bluuebunny/crossref_metadata_2025 huggingface dataset:
Migration of covered stents in thoracic central vein obstruction procedures in patients with hemodialysis: Case report and literature review
Authors: Chen Bo , Lai Qiquan , Fedally Swalay , Wan Ziming
Published: July 2022

Objective

The objective of the study is to present a case of hemodialysis in which the covered stent that had migrated into the right ventricle was retrieved by exploratory thoracotomy, and to review the literature on the diagnosis and treatment of stent migration in thoracic central vein obstruction (TCVO) procedures for hemodialysis patients.

Method

A systematic search of the PubMed database was performed to identify clinical presentations, imaging strategies, stent types, and treatment modalities for stent migration in hemodialysis patients.

Results

A total of 14 case reports on stent migration in TCVO procedures for hemodialysis patients were included and analyzed. Ten cases included migration to the cardiac chambers and the remainder migration to the pulmonary artery. The common symptoms of stent migration in TCVO procedures are reported to be chest pain and dyspnea, while three of the cases studied involved no symptoms. Echocardiography, chest X-ray, and computed tomography are the commonly used methods for the diagnosis of stent migration and identification of the precise positioning of the stent. Stent migration to the right subclavian or innominate veins was the most prevalent case (seven cases). All were bare stents. Seven cases involved retrieval by interventional surgery, while four cases involved retrieval by open heart surgery. However, there were three cases in which the “wait-and-see” approach was adopted since the patients were asymptomatic.

Conclusions

Stent migration in TCVO procedures is a rare but extremely serious complication. The causes are not fully understood. The current treatment strategies include interventional surgery, open heart surgery, and the “wait-and-see” approach.
Future Fertility of Patients With No Embryo Transfer in Their First IVF Cycle Attempts
Authors: Zhu Xuli , Cao Mingya , Yao Zhaohui , Lu Peiyang , Xu Yueming , Hao Guimin , Zhao Zhiming
Published: July 2022

Objective

We aimed to evaluate the future outcomes of patients undergoing their first IVF (in vitro fertilization) attempt with no oocyte retrieved, no normal zygotes formed, or no embryos available for transfer and to identify factors affecting the live birth rate.

Methods

Patients who underwent no transplantable embryo in their first IVF cycles but carried out several consecutive cycles between January 2012 to December 2020 were retrospectively enrolled and divided into three groups:group A (no egg retrieval), group B (no normal zygotes formed), and group C (no embryos available to transfer). The patients were also divided into the live birth group and non-live birth group according to whether they got a live baby or not. The clinical data and the cumulative clinical outcomes of groups were compared.

Results

496 patients met the inclusion criteria and enrolled, with 121 patients with no oocytes retrieved in group A, 138 patients with no normal zygotes formed in group B, and 237 patients with no embryos available to transfer in group C. The age [(34.75(5.82) vs 31.91(5.31), P<0.001; 34.75(5.82) vs 32.25(5.72), P<0.001)] and baseline FSH level [(13.04(8.82) vs 10.52(7.39), P=0.005; 13.04(8.82) vs 9.91(5.95), P<0.001)] of women in group A were significantly higher than those in groups B and C. The stable cumulative live birth rate/patient of three groups achieved 18.18% (after 5 cycles, group A), 28.98% (after 3 cycles, group B) and 20.25% (after 7 cycles, group C). Moreover, the multivariate regression analysis showed that female age and basic FSH were main factors affecting live birth outcome of patients with no embryo transfer in their first IVF cycle attempts.

Conclusions

The future clinical outcome may be better in women with no normal zygotes than those with no oocyte retrieved or no available embryo at their first IVF cycle attempts. The main factors influencing the live birth are age and ovarian reserve.
Sexual dimorphism through androgen signaling; from external genitalia to muscles
Authors: Ipulan-Colet Lerrie Ann
Published: July 2022

Sexual dimorphisms can be seen in many organisms with some exhibiting subtle differences while some can be very evident. The difference between male and female can be seen on the morphological level such as discrepancies in body mass, presence of body hair in distinct places, or through the presence of specific reproductive structures. It is known that the development of the reproductive structures is governed by hormone signaling, most commonly explained through the actions of androgen signaling. The developmental program of the male and female external genitalia involves a common anlage, the genital tubercle or GT, that later on develop into a penis and clitoris, respectively. Androgen signaling involvement can be seen in the different tissues in the GT that express Androgen receptor and the different genes that are regulated by androgen in the mesenchyme and endoderm component of the GT. Muscles are also known to be responsive to androgen signaling with male and female muscles exhibiting different capabilities. However, the occurrence of sexual dimorphism in muscle development is unclear. In this minireview, a summary on the role of androgen in the sexually dimorphic development of the genital tubercle was provided. This was used as a framework on analyzing the different mechanism employed by androgen signaling to regulate the sexual dimorphism in muscle development.
Non-structural carbohydrate and water dynamics of Moso bamboo during its explosive growth period
Authors: Li Xue , Ye Chongyu , Fang Dongming , Zeng Qiangfa , Cai Yanjiang , Du Huaqiang , Mei Tingting , Zhou Guomo
Published: July 2022

