It has been reported that the imbalance of gut microbiota is involved in the pathogenesis of psoriasis. We retrieved randomized placebo-controlled trials to evaluate the efficacy and safety of probiotic administration in the treatment of psoriasis.

Methods

The outcomes were changes in Psoriasis Area and Severity Index (PASI), Dermatology Life Quality Index (DLQI), and serum inflammatory indicators after treatment, and adverse events (AEs). Risk ratios (RRs) and mean differences (MDs) were calculated using random or fixed effects model.

Results

Seven qualified studies were identified in our study. The pooled percentage of patients with ≥75% reduction from baseline in PASI was higher in the probiotic group than that in the placebo group (33.57% vs. 23.61%; RR 1.40, 95% CI 0.98–1.98, p = 0.06). Compared with the placebo group, the PASI (MD −3.09, 95% CI −5.04 to −0.74, p = 0.01) and CRP level (MD −2.36, 95% CI −2.77 to −1.95, p < 0.0001) were significantly reduced in the probiotic group. There was no significant difference in DLQI (MD −1.45, 95% CI −6.72 to 3.82, p = 0.59) and AEs (RR 0.68, 95% CI 0.37–1.25, p = 0.22) between the two groups.

Conclusion

Oral administration of probiotics can improve psoriasis; however, large randomized controlled trials are needed to support this conclusion.

Systematic review registration

PROSPERO, identifier CRD42024506286, https://www.crd.york.ac.uk/prospero/display_record.php?ID=CRD42024506286.
Structure and assembly process of skin fungal communities among bat species in northern China
Authors: Wang Denghui , Wang Fan , Huang Zihao , Li Aoqiang , Dai Wentao , Leng Haixia , Jin Longru , Li Zhongle , Sun Keping , Feng Jiang
Published: September 2024

Background

The skin fungal communities of animals play a crucial role in maintaining host health and defending against pathogens. Because fungal infections can affect the skin microbiota of bats, gaining a comprehensive understanding of the characteristics of healthy bat skin fungal communities and the ecological processes driving them provides valuable insights into the interactions between pathogens and fungi.

Methods

We used Kruskal–Wallis tests and Permutational Multivariate Analysis of Variance (PERMANOVA) to clarify differences in skin fungal community structure among bat species. A Generalized Linear Model (GLM) based on a quasi-Poisson distribution and partial distance-based redundancy analysis (db-RDA) was performed to assess the influence of variables on skin fungal communities. Using community construction models to explore the ecological processes driving fungal community changes, t-tests and Wilcoxon tests were used to compare the alpha diversity and species abundance differences between the fungal structure on bat species’ skin and the environmental fungal pool.

Results

We found significant differences in the composition and diversity of skin fungal communities among bat species influenced by temperature, sampling site, and body mass index. Trophic modes and skin fungal community complexity also varied among bat species. Null model and neutral model analysis demonstrated that deterministic processes dominated the assembly of skin fungal communities, with homogeneous selection as the predominant process. Skin fungal communities on bat species were impacted by the environmental fungal reservoir, and actively selected certain amplicon sequence variants (ASVs) from the environmental reservoir to adhere to the skin.

Conclusion

In this study, we revealed the structure and the ecological process driving the skin fungal community across bat species in northern China. Overall, these results broaden our knowledge of skin fungal communities among bat species, which may be beneficial to potential strategies for the protection of bats in China.
Applicability of metabolomics to improve sustainable grapevine production
Authors: Estêvão Catarina , Rodrigues Lénia , Rato Ana Elisa , Garcia Raquel , Cardoso Hélia , Campos Catarina
Published: September 2024

Metabolites represent the end product of gene expression, protein interaction and other regulatory mechanisms. The metabolome reflects a biological system’s response to genetic and environmental changes, providing a more accurate description of plants’ phenotype than the transcriptome or the proteome. Grapevine (Vitis vinifera L.), established for the production of wine grapes, table grapes, and raisins, holds immense agronomical and economic significance not only in the Mediterranean region but worldwide. As all plants, grapevines face the adverse impact of biotic and abiotic stresses that negatively affect multiple stages of grape and wine industry, including plant and berry development pre- and post-harvest, fresh grapes processing and consequently wine quality. In the present review we highlight the applicability of metabolome analysis in the understanding of the mechanisms involved in grapevine response and acclimatization upon the main biotic and abiotic constrains. The metabolome of induced morphogenic processes such as adventitious rooting and somatic embryogenesis is also explored, as it adds knowledge on the physiological and molecular phenomena occurring in the explants used, and on the successfully propagation of grapevines with desired traits. Finally, the microbiome-induced metabolites in grapevine are discussed in view of beneficial applications derived from the plant symbioses.
Horizontal analysis and longitudinal cohort study of chronic renal failure correlates and cerebral small vessel disease relationship using peak width of skeletonized mean diffusivity
Authors: Wang Dan , Sun Zheng , Li Yuehua
Published: September 2024

