Publications by authors named "Ying Xu"

2,704 Publications

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Improved bat algorithm for roundness error evaluation problem.

Math Biosci Eng 2022 Jun;19(9):9388-9411

School of Mechanical Engineering, Shenyang Jianzhu University, Shenyang 110168, China.

In the production and processing of precision shaft-hole class parts, the wear of cutting tools, machine chatter, and insufficient lubrication can lead to changes in their roundness, which in turn affects the overall performance of the relevant products. To improve the accuracy of roundness error assessments, Bat algorithm (BA) is applied to roundness error assessments. An improved bat algorithm (IBA) is proposed to counteract the original lack of variational mechanisms, which can easily lead BA to fall into local extremes and induce premature convergence. First, logistic chaos initialisation is applied to the initial solution generation to enhance the variation mechanism of the population and improve the solution quality; second, a sinusoidal control factor is added to BA to control the nonlinear inertia weights during the iterative process, and the balance between the global search and local search of the algorithm is dynamically adjusted to improve the optimization-seeking accuracy and stability of the algorithm. Finally, the sparrow search algorithm (SSA) is integrated into BA, exploiting the ability of explorer bats to perform a large range search, so that the algorithm can jump out of local extremes and the convergence speed of the algorithm can be improved. The performance of IBA was tested against the classical metaheuristic algorithm on eight benchmark functions, and the results showed that IBA significantly outperformed the other algorithms in terms of solution accuracy, convergence speed, and stability. Simulation and example verification show that IBA can quickly find the centre of a minimum inclusion region when there are many or few sampling points, and the obtained roundness error value is more accurate than that of other algorithms, which verifies the feasibility and effectiveness of IBA in evaluating roundness errors.
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http://dx.doi.org/10.3934/mbe.2022437DOI Listing
June 2022

In vitro digestion of binary mixture of α-tocopherol and γ-oryzanol in oil-in-water emulsion: Changes in stability and antioxidant potential.

Food Res Int 2022 Sep 30;159:111606. Epub 2022 Jun 30.

State Key Laboratory of Food Science and Technology, International Joint Research Laboratory for Lipid Nutrition and Safety, School of Food Science and Technology, Jiangnan University, 1800 Lihu Road, Wuxi 214122, Jiangsu Province, PR China.

Minor constituents ought to be digested before they enter the body to exert functional effect, the stability and antioxidant potential play an important role to evaluate the function of minor constituents. In this study, in order to know the stability and antioxidant potential of single and binary addition of α-tocopherol and γ-oryzanol at different concentrations during in vitro digestion, the physical characteristics of digestion system and concentration as well as oxygen radical absorption capacity of minor constituents were determined. Besides, cellular antioxidant activity (CAA) of micelles was detected to evaluated antioxidant potential of these two minor constituents after in vitro digestion from a biological aspect. The increase of particle size (from 184.5 nm to 274.6 nm) and the decrease of the absolute potential value (from -48.9 mV to -33.5 mV) in the initial emulsion caused by the addition of minor constituents, leading to the decrease of the lipolysis extent (from 92% to 62%). However, binary mixture attributed to the bioaccessibility of γ-oryzanol and impeded that of α-tocopherol. Oxygen radical absorption capacity performed well in small intestine and micelles, the maximum reached 477.94 ± 45.3 μmol TE/mL digests. Importantly, the antioxidant activity of the binary mixture group was higher than that of the single addition group. However, after in vitro digestion, the CAA results showed that these two minor constituents were hardly significantly different from control group (p > 0.05), indicating unsatisfactory antioxidant activity in cells. Moreover, the antioxidant activity of minor constituents depends greatly on the reaction system. This study provides a theoretical reference and research basis for the better usage of natural antioxidants.
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http://dx.doi.org/10.1016/j.foodres.2022.111606DOI Listing
September 2022

Elucidation of the interaction between fructose and key aroma compounds in watermelon juice via Raman spectroscopy and nuclear magnetic resonance.

Food Res Int 2022 Sep 2;159:111613. Epub 2022 Jul 2.