Newly sprouted culm (culm_new) of Moso bamboo can complete its height growth within 1 or 2 months without growing any leaf. This explosive growth without enough leaf photosynthesis may rely heavily on external carbon input, such as carbon storage in the rhizomes or culms from the nearby mother culms (culm_mother). However, the existing studies have not explored the role of new photosynthesized carbon by the nearby culm_mother and the corresponding water dynamics. Therefore, this study monitored non-structural carbohydrates in the culm_mother and water transfer between the culm_new and their attached culm_mother in a 3-month experiment. Nine pairs of newly sprouted and attached culm_mother were categorized into three groups with three different treatments, that is, (1) control without any treatment, (2) cutting off rhizomes between the culm_new and culm_mother (Treatment I), and (3) removing all leaves of culm_mother based on the Treatment I (Treatment II). The differences between non-structural carbohydrates of the culm_mother in the control and treatment I were defined as transferred carbohydrates transferred outward from culm_mother. The difference between treatments I and II was defined as newly photosynthesized carbohydrates of the culm_mother. Before the culm_new leafing, there were significant transferred carbohydrates and newly photosynthesized carbohydrates from the culm_mother. In contrast, the carbon transfer became fewer after leafing. At the same time, the sap flow direction in the rhizomes indicated water flows from culm_new to culm_mother during the day and vice versa at night of the culm_new at the pre-leafing stage. These findings may suggest that the explosive growth of the culm_new relies on both previous carbon storage and newly photosynthesized carbohydrates, and the carbon transfer may be coordinated with water transportation between the culms. Further study may pay attention to the potential support from the overall network of the bamboo stand or groves.
Causal analysis between altered levels of interleukins and obstructive sleep apnea
Authors: Yi Minhan , Zhao Wangcheng , Fei Quanming , Tan Yun , Liu Kun , Chen Ziliang , Zhang Yuan
Published: July 2022

Background

Inflammation proteins including interleukins (ILs) have been reported to be related to obstructive sleep apnea (OSA). The aims of this study were to estimate the levels for several key interleukins in OSA and the causal effects between them.

Method

Weighted mean difference (WMD) was used to compare the expression differences of interleukins between OSA and control, and the changed levels during OSA treatments in the meta-analysis section. A two-sample Mendelian randomization (MR) was used to estimate the causal directions and effect sizes between OSA risks and interleukins. The inverse-variance weighting (IVW) was used as the primary method followed by several other MR methods including MR Egger, Weighted median, and MR-Robust Adjusted Profile Score as sensitivity analysis.

Results

Nine different interleukins—IL-1β, IL-2, IL-4, IL-6, IL-8, IL-12, IL-17, IL-18, and IL-23—were elevated in OSA compared with control to varying degrees, ranging from 0.82 to 100.14 pg/ml, and one interleukin, IL-10, was decreased by 0.77 pg/ml. Increased IL-1β, IL-6, and IL-8 rather than IL-10 can be reduced in OSA by effective treatments. Further, the MR analysis of the IVW method showed that there was no significant evidence to support the causal relationships between OSA and the nine interleukins—IL-1β, IL-2, IL-4, IL-5, IL-6, IL-8, IL-10, IL-17, and IL-18. Among them, the causal effect of OSA on IL-5 was almost significant [estimate: 0.267 (−0.030, 0.564), p = 0.078]. These results were consistent in the sensitivity analysis.

Conclusions

Although IL-1β, IL-2, IL-4, IL-6, IL-8, IL-12, IL-17, IL-18, and IL-23 were increasing and IL-10 was reducing in OSA, no significant causal relationships were observed between them by MR analysis. Further research is needed to test the causality of OSA risk on elevated IL-5 level.
A single-cell map of vascular and tissue lymphocytes identifies proliferative TCF-1+ human innate lymphoid cells
Authors: Gao Yu , Alisjahbana Arlisa , Boey Daryl Zhong Hao , Mohammad Imran , Sleiers Natalie , Dahlin Joakim S. , Willinger Tim
Published: July 2022

Innate lymphoid cells (ILCs) play important roles in tissue homeostasis and host defense, but the proliferative properties and migratory behavior of especially human ILCs remain poorly understood. Here we mapped at single-cell resolution the spatial distribution of quiescent and proliferative human ILCs within the vascular versus tissue compartment. For this purpose, we employed MISTRG humanized mice as an in-vivo model to study human ILCs. We uncovered subset-specific differences in the proliferative status between vascular and tissue ILCs within lymphoid and non-lymphoid organs. We also identified CD117-CRTH2-CD45RA+ ILCs in the spleen that were highly proliferative and expressed the transcription factor TCF-1. These proliferative ILCs were present during the neonatal period in human blood and emerged early during population of the human ILC compartment in MISTRG mice transplanted with human hematopoietic stem and progenitor cells (HSPCs). Single-cell RNA-sequencing combined with intravascular cell labeling suggested that proliferative ILCs actively migrated from the local vasculature into the spleen tissue. Collectively, our comprehensive map reveals the proliferative topography of human ILCs, linking cell migration and spatial compartmentalization with cell division.
In rheumatoid arthritis inflamed joints share dominant patient-specific B-cell clones
Authors: Musters Anne , Balzaretti Giulia , van Schaik Barbera D. C. , Jongejan Aldo , van der Weele Linda , Tas Sander W. , van Kampen Antoine H. C. , de Vries Niek
Published: July 2022

Background

In patients with rheumatoid arthritis (RA) different joints were shown to share the same dominant T-cell clones, suggesting shared characteristics of the inflammatory process and indicating that strategies to selectively target the antigen receptor might be feasible. Since T- and B-lymphocytes closely interact in adaptive responses, we analysed to what extent different joints also share dominant B-cell clones.

Methods

In 11 RA patients, quantitative B-cell receptor (BCR) repertoire analysis was performed in simultaneously obtained samples from inflamed synovial tissue (ST) from distinct locations within one joint, from multiple joints, from synovial fluid (SF) and peripheral blood (PB).