Background and purpose

Peak width of skeletonized mean diffusivity (PSMD) is an MRI-based biomarker that may reflect white matter lesions (WML). PSMD is based on skeletonization of MR DTI data and histogram analysis. Both chronic renal failure (CRF) and WML may be affected by multisystemic small-vessel disorder. We aimed to explore the relationship between PSMD and estimated glomerular filtration rate (eGFR).

Methods

Fifty followed-up CRF patients matched for age, sex, hypertension and smoking status were enrolled and classified into a progressive group (n = 16) and stable group (n = 34) based on eGFR levels. Longitudinal and horizontal differences of PSMD were compared between the progressive and stable groups at the initial and follow-up time points. Pearson’s correlation was used for correlation of eGFR with PSMD and WML (per Fazekas scale score). ROC was used to measure the sensitivity of PSMD and WML score to changes of eGFR.

Results

At the follow-up time point, PSMD of the progressive group was significantly higher than at the initial time point (p < 0.001), and PSMD of the progressive group was significantly higher than stable group (p < 0.001). PSMD and eGFR were significantly correlated. AUC curves explored that ΔPSMD (PSMD changes at the follow-up and initial time points) and follow-up PSMD was better for the classification of progressive and stable groups.

Conclusion

PSMD has significant correlation with eGFR, PSMD can reveal a close relationship between WML and CRF.
Sex differences in functional and structural alterations of hippocampus region in chronic pain: a DTI and resting-state fMRI study
Authors: Zhou Jun-Zhi , Deng Jie , Luo De-Xing , Mai Jing-Wen , Wu Jia-Yan , Duan Yu-Juan , Dong Bo , Xin Wen-Jun , Xu Ting , Wei Jia-You
Published: September 2024

Introduction

It is well known that there are significant differences in the prevalence of chronic pain between males and females. Human and animal imaging studies have shown that chronic pain profoundly alters the structure and function of brain regions. However, there is limited research on the sex-specific mechanisms underlying the brain plasticity and adaptive changes associated with chronic pain. In this article, we conducted a multimodal study to evaluate how nerve injury-induced chronic pain affects the brain.

Methods

Male and female Sprague-Dawley (SD) rats with spared nerve injury (SNI) model underwent resting-state functional magnetic resonance imaging (rs-fMRI) (male sham group: n = 18; male SNI group: n = 18; female sham group: n = 20; female SNI group: n = 18) and magnetic resonance diffusion tensor imaging (DTI) (male sham group: n = 23; male SNI group: n = 21; female sham group: n = 20; female SNI group: n = 21) scanning. ICA method, Fractional amplitude of low-frequency fluctuations (fALFF), immunofluorescence staining, and graph theory analysis was utilized to extract the rs-fMRI changes of brain regions of each group.

Results

Using SNI model, which promotes long-lasting mechanical allodynia, we found that neuropathic pain deeply modified the intrinsic organization of the brain functional network in male and female rats (main effect of operation: F = 298.449, P < 0.001). 64 independent components (ICs) in the brain were divided and assigned to 16 systems. In male rats, we observed significant alterations in the microstructure of the hippocampal cornu ammonis 1 and cornu ammonis 2 (CA1/CA2) region, as indicated by increased mean diffusivity (MD) (CA1_L: P = 0.02; CA1_R: P = 0.031; CA2_L: P = 0.035; CA2_R: P = 0.015) and radial diffusivity (RD) (CA1_L: P = 0.028; CA1_R: P = 0.033; CA2_L: P = 0.037; CA2_R: P = 0.038) values, along with enhanced activating transcription factor 3 (ATF3) expression. Conversely, in female rats, we found significant increases in the fractional amplitude of low frequency fluctuations (fALFF) value within the hippocampal dentate gyrus (DG) (F = 5.419, P = 0.023), accompanied by elevated c-Fos signal (F = 6.269, P = 0.031). Furthermore, graph theory analysis revealed notable differences in the small-world network of the hippocampal system in female rats, characterized by reduced small-world attributes and increased inter-nodal transmission efficiency.