Beijing Engineering and Technology Research Center of Food Additives, School of Food and Health, Beijing Technology and Business University (BTBU), Beijing 100048, China. Electronic address:

Food matrix composition is an important factor affecting the release of aroma compounds. In the present study, four key aroma compounds (namely, hexanal, nonanal, (E)-2-nonenal, and acetophenone) were quantified in watermelon juice by stable isotope dilution assay. Using Raman spectroscopy and H NMR, it was found that hexanal, nonanal, and (E)-2-nonenal combine with fructose via hydrogen bonds, whereas acetophenone interact with fructose via π-π interaction. Entropy compensation at higher temperatures may explain the decrease in the contents of hexanal, nonanal, and (E)-2-nonenal released from the system. In contrast, the decrease in the contents of these aroma compounds by HO might be due to the formation of a greater number of hydrogen bonds with carboxyl groups oxidized by aldehydes. This study contributes to further the understanding on the interaction between aroma compounds and fructose, thus offering practical insights on the regulation and control of flavor development in watermelon juice.
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http://dx.doi.org/10.1016/j.foodres.2022.111613DOI Listing
September 2022

Enhancing customer satisfaction with chatbots: The influence of communication styles and consumer attachment anxiety.

Front Psychol 2022 22;13:902782. Epub 2022 Jul 22.

School of Economics and Management, Southwest University of Science and Technology, Mianyang, China.

Chatbots are increasingly occupying the online retailing landscape, and the volume of consumer-chatbot service interactions is exploding. Even so, it still remains unclear how chatbots should communicate with consumers to ensure positive customer service experiences and, in particular, to improve their satisfaction. A fundamental decision in this regard is the choice of a communication style, specifically, whether a social-oriented or a task-oriented communication style should be best used for chatbots. In this paper, we investigate how using a social-oriented versus task-oriented communication style can improve customer satisfaction. Two experimental studies reveal that using a social-oriented communication style boosts customer satisfaction. Warmth perception of the chatbot mediates this effect, while consumer attachment anxiety moderates these effects. Our results indicate that social-oriented communication style can be beneficial in enhancing service satisfaction for highly anxiously attached customers, but it does not work for the lowly anxiously attached. This study provides theoretical and practical implications about how to implement chatbots in service encounters.
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http://dx.doi.org/10.3389/fpsyg.2022.902782DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC9355322PMC
July 2022

The Relationship Between Vitamin D and Activity of Daily Living in the Elderly.

Int J Gen Med 2022 1;15:6357-6364. Epub 2022 Aug 1.

Department of Nephrology, Shanghai Changhai Hospital, Shanghai, People's Republic of China.

Objective: To analyze the association between vitamin D and the performance of activity of daily living in the elderly.

Methods: A total of 94 patients over the age of 65 were eligible to participate if they had undergone a bone mineral density test and if they were in a stable health condition. Subjects were further divided into two groups according to activity of daily living (ADL): the score over 40 of the patients as the high ADL group and the below as the low ADL group.

Results: According to univariate analysis, the mean of total hip T score, serum creatinine/cystatin C ratio (CCR), and vitamin D were significantly different between the two groups (=0.024, 0.008, 0.010). Multivariate ORs showed that the CCR (OR: 0.948; 95%CI: 0.910-0.989; =0.013) and vitamin D (OR: 865; 95%CI: 0.752-0.994; =0.047) were inversely associated with having low ADL. Furthermore, on multiple linear regression analysis, the Barthel ADL index was related to geriatric nutritional risk index (GNRI), CCR and vitamin D but independent of patients' age with the slope of 0.732, 0.539, and 0.689 separately, reflected the stronger relative within the variables.

Conclusion: We demonstrated that there is a negative correlation of CCR and vitamin D with having low ADL in elderly population. Monitoring the trend of serum vitamin D and CCR, may have a role in the early detection of low ADL with loss of muscle mass and strength in the population of the elderly.
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http://dx.doi.org/10.2147/IJGM.S366203DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC9355018PMC
August 2022

Deciphering the underlying mechanism of MOF-808-based abiotic catalysis enhancing biodegradability of waste activated sludge: Insights from the effects on bioconversion of extracellular organic substances into methane.

Sci Total Environ 2022 Aug 5;849:157855. Epub 2022 Aug 5.