Results

ST biopsies from different locations in the same joint showed clear overlap in the top-25 dominant BCR clones (16.7%, SD 12.5), in the same range as the overlap between ST and SF in the same joint (8.0%, SD 8.8) and the overlap between ST-ST between different joints (9.1%, SD 8.2), but clearly higher than the overlap between ST and PB (1.7%, SD 2.4; p<0.05) and SF and PB (2.7%, SD 4.1; p<0.05). Interestingly, these figures were substantially lower than the overlap observed in previous T-cell clonality studies.

Conclusions

We conclude that in RA BCR clonal responses may be more localized than TCR clonal responses, pointing to antigen-selective influx, proliferation and/or maturation of B-cells. B lineage cells in the SF may adequately represent the dominant BCR clones of the ST, which is in contrast to T-cells. Collectively, the presence of shared B- and especially T-cells in different joints from the same patient suggests that approaches might be feasible that aim to develop antigen-receptor specific targeting of lymphocyte clones in RA as an alternative to more generalized immunosuppressive strategies.
Potential association factors for developing effective peptide-based cancer vaccines
Authors: Jiang Chongming , Li Jianrong , Zhang Wei , Zhuang Zhenkun , Liu Geng , Hong Wei , Li Bo , Zhang Xiuqing , Chao Cheng-Chi
Published: July 2022

Peptide-based cancer vaccines have been shown to boost immune systems to kill tumor cells in cancer patients. However, designing an effective T cell epitope peptide-based cancer vaccine still remains a challenge and is a major hurdle for the application of cancer vaccines. In this study, we constructed for the first time a library of peptide-based cancer vaccines and their clinical attributes, named CancerVaccine (https://peptidecancervaccine.weebly.com/). To investigate the association factors that influence the effectiveness of cancer vaccines, these peptide-based cancer vaccines were classified into high (HCR) and low (LCR) clinical responses based on their clinical efficacy. Our study highlights that modified peptides derived from artificially modified proteins are suitable as cancer vaccines, especially for melanoma. It may be possible to advance cancer vaccines by screening for HLA class II affinity peptides may be an effective therapeutic strategy. In addition, the treatment regimen has the potential to influence the clinical response of a cancer vaccine, and Montanide ISA-51 might be an effective adjuvant. Finally, we constructed a high sensitivity and specificity machine learning model to assist in designing peptide-based cancer vaccines capable of providing high clinical responses. Together, our findings illustrate that a high clinical response following peptide-based cancer vaccination is correlated with the right type of peptide, the appropriate adjuvant, and a matched HLA allele, as well as an appropriate treatment regimen. This study would allow for enhanced development of cancer vaccines.
Protective role of Cav-1 in pneumolysin-induced endothelial barrier dysfunction
Authors: Batori Robert K. , Chen Feng , Bordan Zsuzsanna , Haigh Stephen , Su Yunchao , Verin Alexander D. , Barman Scott A. , Stepp David W. , Chakraborty Trinad , Lucas Rudolf , Fulton David J. R.
Published: July 2022

Pneumolysin (PLY) is a bacterial pore forming toxin and primary virulence factor of Streptococcus pneumonia, a major cause of pneumonia. PLY binds cholesterol-rich domains of the endothelial cell (EC) plasma membrane resulting in pore assembly and increased intracellular (IC) Ca2+ levels that compromise endothelial barrier integrity. Caveolae are specialized plasmalemma microdomains of ECs enriched in cholesterol. We hypothesized that the abundance of cholesterol-rich domains in EC plasma membranes confers cellular susceptibility to PLY. Contrary to this hypothesis, we found increased PLY-induced IC Ca2+ following membrane cholesterol depletion. Caveolin-1 (Cav-1) is an essential structural protein of caveolae and its regulation by cholesterol levels suggested a possible role in EC barrier function. Indeed, Cav-1 and its scaffolding domain peptide protected the endothelial barrier from PLY-induced disruption. In loss of function experiments, Cav-1 was knocked-out using CRISPR-Cas9 or silenced in human lung microvascular ECs. Loss of Cav-1 significantly enhanced the ability of PLY to disrupt endothelial barrier integrity. Rescue experiments with re-expression of Cav-1 or its scaffolding domain peptide protected the EC barrier against PLY-induced barrier disruption. Dynamin-2 (DNM2) is known to regulate caveolar membrane endocytosis. Inhibition of endocytosis, with dynamin inhibitors or siDNM2 amplified PLY induced EC barrier dysfunction. These results suggest that Cav-1 protects the endothelial barrier against PLY by promoting endocytosis of damaged membrane, thus reducing calcium entry and PLY-dependent signaling.
Macrophages: A communication network linking Porphyromonas gingivalis infection and associated systemic diseases
Authors: Lin Jie , Huang Dingming , Xu Hongwei , Zhan Fenghuang , Tan XueLian
Published: July 2022