Discussion

Our study indicates sex differences in structural and functional alterations in the hippocampal system in rats under chronic pain conditions. The results suggest that the hippocampus system plays an important role in the different mechanisms of chronic pain in different sexes. These findings provide reliable insights to explore the complex mechanisms underlying sex differences in chronic pain.
Skeletal health in DYRK1A syndrome
Authors: Otte Elysabeth D. , Roper Randall J.
Published: September 2024

DYRK1A syndrome results from a reduction in copy number of the DYRK1A gene, which resides on human chromosome 21 (Hsa21). DYRK1A has been implicated in the development of cognitive phenotypes associated with many genetic disorders, including Down syndrome (DS) and Alzheimer’s disease (AD). Additionally, overexpression of DYRK1A in DS has been implicated in the development of abnormal skeletal phenotypes in these individuals. Analyses of mouse models with Dyrk1a dosage imbalance (overexpression and underexpression) show skeletal deficits and abnormalities. Normalization of Dyrk1a copy number in an otherwise trisomic animal rescues some skeletal health parameters, and reduction of Dyrk1a copy number in an otherwise euploid (control) animal results in altered skeletal health measurements, including reduced bone mineral density (BMD) in the femur, mandible, and skull. However, little research has been conducted thus far on the implications of DYRK1A reduction on human skeletal health, specifically in individuals with DYRK1A syndrome. This review highlights the skeletal phenotypes of individuals with DYRK1A syndrome, as well as in murine models with reduced Dyrk1a copy number, and provides potential pathways altered by a reduction of DYRK1A copy number, which may impact skeletal health and phenotypes in these individuals. Understanding how decreased expression of DYRK1A in individuals with DYRK1A syndrome impacts bone health may increase awareness of skeletal traits and assist in the development of therapies to improve quality of life for these individuals.
Ultra-processed foods intake and sex hormone levels among children and adolescents aged 6–19 years: a cross-sectional study
Authors: Zhao Hao , Gui Wei , Liu Shangtao , Zhao Fangyu , Fan Wenyan , Jing Fangyuan , Sun Chuan
Published: September 2024

Background

Sex hormones are crucial for the development of children and adolescents. The increasing consumption of ultra-processed foods (UPFs) among children and adolescents in the United States (US) has raised concerns about their potential impact on health, including hormonal balance.

Methods

Data from 3,354 participants aged 6–19 years from the NHANES 2013–2016 were analyzed. UPF intake was categorized using the NOVA food classification system, and the percentage of total daily energy intake from UPFs was calculated. The serum levels of total testosterone (TT), sex hormone-binding globulin (SHBG), and estradiol (E2) were measured. The free androgen index (FAI) and TT/E2 ratio were calculated to estimate bioavailable testosterone levels and the balance between androgens and estrogens, respectively. Multiple linear regression models, adjusted for potential confounders, estimated the associations.

Results

Our results showed that higher intake of UPFs was marginally associated with decreased serum SHBG levels (quartile (Q) 2 vs. Q1: β = −5.3, 95% confidence interval (CI): −17.0, 8.1%; Q3 vs. Q1: β = −14.6, 95%CI: −25.1, −2.5%; Q4 vs. Q1: β = −9.0, 95%CI: −20.3, 3.8%; P trend = 0.081), and significantly associated with increased serum FAI in female adolescents (Q2 vs. Q1: β = 3.2, 95%CI: −3.3, 9.7; Q3 vs. Q1: β = 7.6, 95%CI: −0.7, 16.0; Q4 vs. Q1: β = 9.5, 95%CI: 1.5, 17.6; P trend = 0.019). Additionally, UPF intake showed a marginally positive association with increased serum SHBG levels (P trend = 0.057) in male children and FAI (P trend = 0.150) in male adolescents, respectively. Similar results were observed when participants were stratified by puberty status, except for the association between UPF intake and SHBG in male children. However, there were no associations between UPF consumption and TT, E2, or the TT/E2 ratio, both in males and females.