State Key Laboratory of Pollution Control and Resource Reuse, School of Environmental Science and Engineering, Tongji University, Shanghai 200092, China; Shanghai Institute of Pollution Control and Ecological Security, Shanghai 200092, China. Electronic address:

Extracellular organic substances (EOSs) usually control sludge biodegradability. Metal-organic framework-808 (MOF-808), a catalyst with a high ability of catalytic hydrolysis and proton transfer, has great potential to enhance biodegradability of EOSs. In this study, the underlying mechanism of MOF-808 enhancing the biodegradability of EOSs via abiotic catalysis was investigated. Experimental results showed that protein-like and humic acid-like substances were the main organic components in EOSs, and the MOF-808 enhanced the disintegration of protein-like substances rather than humic acid-like substances. Analyses of the changes in the functional group, the secondary structure of protein-like substances, and the electron transfer of catalytically degraded EOS samples revealed that the MOF-808 enhanced the hydrolysis of EOSs protein-like substances, loosened their secondary structure, and improved the electron transfer in EOSs. Further analyses of the MOF-808 before and after the catalysis reaction revealed that the coordination of Zr sites with protein-like substance-specific active sites (such as ZrN) in the MOF-808 substantially contributed to the high-efficiency catalysis. Biochemical methane potential assays confirmed that MOF-808-based abiotic catalysis promoted the generation efficiency of methane from the EOSs. These findings can elucidate the abiotic catalytic effect of MOF-808 on sludge biodegradability during the anaerobic digestion process.
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http://dx.doi.org/10.1016/j.scitotenv.2022.157855DOI Listing
August 2022

LTβR overexpression promotes plasma cell accumulation.

PLoS One 2022 4;17(8):e0270907. Epub 2022 Aug 4.

Howard Hughes Medical Institute and Department of Microbiology and Immunology, University of California, San Francisco, CA, United States of America.

Multiple myeloma (MM), a malignancy of plasma cells (PCs), has diverse genetic underpinnings and in rare cases these include amplification of the lymphotoxin b receptor (Ltbr) locus. LTβR has well defined roles in supporting lymphoid tissue development and function through actions in stromal and myeloid cells, but whether it is functional in PCs is unknown. Here we showed that Ltbr mRNA was upregulated in mouse PCs compared to follicular B cells, but deficiency in the receptor did not cause a reduction in PC responses to a T-dependent or T-independent immunogen. However, LTβR overexpression (OE) enhanced PC formation in vitro after LPS or anti-CD40 stimulation. In vivo, LTβR OE led to increased antigen-specific splenic and bone marrow (BM) plasma cells responses. LTβR OE PCs had increased expression of Nfkb2 and of the NF-kB target genes Bcl2 and Mcl1, factors involved in the formation of long-lived BM PCs. Our findings suggest a pathway by which Ltbr gene amplifications may contribute to MM development through increased NF-kB activity and induction of an anti-apoptotic transcriptional program.
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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0270907PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC9352096PMC
August 2022

Mesenchymal stem cell-derived extracellular vesicles protect retina in a mouse model of retinitis pigmentosa by anti-inflammation through miR-146a-Nr4a3 axis.

Stem Cell Res Ther 2022 Aug 3;13(1):394. Epub 2022 Aug 3.

The Sixth Affiliated Hospital of Guangzhou Medical University, Qingyuan People's Hospital, B24 Yinquan South Road, Qingyuan, 511518, Guangdong, China.

Background: Retinitis pigmentosa is a rod-cone degenerative disease that induces irreversible vision loss. This study probed the protective capacity of mesenchymal stem cell-derived small EVs (MSC-EVs) on the retinas of rd10 mice and the underlying mechanism.

Methods: MSC-EVs were injected into the vitreous of rd10 mice at postnatal day 14 and P21; morphology and function were examined at P28. The mechanism of action was explored by using co-culture of photoreceptor cell line 661 W and microglia cell line BV2.