Porphyromonas gingivalis (P. gingivalis) is a Gram-negative anaerobic pathogen that is involved in the pathogenesis of periodontitis and systemic diseases. P. gingivalis has recently been detected in rheumatoid arthritis (RA), cardiovascular disease, and tumors, as well as Alzheimer’s disease (AD), and the presence of P. gingivalis in these diseases are correlated with poor prognosis. Macrophages are major innate immune cells which modulate immune responses against pathogens, however, multiple bacteria have evolved abilities to evade or even subvert the macrophages’ immune response, in which subsequently promote the diseases’ initiation and progression. P. gingivalis as a keystone pathogen of periodontitis has received increasing attention for the onset and development of systemic diseases. P. gingivalis induces macrophage polarization and inflammasome activation. It also causes immune response evasion which plays important roles in promoting inflammatory diseases, autoimmune diseases, and tumor development. In this review, we summarize recent discoveries on the interaction of P. gingivalis and macrophages in relevant disease development and progression, such as periodontitis, atherosclerosis, RA, AD, and cancers, aiming to provide an in-depth mechanistic understanding of this interaction and potential therapeutic strategies.
Comparison of three validated PD-L1 immunohistochemical assays in urothelial carcinoma of the bladder: interchangeability and issues related to patient selection
Authors: Munari Enrico , Querzoli Giulia , Brunelli Matteo , Marconi Marcella , Sommaggio Marco , Cocchi Marco A. , Martignoni Guido , Netto George J. , Caliò Anna , Quatrini Linda , Mariotti Francesca R. , Luchini Claudio , Girolami Ilaria , Eccher Albino , Segala Diego , Ciompi Francesco , Zamboni Giuseppe , Moretta Lorenzo , Bogina Giuseppe
Published: July 2022

Different programmed cell death-ligand 1 (PD-L1) assays and scoring algorithms are being used in the evaluation of PD-L1 expression for the selection of patients for immunotherapy in specific settings of advanced urothelial carcinoma (UC). In this paper, we sought to investigate three approved assays (Ventana SP142 and SP263, and Dako 22C3) in UC with emphasis on implications for patient selection for atezolizumab/pembrolizumab as the first line of treatment. Tumors from 124 patients with invasive UC of the bladder were analyzed using tissue microarrays (TMA). Serial sections were stained with SP263 and SP142 on Ventana Benchmark Ultra and with 22C3 on Dako Autostainer Link 48. Stains were evaluated independently by two observers and scored using the combined positive score (CPS) and tumor infiltrating immune cells (IC) algorithms. Differences in proportions (DP), overall percent agreement (OPA), positive percent agreement (PPA), negative percent agreement (NPA), and Cohen κ were calculated for all comparable cases. Good overall concordance in analytic performance was observed for 22C3 and SP263 with both scoring algorithms; specifically, the highest OPA was observed between 22C3 and SP263 (89.6%) when using CPS. On the other hand, SP142 consistently showed lower positivity rates with high differences in proportions (DP) compared with 22C3 and SP263 with both CPS and IC, and with a low PPA, especially when using the CPS algorithm. In conclusion, 22C3 and SP263 assays show comparable analytical performance while SP142 shows divergent staining results, with important implications for the selection of patients for both pembrolizumab and atezolizumab.
Effects of tobacco smoking on cardiovascular disease in patients with systemic lupus erythematosus: A systematic review and meta-analysis
Authors: Zhang Wan-tong , Liu Zhao , Zhu Bao-chen , Cui Zi-yang , Huang Cheng , Wang Xu-jie , Lu Fang , Li Qiu-yan , Weng Wei-liang , Hua Guo-dong , Xue Chun-miao
Published: July 2022

Background

Patients with systemic lupus erythematosus (SLE) are at increased risk of cardiovascular disease (CVD) compared to the general population. However, little is known about the effects of tobacco smoking on CVD in patients with SLE.

Objective

To systematically review and summarize the available literature regarding the effects of tobacco smoking on developing CVD in patients with SLE.

Methods

We retrieved relevant studies from the following databases: PubMed, EMBASE, Web of Science and China National Knowledge Internet (CNKI) database. Two reviewers independently reviewed the eligible studies, assessed their validity, and extracted relevant data. Sensitivity and subgroup analyses were performed to distinguish sources of heterogeneity.

Results

A total of 10 studies, which comprised 6984 participants, were included in the analysis. The overall quality of evidence was rated as moderate to low. The smoking prevalence among CVD patients was 39.28% (271/690), which was higher than 31.36% (1974/6294) among non-CVD patients. Compared with never-smokers, the risk of developing CVD in current smokers was 1.42 (95% CI: 1.21–1.66). No significant publication bias was found in our meta-analysis.

Conclusions

In spite of the several negative results, this study found that current smokers with SLE have an increased risk of developing CVD, although most of the included studies were in low-to-moderate quality.

Systematic Review Registration

https://www.crd.york.ac.uk/prospero/, identifier CRD42022338109.
TCR-like antibodies targeting autoantigen-mhc complexes: a mini-review
Authors: Li Ying , Jiang Wei , Mellins Elizabeth D.
Published: July 2022

T cell receptors (TCRs) recognize peptide antigens bound to major histocompatibility complex (MHC) molecules (p/MHC) that are expressed on cell surfaces; while B cell-derived antibodies (Abs) recognize soluble or cell surface native antigens of various types (proteins, carbohydrates, etc.). Immune surveillance by T and B cells thus inspects almost all formats of antigens to mount adaptive immune responses against cancer cells, infectious organisms and other foreign insults, while maintaining tolerance to self-tissues. With contributions from environmental triggers, the development of autoimmune disease is thought to be due to the expression of MHC risk alleles by antigen-presenting cells (APCs) presenting self-antigen (autoantigen), breaking through self-tolerance and activating autoreactive T cells, which orchestrate downstream pathologic events. Investigating and treating autoimmune diseases have been challenging, both because of the intrinsic complexity of these diseases and the need for tools targeting T cell epitopes (autoantigen-MHC). Naturally occurring TCRs with relatively low (micromolar) affinities to p/MHC are suboptimal for autoantigen-MHC targeting, whereas the use of engineered TCRs and their derivatives (e.g., TCR multimers and TCR-engineered T cells) are limited by unpredictable cross-reactivity. As Abs generally have nanomolar affinity, recent advances in engineering TCR-like (TCRL) Abs promise advantages over their TCR counterparts for autoantigen-MHC targeting. Here, we compare the p/MHC binding by TCRs and TCRL Abs, review the strategies for generation of TCRL Abs, highlight their application for identification of autoantigen-presenting APCs, and discuss future directions and limitations of TCRL Abs as immunotherapy for autoimmune diseases.
Necroptosis throws novel insights on patient classification and treatment strategies for hepatocellular carcinoma
Authors: Hu Bowen , Gao Jie , Shi Jihua , Zhang Feng , Shi Chengcheng , Wen Peihao , Wang Zhihui , Guo Wenzhi , Zhang Shuijun
Published: July 2022