Conclusion

Higher UPF consumption is associated with increased FAI in adolescents, particularly in girls, indicating higher bioavailable testosterone levels. Future studies should validate these findings with direct free testosterone measurements and more precise dietary intake assessments.
A novel tool for predicting the risk of cancer-specific early death in older patients with primary malignant melanoma of skin: a population-based analysis
Authors: Lei Yan , Wang Shucui , Chen Jun , Liu Lanjun , Huang Linting , Wu Xiujuan , Xu Hui , Yang Yali
Published: September 2024

Background

Primary malignant melanoma (MM) of skin threatens health, especially in the older population, causing a significant risk of early death. The purpose of this study was to establish a diagnostic nomogram to predict the early mortality risk in older patients with primary skin MM and to determine the independent risk factors of cancer-specific early death in such patients.

Methods

The Surveillance, Epidemiology and End Results (SEER) database provided the clinical and pathological characteristics of older patients with primary skin MM from 2000 to 2019. Initially, a 7:3 random assignment was used to place the recruited patients into training and validation cohorts. Then, the independent risk variables of cancer-specific early death in those individuals were determined using univariate and multivariate logistic regression analysis. Those patients’ diagnostic nomograms were constructed using the acquired independent risk variables. Ultimately, the performance of the newly created diagnostic nomogram was verified using calibration curves, receiver operating characteristic (ROC), and decision curve analysis (DCA) curves.

Results

In this study, 2,615 patients in total were included. Age, histology, liver metastasis, tumor stage, surgery, therapy, and radiation were found to be independent risk factors following statistical analysis, with a special emphasis on early death in older patients with primary skin MM. A diagnostic nomogram for the cancer-specific early death risk was created and validated based on these variables. High agreement was reported between the expected and actual probabilities in the calibration curves. Area under the curves (AUC) of the novel created diagnostic nomogram was greater than that of each independent risk factor, with AUCs for the training and validation cohorts being 0.966 and 0.971, respectively. The nomogram had a high value for its applicability in clinical settings, according to DCA.

Conclusion

In older patients with primary skin MM, the current study created a diagnostic nomogram to predict the probability of cancer-specific early death. Because of the nomograms’ good performance, physicians will be better able to identify older patients who are at a high risk of early death and treat them individually to increase their survival benefit.
Advances in artificial intelligence applications in the field of lung cancer
Authors: Yang Di , Miao Yafei , Liu Changjiang , Zhang Nan , Zhang Duo , Guo Qiang , Gao Shuo , Li Linqian , Wang Jianing , Liang Si , Li Peng , Bai Xuan , Zhang Ke
Published: September 2024

Lung cancer remains a leading cause of cancer-related deaths globally, with its incidence steadily rising each year, representing a significant threat to human health. Early detection, diagnosis, and timely treatment play a crucial role in improving survival rates and reducing mortality. In recent years, significant and rapid advancements in artificial intelligence (AI) technology have found successful applications in various clinical areas, especially in the diagnosis and treatment of lung cancer. AI not only improves the efficiency and accuracy of physician diagnosis but also aids in patient treatment and management. This comprehensive review presents an overview of fundamental AI-related algorithms and highlights their clinical applications in lung nodule detection, lung cancer pathology classification, gene mutation prediction, treatment strategies, and prognosis. Additionally, the rapidly advancing field of AI-based three-dimensional (3D) reconstruction in lung cancer surgical resection is discussed. Lastly, the limitations of AI and future prospects are addressed.
Neuroprotective effect and preparation methods of berberine
Authors: Sunhe Yi-Xuan , Zhang Yue-Hui , Fu Rui-Jia , Xu Ding-Qiao , Tang Yu-Ping
Published: September 2024

Berberine (BBR) is a natural alkaloid, which has played an important role in the field of medicine since its discovery in the late 19th century. However, the low availability of BBR in vivo prevents its full effect. In recent years, a large number of studies confirmed that BBR has a protective effect on the nervous system through various functions, yet the issue of the inability to systematically understand the protection of BBR on the nervous system remains a gap that needs to be addressed. Many existing literature introductions about berberine in neurodegenerative diseases, but the role of berberine in the nervous system goes far beyond these. Different from these literatures, this review is divided into three parts: preparation method, mechanism, and therapeutic effect. Various dosage forms of BBR and their preparation methods are added, in order to provide a reasonable choice of BBR, and help to solve the problem of low bioavailability in treatment. More importantly, we more comprehensively summarize the mechanism of BBR to protect the nervous system, in addition to the treatment of neurodegenerative diseases (anti-oxidative stress, anti-neuroinflammation, regulation of apoptosis), two extra mechanisms of berberine for the protection of the nervous system were also introduced: bidirectional regulation of autophagy and promote angiogenesis. Also, we have clarified the precise mechanism by which BBR has a therapeutic effect not only on neurodegenerative illnesses but also on multiple sclerosis, gliomas, epilepsy, and other neurological conditions. To sum up, we hope that these can evoke more efforts to comprehensively utilize of BBR nervous system, and to promote the application of BBR in nervous system protection.
Application of multi-omics in the study of traditional Chinese medicine
Authors: Zhao Meng , Che Yanan , Gao Yan , Zhang Xiangyang
Published: September 2024