Results: Treatment with MSC-EVs increased the survival of photoreceptors and preserved their structure. Visual function, as reflected by optomotor and electroretinogram responses, was significantly enhanced in MSC-EVs-treated rd10 mice. Mechanistically, staining for Iba1, GFAP, F4/80, CD68 and CD206 showed that MSC-EVs suppressed the activation of microglial, Müller glial and macrophages. Furthermore, western blotting showed that the treatment inhibited the NF-κB pathway. RNA-seq and qPCR showed that MSC-EVs upregulated anti-inflammatory cytokines while downregulating pro-inflammatory cytokines. MSC-EVs application in vitro decreased the number of TUNEL-positive 661 W cells co-cultured with LPS-stimulated BV2, with similar impact on the cytokine expression as in vivo study. Genetic screening predicted miR-146a to be the downstream target of MSC-EVs, which was detected in MSC-EVs and upregulated in co-cultured 661 W cells and BV2 cells after MSC-EVs treatment. Upregulation of miR-146a by using its mimic decreased the expression of the transcription factor Nr4a3, and its downregulation inhibition promoted Nr4a3 expression in both 661 W and BV2 cells. Nr4a3 was further identified as the target gene of miR-146a by dual-luciferase assay. Furthermore, overexpressing miR-146a significantly decreased the expression of LPS-induced pro-inflammatory cytokines in BV2 cells.

Conclusions: MSC-EVs delays retinal degeneration in rd10 mice mainly by its anti-inflammatory effect via the miR-146a-Nr4a3axis. Hence, MSC-EVs may be used in the treatment of neurodegenerative diseases.
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http://dx.doi.org/10.1186/s13287-022-03100-xDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC9351183PMC
August 2022

Human-specific gene CT47 blocks PRMT5 degradation to lead to meiosis arrest.

Cell Death Discov 2022 Aug 2;8(1):345. Epub 2022 Aug 2.

Cambridge-Su Genomic Resource Center, Jiangsu Key Laboratory of Neuropsychiatric Diseases, Medical School of Soochow University, Suzhou, Jiangsu, 215123, China.

Exploring the functions of human-specific genes (HSGs) is challenging due to the lack of a tractable genetic model system. Testosterone is essential for maintaining human spermatogenesis and fertility, but the underlying mechanism is unclear. Here, we identified Cancer/Testis Antigen gene family 47 (CT47) as an essential regulator of human-specific spermatogenesis by stabilizing arginine methyltransferase 5 (PRMT5). A humanized mouse model revealed that CT47 functions to arrest spermatogenesis by interacting with and regulating CT47/PRMT5 accumulation in the nucleus during the leptotene/zygotene-to-pachytene transition of meiosis. We demonstrate that testosterone induces nuclear depletion of CT47/PRMT5 and rescues leptotene-arrested spermatocyte progression in humanized testes. Loss of CT47 in human embryonic stem cells (hESCs) by CRISPR/Cas9 led to an increase in haploid cells but blocked the testosterone-induced increase in haploid cells when hESCs were differentiated into haploid spermatogenic cells. Moreover, CT47 levels were decreased in nonobstructive azoospermia. Together, these results established CT47 as a crucial regulator of human spermatogenesis by preventing meiosis initiation before the testosterone surge.
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http://dx.doi.org/10.1038/s41420-022-01139-6DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC9345867PMC
August 2022

Risk of recurrence and pregnancy outcomes in young women with breast cancer who do and do not undergo fertility preservation.

Breast Cancer Res Treat 2022 Jul 30. Epub 2022 Jul 30.

Department of Medical Oncology, British Columbia Cancer, 600 West 10th Avenue, Vancouver, BC, V5Z 4E6, Canada.

Purpose: To assess the impact of fertility preservation (FP) requiring ovarian stimulation on breast cancer outcomes and pregnancy after breast cancer.

Methods: Women aged ≤ 40 years diagnosed with stage I-III breast cancer between 2007 and 2018 and referred for FP consultation prior to systemic therapy were identified from a British Columbia fertility center database. The primary endpoint was invasive breast cancer-free survival (iBCFS) and secondary endpoints were overall survival (OS) and achievement of pregnancy. Survival and pregnancy endpoints were compared using Cox and logistic regression analyses, respectively, for patients who did and did not undergo FP.