Introduction

Necroptosis is a novel pattern of immunogenic cell death and has triggered an emerging wave in antitumor therapy. More evidence has suggested the potential associations between necroptosis and intra-tumoral heterogeneity. Currently, the underlying role of necroptosis remains elusive in hepatocellular carcinoma (HCC) at antitumor immunity and inter-tumoral heterogeneity.

Methods

This study enrolled a total of 728 HCC patients and 139 immunotherapy patients from eight public datasets. The consensus clustering approach was employed to depict tumor heterogeneity of cancer necroptosis. Subsequently, our study further decoded the heterogeneous clinical outcomes, genomic landscape, biological behaviors, and immune characteristics in necroptosis subtypes. For each patient, providing curative clinical recommendations and developing potential therapeutic drugs were used to promote precise medicine.

Results

With the use of the weighted gene coexpression network analysis (WGCNA) algorithm, necroptosis-associated long non-coding RNAs (lncRNAs) (NALRs) were identified in HCC. Based on the NALR expression, two heterogeneous subtypes were decoded with distinct clinical outcomes. Compared to patients in C1, patients in C2 harbored superior pathological stage and presented more unfavorable overall survival and recurrence-free survival. Then, the robustness and reproducibility of necroptosis subtypes were further validated via the nearest template prediction (NTP) approach and classical immune phenotypes. Through comprehensive explorations, C1 was characterized by enriched immune-inflammatory and abundant immune infiltration, while C2 possessed elevated proliferative and metabolic activities and highly genomic instability. Moreover, our results indicated that C1 was more prone to obtain desirable benefits from immunotherapy. For patients in C2, numerous underlying therapeutic agents were developed, which might produce significant efficacy.

Conclusion

This study identified two necroptosis subtypes with distinct characteristics, decoding the tumor heterogeneity. For an individualized patient, our work tailored corresponding treatment strategies to improve clinical management.
Ocean acidification in the Western Pacific: Boron isotopic composition recorded in a tropical massive coral core from Lanyu Islet SE Taiwan
Authors: You Chen-Feng , Lin P-Y. , Huang Kuo-Fang , Chung Chuan-Hsiung , Liu Zhifei
Published: July 2022

Boron (B) and B isotopic compositions (δ11B) in biogenic carbonates are useful proxies for pH reconstruction in the ocean. However, high-resolution archives are scarce due to associated sampling and analytical difficulty. In this study, a modern long-lived massive coral skeleton (Porites lobata) from Lanyu Islet off southeast Taiwan was drilled and used for high-resolution major/trace element analyses, including trace elements B and δ11B, as well as oxygen and carbon isotopes, to investigate the associated environmental changes during 1991–1997. To avoid complicated biological influence, the top-most tissue layer was excluded in this study. The coralline records show a clear temporal trend in metal/Ca-based sea surface temperatures (SSTs) on annual and monthly timescales. In particular, the Mg/Ca-SSTs, the most sensitive temperature proxy at the site, show a significant warming trend (+0.2°C year−1) during the study period. On the other hand, subtle changes in the annual δ11B record were identified, corresponding to ~0.2 pH unit, which is comparable with other coral records in the Pacific, e.g., the South China Sea (SCS), Guam Island, Flinders, and Arlington Reef, as well as the in-situ seawater pH measurement at Hawaii station. This corresponds to an acidification rate of ~0.25 pH unit 100 year−1, similar to other coralline data, in-situ pH/pCO2 measurement, or model predictions, and emphasizes the importance of ocean acidification due to anthropogenic activities. Combined with the Mg/Ca-SST, the intra-annual data show a clear seasonal cycle with higher pH in winter, consistent with the pCO2 at the oceanic surface. These chemical and isotopic results in corals conclude that marine biogenic carbonates are informative for oceanic pH reconstruction and can provide new insights into the relationships between climate changes and environmental responses on the coast of Taiwan.
Algorithm to estimate daily PAR at the ocean surface from GOCI data: description and evaluation
Authors: Hwang Deuk Jae , Frouin Robert , Tan Jing , Ahn Jae-Hyun , Choi Jong-Kuk , Moon Jeong-Eon , Ryu Joo-Hyung
Published: July 2022