Traditional Chinese medicine (TCM) is playing an increasingly important role in disease treatment due to the advantages of multi-target, multi-pathway mechanisms, low adverse reactions and cost-effectiveness. However, the complexity of TCM system poses challenges for research. In recent years, there has been a surge in the application of multi-omics integrated research to explore the active components and treatment mechanisms of TCM from various perspectives, which aids in advancing TCM’s integration into clinical practice and holds immense importance in promoting modernization. In this review, we discuss the application of proteomics, metabolomics, and mass spectrometry imaging in the study of composition, quality evaluation, target identification, and mechanism of action of TCM based on existing literature. We focus on the workflows and applications of multi-omics based on mass spectrometry in the research of TCM. Additionally, potential research ideas for future exploration in TCM are outlined. Overall, we emphasize the advantages and prospects of multi-omics based on mass spectrometry in the study of the substance basis and mechanism of action of TCM. This synthesis of methodologies holds promise for enhancing our understanding of TCM and driving its further integration into contemporary medical practices.
The lncRNA CADM2-AS1 promotes gastric cancer metastasis by binding with miR-5047 and activating NOTCH4 translation
Authors: Zhang Yu-Tong , Zhao Li-Juan , Zhou Teng , Zhao Jin-Yuan , Geng Yin-Ping , Zhang Qiu-Rong , Sun Pei-Chun , Chen Wen-Chao
Published: September 2024

Background

Multi-organ metastasis has been the main cause of death in patients with Gastric cancer (GC). The prognosis for patients with metastasized GC is still very poor. Long noncoding RNAs (lncRNAs) always been reported to be closely related to cancer metastasis.

Methods

In this paper, the aberrantly expressed lncRNA CADM2-AS1 was identified by lncRNA-sequencing in clinical lymph node metastatic GC tissues. Besides, the role of lncRNA CADM2-AS1 in cancer metastasis was detected by Transwell, Wound healing, Western Blot or other assays in vitro and in vivo. Further mechanism study was performed by RNA FISH, Dual-luciferase reporter assay and RT-qPCR. Finally, the relationship among lncRNA CADM2-AS1, miR-5047 and NOTCH4 in patient tissues was detected by RT-qPCR.

Results

In this paper, the aberrantly expressed lncRNA CADM2-AS1 was identified by lncRNA-sequencing in clinical lymph node metastatic GC tissues. Besides, the role of lncRNA CADM2-AS1 in cancer metastasis was detected in vitro and in vivo. The results shown that overexpression of the lncRNA CADM2-AS1 promoted GC metastasis, while knockdown inhibited it. Further mechanism study proved that lncRNA CADM2-AS1 could sponge and silence miR-5047, which targeting mRNA was NOTCH4. Elevated expression of lncRNA CADM2-AS1 facilitate GC metastasis by up-regulating NOTCH4 mRNA level consequently. What’s more, the relationship among lncRNA CADM2-AS1, miR-5047 and NOTCH4 was further detected and verified in metastatic GC patient tissues.

Conclusions

LncRNA CADM2-AS1 promoted metastasis in GC by targeting the miR-5047/NOTCH4 signaling axis, which may be a potential target for GC metastasis.
DArTseq genotyping facilitates the transfer of “exotic” chromatin from a Secale cereale × S. strictum hybrid into wheat
Authors: Szőke-Pázsi Kitti , Kruppa Klaudia , Tulpová Zuzana , Kalapos Balázs , Türkösi Edina , Gaál Eszter , Darkó Éva , Said Mahmoud , Farkas András , Kovács Péter , Ivanizs László , Doležel Jaroslav , Rabanus-Wallace M. Timothy , Molnár István , Szakács Éva
Published: September 2024