Results: The study included 153 patients, with 71 (46%) in the FP group and 82 (54%) in the non-FP group. Patients who underwent FP were more likely to be ECOG 0 (99% vs. 88%, p = 0.011) and receive chemotherapy (93% vs. 67%, p < 0.001), but had similar ER positivity status to non-FP patients (70% vs. 79%, p = 0.21). Over a median follow-up of 4.1 years, there were no differences in iBCFS (HR 1.006, 95% CI 0.416-2.438, p = 0.988) or OS (HR 0.789, 95% CI 0.210-2.956, p = 0.725) between FP and non-FP groups. Patients who underwent FP had higher odds of conceiving at least once (OR 3.024, 95% CI 1.312-6.970, p = 0.008).

Conclusion: At a median follow-up of 4.1 years, FP did not impact iBCFS or OS, supporting its safety in young women with breast cancer. In addition, patients who underwent FP were more likely to become pregnant after breast cancer, highlighting the value of pre-oncologic treatment FP in survivorship family planning.
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http://dx.doi.org/10.1007/s10549-022-06650-zDOI Listing
July 2022

Intercepting Medication Errors in Pediatric In-patients Using a Prescription Pre-audit Intelligent Decision System: A Single-center Study.

Paediatr Drugs 2022 Jul 30. Epub 2022 Jul 30.

Department of Clinical Pharmacy, National Children's Medical Center, Children's Hospital of Fudan University, Shanghai, 201102, China.

Objectives: Medication errors can happen at any phase of the medication process at health care settings. The objective of this study is to identify the characteristics of severe prescribing errors at a pediatric hospital in the inpatient setting and to provide recommendations to improve medication safety and rational drug use.

Methods: This descriptive retrospective study was conducted at a tertiary pediatric hospital using data collected from Jan. 1st, 2019 to Dec. 31st, 2020. During this period, the Prescription Pre-audit Intelligent Decision System was implemented. Medication orders with potential severe errors would trigger a Level 7 alert and would be intercepted before it reached the pharmacy. Trained pharmacists maintained the system and facilitated decision making when necessary. For each order intercepted by the system the following patient details were recorded and analyzed: patient age, patient's department, drug classification, dosage forms, route of administration, and the type of error.

Results: A total of 2176 Level 7 medication orders were intercepted. The most common errors were associated with drug dosage, administration route, and dose frequency, accounting for 35.2%, 32.8% and 13.2%, respectively. Of all the intercepted oerrors. 53.6% occurred in infants aged < 1 year. Administration routes involved were mainly intravenous, oral and external use drugs. Most alerts came from the neonatology department and constituted 40.5% of the total alerts, followed by the nephrology department 15.9% and pediatric intensive care unit (PICU) 11.3%. As to dosage forms, injections accounted for 50.4% of alerts, with 21.3% attributable to topical solutions, 9.1% to tablets, and 5.7% to inhalation. Anti-infective agents were the most common therapeutic drugs prescribed with errors.

Conclusions: The Prescription Pre-audit Intelligent Decision System, with the supervision of trained pharmacists can validate prescriptions, increase prescription accuracy, and improve drug safety for hospitalized children. It is a medical service model worthy of consideration.
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http://dx.doi.org/10.1007/s40272-022-00521-2DOI Listing
July 2022

Vaccination with Omicron Inactivated Vaccine in Pre-vaccinated Mice Protects against SARS-CoV-2 Prototype and Omicron Variants.

Vaccines (Basel) 2022 Jul 19;10(7). Epub 2022 Jul 19.

China National Biotec Group Company Limited, Beijing 100024, China.

In response to the fast-waning immune response and the great threat of the Omicron variant of concern (VOC) to the public, we report the pilot-scale production of an inactivated Omicron vaccine candidate that induces high levels of neutralizing antibody titers to protect against the Omicron virus. Here, we demonstrate that the inactivated Omicron vaccine is safe and effective in recalling immune responses to the HB02, Omicron, and Delta viruses after one or two doses of BBIBP-CorV. In addition, the efficient productivity and good genetic stability of the manufactured inactivated vaccine is proved. These results support the further evaluation of the Omicron vaccine in a clinical trial.
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http://dx.doi.org/10.3390/vaccines10071149DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC9318641PMC
July 2022

Transcriptomic Analysis Reveals the Role of tmRNA on Biofilm Formation in .

Microorganisms 2022 Jul 1;10(7). Epub 2022 Jul 1.