Photosynthetically available radiation (PAR) reaching the ocean surface controls phytoplankton growth, primary productivity, and evolution within marine ecosystems. Therefore, accurate daily PAR estimates are important for a broad range of marine biology and biogeochemistry applications. In this study, hourly data from Geostationary Ocean Color Imager (GOCI), the world’s first geostationary ocean color sensor, was employed to estimate daily mean PAR at the ocean surface around the Korean Peninsula using a budget model based on plane-parallel theory. In situ PAR data collected from two ocean research stations (Socheong-cho and Ieodo) were used to evaluate the accuracy of the GOCI PAR estimates. First, the instantaneous in situ measurements were checked for calibration and exposure errors against Second Simulation of the Satellite Signal in the Solar Spectrum (6S) radiative transfer calculations under the clearest sky conditions and adjusted to eliminate biases. After adjustment, the root-means-square error (RMSE) between 6S and in situ PAR data was reduced from 6.08 (4.81%) and 3.82 (3.93%) mol/m2/day to 2.85 (2.26%) and 1.74 (1.21%) mol/m2/day at the Socheong-cho and Ieodo stations, respectively, and the coefficient of determination R2 was 0.99. Then, the GOCI daily mean PAR estimated by the initial algorithm were corrected using the 2015 adjusted in situ daily PAR measurements collected under clear-sky conditions. The daily mean PAR values derived from GOCI data in all conditions were improved after the correction, with RMSE reduced from 4.58 (8.30%) to 2.57 (4.65%) mol/m2/day and R2 = 0.97. The comparison statistics were similar for 2015 and 2016 combined, with RMSE of 2.52 (4.38%) and mean bias error (MBE) of –0.40 (–0.70%), indicating that the correction was also effective in cloudy conditions. On the other hand, daily PAR estimates from Moderate Resolution Imaging Spectroradiometer (MODIS) and Advanced Himawari Imager (AHI) yielded larger RMSE of 6.24 (10.40%) mol/m2/day and MBE of –2.49 (–4.15%) mol/m2/day (MODIS) and RMSE of 3.71 (6.51%) mol/m2/day and MBE of –2.65 (–4.65%) mol/m2/day (AHI) against in situ measurements. The GOCI-based daily PAR model developed in this study is reliable and suitable for investigating the marine environment around the Korean Peninsula.
Mesoscale eddies induce variability in the sea surface temperature gradient in the Kuroshio Extension
Authors: Tang Rui , Yu Yi , Xi Jingyuan , Ma Wentao , Wang Yuntao
Published: July 2022

The Kuroshio Extension (KE) region is one of the most energetic regions in the global ocean where prominent mesoscale dynamics persistently occur. The spatial distribution and temporal evolution of the sea surface temperature (SST) gradient and mesoscale eddies in the KE are investigated. The SST gradient can be applied for identifying the fronts, and the SST gradient within two times the radii of the eddies is composited to quantify the impact of eddies on frontal activities. Depressed SST gradients are identified for eddies with both polarities, but prominent spatial variance in the SST gradient reveals that a large SST gradient is located to the north of anticyclones and along the south periphery for cyclones. The eddies are further separated into two groups depending on their location relative to the main path of the KE, as the background fields to the north and south of the KE are largely different. The spatial pattern, e.g., monopole and dipole features, and temporal variation in the SST gradient are fully studied over the lifespans of eddies. The results show that most eddies can significantly weaken the internal SST gradient and induce the horizontal redistribution of the SST gradient in surrounding regions. Cyclonic eddies north of the KE elevate the fronts along the periphery of eddies. The temporal variability in the SST gradient is prominent and largely varies for each group of eddies. This study offers quantitative analyses of the spatial and temporal relationships between eddies and fronts that are important for understanding the mesoscale dynamics in the world’s oceans.
Transcriptome study on immune response against Vibrio parahaemolyticus challenge in gill of abalone Haliotis discus hannai Ino
Authors: Fang Yan , Yang Xiyun , Zhang Shujuan , Chen Xuyang , Lin Gang , Zhang Yuqing , Wang Mengjiao , Li Mingzhu
Published: July 2022

Abalone (Haliotis discus hannai Ino) is one of the most vital economic shellfish cultured in China. However, bacterial and viral infection often leads to its high mortality and serious economic losses. In this study, transcriptome sequencing was performed on gill of abalone challenged by Vibrio parahaemolyticus for 0 h (control group, A0h), 8 h (A8h), and 48 h (A48h), respectively. Each library has an average of 53,361,675 clean reads. Approximately 85.71% reads were mapped to the reference genome of Haliotis discus hannai Ino. In comparison with A0h group, 7,656 and 2,789 genes were differentially expressed in the A8h and A48h groups, respectively. The differentially expressed genes (DEGs) were mostly enriched in oxidation–reduction process and oxidoreductase activity from GO analysis as well as immunity and metabolism-related pathways from Kyoto Encyclopedia of Genes and Genomes analysis. Cluster analysis demonstrated that all DEGs were categorized into eight subclusters by adopting the gene expression model. Specifically, a total of 1,070 significantly downregulated genes from two clusters were related to some metabolic pathways, ABC transporters, and cell adhesion. Moreover, 212 upregulated genes in one subcluster were enriched in several immune-related pathways, including nucleotide-binding oligomerization domain (NOD)-like receptor signaling pathway and apoptosis. Some members of the pattern recognition receptors family, which can initiate inflammatory signaling and induce apoptosis, were stimulated to upregulate in gill after challenge including C1q, perlucin, and low-density lipoprotein receptor–related protein. In addition, caspase-dependent apoptosis pathway was inactive, whereas caspase-independent apoptosis pathway was stimulating in response to Vibrio challenge. To eliminate invading pathogen, the immune effectors such as interleukin-17, matrix metalloproteinase, lysozyme, superoxide, and ferritin were also stimulated in gill. Moreover, this study also provides more information for comprehending the immunity and defense mechanisms against V. parahaemolyticus infection in abalone.
Relationship between thermohaline and biochemical patterns in the levantine upper and intermediate water masses, Southeastern Mediterranean Sea (2013–2021)
Authors: Ozer T. , Rahav E. , Gertman I. , Sisma-Ventura G. , Silverman J. , Herut B.
Published: July 2022