Cultivated and wild species of the genus rye (Secale) are important but underexploited gene sources for increasing the genetic diversity of bread wheat. Gene transfer is possible via bridge genetic materials derived from intergeneric hybrids. During this process, it is essential to precisely identify the rye chromatin in the wheat genetic background. In the present study, backcross generation BC2F8 from a cross between Triticum aestivum (Mv9kr1) and S. cereanum (‘Kriszta,’ a cultivar from the artificial hybrid of S. cereale and S. strictum) was screened using in-situ hybridization (GISH and FISH) and analyzed by DArTseq genotyping in order to select potentially agronomically useful genotypes for prebreeding purposes. Of the 329,267 high-quality short sequence reads generated, 27,822 SilicoDArT and 8,842 SNP markers specific to S. cereanum 1R–7R chromosomes were identified. Heatmaps of the marker densities along the ‘Lo7’ rye reference pseudomolecules revealed subtle differences between the FISH- and DArTseq-based results. This study demonstrates that the “exotic” rye chromatin of S. cereanum introgressed into wheat can be reliably identified by high-throughput DArTseq genotyping. The Mv9kr1-’Kriszta’ addition and translocation lines presented here may serve as valuable prebreeding genetic materials for the development of stress-tolerant or disease-resistant wheat varieties.
Water content estimation of conifer needles using leaf-level hyperspectral data
Authors: Zhang Yuan , Wang Anzhi , Li Jiaxin , Wu Jiabing
Published: September 2024

Water is a crucial component for plant growth and survival. Accurately estimating and simulating plant water content can help us promptly monitor the physiological status and stress response of vegetation. In this study, we constructed water loss curves for three types of conifers with morphologically different needles, then evaluated the applicability of 12 commonly used water indices, and finally explored leaf water content estimation from hyperspectral data for needles with various morphology. The results showed that the rate of water loss of Olgan larch is approximately 8 times higher than that of Chinese fir pine and 21 times that of Korean pine. The reflectance changes were most significant in the near infrared region (NIR, 780-1300 nm) and the short-wave infrared region (SWIR, 1300–2500 nm). The water sensitive bands for conifer needles were mainly concentrated in the SWIR region. The water indices were suitable for estimating the water content of a single type of conifer needles. The partial least squares regression (PLSR) model is effective for the water content estimation of all three morphologies of conifer needles, demonstrating that the hyperspectral PLSR model is a promising tool for estimating needles water content.
Analysis of rhizosphere soil microbial diversity and its functions between Dahongpao mother tree and cutting Dahongpao
Authors: Jia Xiaoli , Li Mingzhe , Zhang Qi , Jia Miao , Hong Lei , Zhang Shuqi , Wang Yuhua , Luo Yangxin , Wang Tingting , Ye Jianghua , Wang Haibin
Published: September 2024

Dahongpao mother tree (Camellia sinensis (L.) O. Ktze) is a representative of Wuyi rock tea. Whether there is a difference in rhizosphere soil microbial diversity and function between asexually propagated cuttings of Dahongpao (PD) and the parent Dahongpao mother tree (MD) has not been reported. In this study, high throughput sequencing technology was used to analyze rhizosphere soil microbial diversity, functions and their relationship with soil available nutrients and enzyme activities in MD and PD. The results showed that available nitrogen, phosphorus and potassium contents and urease, protease, acid phosphatase and sucrase activities of rhizosphere soils in MD were significantly higher than those in PD. Both bacterial and fungal diversity were higher in rhizosphere soils in MD than in PD, and secondly, the bacterial community structure was less stable while the fungal community structure was more stable in PD compared to MD. There were significant differences between MD and PD tea tree rhizosphere soils in 6 genera of characteristic bacteria and 4 genera of characteristic fungi. The results of function and interaction effect analysis showed that the rhizosphere soil available nutrient content and enzyme activities in MD were significantly higher than those in PD, and their contributions mainly originated from Pirellula and Acidisphaera of characteristic bacteria and Alatospora of characteristic fungi. Secondly, MD maybe had a stronger ability to inhibit soil pathogens than PD, with the main contribution coming from Scopulariopsis and Tolypocladium of characteristic fungi. Overall, compared with PD, soil texture in MD was relatively better, and its soil nutrient cycling-related enzyme activities were stronger, which was more favorable to soil nutrient cycling and increased the available nutrient content of the soil, which in turn promoted the growth of tea trees. This study provides an important reference for the planting and management of tea tree cuttings and microbial regulation of tea tree growth.