Shenzhen Key Laboratory of Marine Bioresource and Eco-Environmental Science, Shenzhen Engineering Laboratory for Marine Algal Biotechnology, College of Life Sciences and Oceanography, Shenzhen University, Shenzhen 518055, China.

strains are widely distributed in terrestrial and marine environments, and some of them are used as biocontrol organisms for their biofilm-formation ability. In , biofilm formation is fine-tuned by a complex network, a clear understanding of which still requires study. In bacteria, tmRNA, encoded by the gene, catalyzes -translation that can rescue ribosomes stalled on mRNA transcripts lacking a functional stop codon. tmRNA also affects physiological bioprocesses in some bacteria. In this study, we constructed a mutant in and found that the biofilm formation in the mutant was largely impaired. Moreover, we isolated a biofilm-formation suppressor of , in which the biofilm formation was restored to a level even stronger than that in the wild type. We further performed RNAseq assays with the wild type, mutant, and suppressor of for comparisons of their transcriptomes. By analyzing the transcriptomic data, we predicted the possible functions of some differentially expressed genes (DEGs) in the tmRNA regulation of biofilm formation in . Finally, we found that the overexpression of two DEGs, and , could restore the biofilm formation in the mutant, indicating that AcoA and YhjR were immediate regulators involved in the tmRNA regulatory web controlling biofilm formation in . Our data can improve the knowledge about the molecular network involved in biofilm formation and provide new targets for manipulation of biofilms for future investigation.
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http://dx.doi.org/10.3390/microorganisms10071338DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC9319509PMC
July 2022

Numerical Analysis of Transient Pressure Damping in Viscoelastic Pipes at Different Water Temperatures.

Materials (Basel) 2022 Jul 14;15(14). Epub 2022 Jul 14.

Industrial Control Energy Saving Business Division, Beijing Huada Zhibao Electronic System Co., Ltd., Beijing 100020, China.

Water temperature affects the peak pressure damping of transient flows in viscoelastic pipes. Owing to the viscoelastic properties of pipes, the accuracy of peak pressure damping simulations hinges on both viscoelastic and frictional factors. In simulations, the influence of both factors on peak pressure damping at different water temperatures is unclear. In this study, the Kelvin-Voigt model with both a quasi-steady friction model and modified Brunone model was employed. Based on experimental data, the accuracy of simulated peak pressure damping was verified at four different water temperatures (13.8, 25, 31, and 38.5 °C). From the perspective of energy transfer and dissipation, the influence of viscoelastic and frictional factors on peak pressure damping were clarified, and the applicability of different friction models was determined based on the contributions of viscoelastic and frictional factors to peak pressure damping. The numerical results indicate that the viscoelastic properties of pipes have a greater impact on peak pressure damping than their frictional properties at 25, 31, and 38.5 °C. Higher temperatures result in a delay in the rate of work and a decrease in the frequency of work performed by viscoelastic pipes. Viscoelastic properties play a more important role than frictional ones in calculating peak pressure damping as the water temperature increases. In addition, the one-dimensional quasi-steady friction model can accurately simulate peak pressure damping within a specified water temperature range.
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http://dx.doi.org/10.3390/ma15144904DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC9323711PMC
July 2022

Plasma biomarkers inclusive of α-synuclein/amyloid-beta40 ratio strongly correlate with Mini-Mental State Examination score in Parkinson's disease and predict cognitive impairment.

J Neurol 2022 Jul 25. Epub 2022 Jul 25.

Griffith University, Brisbane, QLD, Australia.