The relationships between the interannual variations of the Levantine intermediate water (LIW) core properties and the corresponding biochemical variations in the euphotic zone were systematically studied in the Southeastern Mediterranean during 2013–2021 and since 2002 based on a previous study. Salinity and temperature interannual fluctuations in the LIW continue to follow the Adriatic–Ionian Bimodal Oscillating System (BiOS) mechanism, with salinity and temperature peaks in the years 2008–2010, 2014–2015, and 2018–2019 coinciding with periods of anticyclonic circulation of the North Ionian Gyre (NIG). During these anticyclonic periods, the transport of Atlantic Water into the Levant is reduced together with the transport of LIW out of the basin. These interannual fluctuations are superimposed on a long-term warming trend clearly evident from previous studies, showing a maximal temperature in 2018–2019, higher than the previously mentioned temperature peaks by ~0.7°C and ~0.4°C. The enhanced warming in 2018–2019 has caused a decrease in density (sigma) values of the LIW core, which gave way to the shallowest record of this water mass (~110-m depth), bringing it well within the lower photic zone. We suggest that a higher level of nutrients became available, supporting the observed long-term rise of the intergraded chlorophyll a (Chl.a) (0.89 mg m−2 year−1), with a maximum recorded during 2018–2019. The long-term record of the mixed layer depths shows no significant change; thus, the uplift of nutrients during winter mixing cannot support the trend and variations of the integrated Chl.a. Additional biological parameters of specific pico-phytoplankton populations and integrated bacterial production and abundance were measured in 2013–2021, but the measurements were too sparse to follow a clear interannual dynamics. Yet significantly higher average levels for integrated primary production and bacterial abundances were observed during the anticyclonic period (as for Chl.a). The combined impacts of the BiOS mechanism and global warming, and hence the increase in LIW residence time and buoyancy, may impact the primary producers’ biomass at the photic zone. This latter feedback may slightly counter the enhanced oligotrophication due to enhanced stratification.
Genome-wide association study of hyperthyroidism based on electronic medical record from Taiwan
Authors: Liu Ting-Yuan , Liao Wen-Ling , Wang Tzu-Yuan , Chan Chia-Jung , Chang Jan-Gowth , Chen Yu-Chia , Lu Hsing-Fang , Yang Hsien-Hui , Chen Shih-Yin , Tsai Fuu-Jen
Published: July 2022

Excess thyroid hormones have complex metabolic effects, particularly hyperthyroidism, and are associated with various cardiovascular risk factors. Previous candidate gene studies have indicated that genetic variants may contribute to this variable response. Electronic medical record (EMR) biobanks containing clinical and genomic data on large numbers of individuals have great potential to inform the disease comorbidity development. In this study, we combined electronic medical record (EMR) -derived phenotypes and genotype information to conduct a genome-wide analysis of hyperthyroidism in a 35,009-patient cohort in Taiwan. Diagnostic codes were used to identify 2,767 patients with hyperthyroidism. Our genome-wide association study (GWAS) identified 44 novel genomic risk markers in 10 loci on chromosomes 2, 6, and 14 (P < 5 × 10–14), including CTLA4, HCP5, HLA-B, POU5F1, CCHCR1, HLA-DRA, HLA-DRB9, TSHR, RPL17P3, and CEP128. We further conducted a comorbidity analysis of our results, and the data revealed a strong correlation between hyperthyroidism patients with thyroid storm and stroke. In this study, we demonstrated application of the PheWAS using large EMR biobanks to inform the comorbidity development in hyperthyroidism patients. Our data suggest significant common genetic risk factors in patients with hyperthyroidism. Additionally, our results show that sex, body mass index (BMI), and thyroid storm are associated with an increased risk of stroke in subjects with hyperthyroidism.
Association between chronic disease multimorbidity and leisure-time physical activity: Evidence from the China Multiethnic Cohort study
Authors: Li Yajie , Li Xianzhi , Yu Bin , Li Jingzhong , He Ruifeng , Nima Qucuo , Zhou Junmin
Published: July 2022

Objective

To reveal the associations between multimorbidity and leisure-time physical activity (LTPA) by ethnicities in China.

Materials and methods

Self-reported information on a range of occupational, household, transport, and LTPA was collected by interviewer-administered questionnaire. A total of 17 chronic diseases were assessed based on self-reported lifetime diagnoses or medical examinations. Multivariable logistic regression models were used to assess the associations between multimorbidity and the risks of low LTPA.

Results

The mean age of all participants was 51.2 years old. Of all, 61.4% were women and 57.9% were from the Han population. A significantly negative association (OR = 0.92, 95% CI = 0.89–0.95) was found between multimorbidity and low LTPA, with a stronger association among minority populations (OR = 0.86, 95% CI = 0.82–0.91) than among the Han population (OR = 0.96, 95% CI = 0.92–1.01). For both the minority population and the Han population, digestive system multimorbidity and digestive-metabolic system multimorbidity had a significantly negative association with low LTPA. For the Han population, the association of intersystem multimorbidity for the circulatory-respiratory system (OR = 1.17, 95% CI = 1.04–1.31) with low LTPA was stronger than that of intrasystem multimorbidity for the circulatory (OR = 1.12, 95% CI = 1.01–1.25) and respiratory systems (OR = 1.14, 95% CI = 1.04–1.25).

Conclusion

There are significant associations between multimorbidity and low LTPA based on this large multiethnic population. Our findings suggest that LTPA-tailored interventions should be designed for specific ethnic groups according to different types of multimorbidity.
It’s about the patients: Practical antibiotic stewardship in outpatient settings in the United States
Authors: Amin Alpesh N. , Dellinger E. Patchen , Harnett Glenn , Kraft Bryan D. , LaPlante Kerry L. , LoVecchio Frank , McKinnell James A. , Tillotson Glenn , Valentine Salisia
Published: July 2022

Antibiotic-resistant pathogens cause over 35,000 preventable deaths in the United States every year, and multiple strategies could decrease morbidity and mortality. As antibiotic stewardship requirements are being deployed for the outpatient setting, community providers are facing systematic challenges in implementing stewardship programs. Given that the vast majority of antibiotics are prescribed in the outpatient setting, there are endless opportunities to make a smart and informed choice when prescribing and to move the needle on antibiotic stewardship. Antibiotic stewardship in the community, or “smart prescribing” as we suggest, should factor in antibiotic efficacy, safety, local resistance rates, and overall cost, in addition to patient-specific factors and disease presentation, to arrive at an appropriate therapy. Here, we discuss some of the challenges, such as patient/parent pressure to prescribe, lack of data or resources for implementation, and a disconnect between guidelines and real-world practice, among others. We have assembled an easy-to-use best practice guide for providers in the outpatient setting who lack the time or resources to develop a plan or consult lengthy guidelines. We provide specific suggestions for antibiotic prescribing that align real-world clinical practice with best practices for antibiotic stewardship for two of the most common bacterial infections seen in the outpatient setting: community-acquired pneumonia and skin and soft-tissue infection. In addition, we discuss many ways that community providers, payors, and regulatory bodies can make antibiotic stewardship easier to implement and more streamlined in the outpatient setting.
Inputs of Terrestrial Dissolved Organic Matter Enhance Bacterial Production and Methylmercury Formation in Oxic Coastal Water
Authors: Rodríguez Juanjo , Andersson Agneta , Björn Erik , Timonen Sari , Brugel Sonia , Skrobonja Aleksandra , Rowe Owen
Published: July 2022

Methylmercury (MeHg) is a potent neurotoxin commonly found in aquatic environments and primarily formed by microbial methylation of inorganic divalent mercury (Hg(II)) under anoxic conditions. Recent evidence, however, points to the production of MeHg also in oxic pelagic waters, but the magnitude and the drivers for this process remain unclear. Here, we performed a controlled experiment testing the hypothesis that inputs of terrestrial dissolved organic matter (tDOM) to coastal waters enhance MeHg formation via increased bacterial activity. Natural brackish seawater from a coastal area of the Baltic Sea was exposed to environmentally relevant levels of Hg(II) and additions of tDOM according to climate change scenarios. MeHg formation was observed to be coupled to elevated bacterial production rates, which, in turn, was linked to input levels of tDOM. The increased MeHg formation was, however, not coupled to any specific change in bacterial taxonomic composition nor to an increased abundance of known Hg(II) methylation genes. Instead, we found that the abundance of genes for the overall bacterial carbon metabolism was higher under increased tDOM additions. The findings of this study may have important ecological implications in a changing global climate by pointing to the risk of increased exposure of MeHg to pelagic biota.
Molecular characterization of SARS-CoV-2 detected in Tokyo, Japan during five waves: Identification of the amino acid substitutions associated with transmissibility and severity
Authors: Tsuchiya Koji , Yamamoto Norio , Hosaka Yoshie , Wakita Mitsuru , Hiki Makoto , Matsushita Yasushi , Mori Hirotake , Hori Satoshi , Misawa Shigeki , Miida Takashi , Nojiri Shuko , Takahashi Kazuhisa , Naito Toshio , Tabe Yoko
Published: July 2022

Many variants of SARS-CoV-2 have emerged around the world. It is therefore important to understand its global viral evolution and the corresponding mutations associated with transmissibility and severity. In this study, we analyzed 112 whole genome sequences of SARS-CoV-2 collected from patients at Juntendo University Hospital in Tokyo and the genome data from entire Japan deposited in Global Initiative on Sharing Avian Influenza Data (GISAID) to examine the relationship of amino acid changes with the transmissibility and the severity of each strain/lineage. We identified 12 lineages, including B.1.1.284, B.1.1.214, R.1, AY.29, and AY.29.1, which were prevalent specifically in Japan. B.1.1.284 was most frequently detected in the second wave, but B.1.1.214 became the predominant lineage in the third wave, indicating that B.1.1.214 has a higher transmissibility than B.1.1.284. The most prevalent lineage during the fourth and fifth wave was B.1.1.7 and AY.29, respectively. In regard to the severity of identified lineages, B.1.1.214 was significantly lower than the reference lineage, B.1.1.284. Analysis of the genome sequence and other traits of each lineage/strain revealed the mutations in S, N, and NSPs that increase the transmissibility and/or severity. These mutations include S: M153T, N: P151L, NSP3: S543P, NSP5: P108S, and NSP12: A423V in B.1.1.284; S: W152L and E484K in R.1; S: H69del, V70del, and N501Y in the Alpha strain; S: L452R, T478K, and P681R in the Delta strain. Furthermore, it is suggested that the transmissibility of B.1.1.214 could be enhanced by the mutations N: M234I, NSP14: P43L, and NSP16: R287I. To address the issue of the virus evolution, it is necessary to continuously monitor the genomes of SARS-CoV-2 and analyze the effects of mutations for developing vaccines and antiviral drugs effective against SARS-CoV-2 variants.