Plasma biomarkers for Parkinson's disease (PD) diagnosis that carry predictive value for cognitive impairment are valuable. We explored the relationship of Mini-Mental State Examination (MMSE) score with plasma biomarkers in PD patients and compared results to vascular dementia (VaD) and normal controls. The predictive accuracy of an individual biomarker on cognitive impairment was evaluated using area under the receiver operating characteristic curve (AUROC), and multivariate logistic regression was applied to evaluate predictive accuracy of biomarkers on cognitive impairment; 178 subjects (41 PD, 31 VaD and 106 normal controls) were included. In multiple linear regression analysis of PD patients, α-synuclein, anti-α-synuclein, α-synuclein/Aβ40 and anti-α-synuclein/Aβ40 were highly predictive of MMSE score in both full model and parsimonious model (R = 0.838 and 0.835, respectively) compared to non-significant results in VaD group (R = 0.149) and in normal controls (R = 0.056). Α-synuclein and anti-α-synuclein/Aβ40 were positively associated with MMSE score, and anti-α-synuclein, α-synuclein/Aβ40 were negatively associated with the MMSE score among PD patients (all Ps < 0.005). In the AUROC analysis, anti-α-synuclein (AUROC = 0.788) and anti-α-synuclein/Aβ40 (AUROC = 0.749) were significant individual predictors of cognitive impairment. In multivariate logistic regression, full model of combined biomarkers showed high accuracy in predicting cognitive impairment (AUROC = 0.890; 95%CI 0.796-0.984) for PD versus controls, as was parsimonious model (AUROC = 0.866; 95%CI 0.764-0.968). In conclusion, simple combination of biomarkers inclusive of α-synuclein/Aβ40 strongly correlates with MMSE score in PD patients versus controls and is highly predictive of cognitive impairment.
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http://dx.doi.org/10.1007/s00415-022-11287-5DOI Listing
July 2022

Association of sleep with mental health in Chinese high school students: a cross-sectional study.

J Sleep Res 2022 Jul 25:e13697. Epub 2022 Jul 25.

School of Health Management, Southern Medical University, Guangzhou, China.

Adolescents' sleep problems and their association with mental health is an important public health concern. This study aimed to investigate sleep and mental health status and the association of sleep with mental health in Chinese high school students. Data came from a cross-sectional study in Guangdong province which included 42,077 high school students. Sleep quality and sleep duration were obtained through self-report. The Depression Anxiety and Stress Scale (DASS-21) was used to measure mental health. The association between sleep quality, sleep duration, and mental health was analysed using logistic regression. The prevalence of depression, anxiety, and stress symptoms were 35.27%, 42.32%, and 21.87% in high school students, respectively. And only 17.71% and 34.41% of the high school students had very good sleep quality and ≥8 h sleep duration, respectively. Poorer sleep quality and shorter sleep duration were risk factors for mental health problems in high school students. Compared to high school students with very good sleep quality and ≥8 h sleep duration, the high school students with poor or very poor sleep quality and <6 h sleep duration had the highest risk of depression symptoms (odds ratio [OR] 5.02, 95% confidence interval [CI] 4.40-5.72), anxiety symptoms (OR 6.02, 95% CI5.25-6.89), and stress symptoms (OR 6.12, 95% CI5.30-7.06). Considering the combined association of sleep quality and sleep duration on mental health, it is important not only to ensure that high school students have sufficient sleep duration, but also to improve their sleep quality.
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http://dx.doi.org/10.1111/jsr.13697DOI Listing
July 2022

Eradication rate and safety of a "simplified rescue therapy": 14-day vonoprazan and amoxicillin dual regimen as rescue therapy on treatment of Helicobacter pylori infection previously failed in eradication: A real-world, retrospective clinical study in China.

Helicobacter 2022 Jul 25:e12918. Epub 2022 Jul 25.

GI Department, Peking University First Hospital, Beijing, China.

Background: The currently recommended quadruple regimens as rescue therapy on Helicobacter pylori infection were not as effective as being supposed, especially in those who had failed two or more times. Dual regimen composed of vonoprazan (a potassium-competitive acid blocker) and amoxicillin might be an option since it's effective in eradication therapy as first-line treatment.

Objective: As a real-world retrospective study, data were collected to evaluate the efficacy and safety of vonoprazan and amoxicillin dual regimen as rescue therapy in Helicobacter pylori positive patients who had failed one or more times in their previous treatment.

Methods: From May 2020 to June 2021, the clinical data of patients who had failed in Helicobacter pylori infection treatment were collected in GI department of Peking University First Hospital, Beijing, China. Patients were given vonoprazan 20 mg or 40 mg per day and amoxicillin 3000 mg per day (VA dual therapy) for 14 days as rescue treatment. Helicobacter pylori status was evaluated by C-urease breath test 6 weeks after treatment. All adverse effects during treatment were recorded.

Results: A total of 186 patients were enrolled, including 67 males and 119 females. All of them had failed for 1 ~ 7 times in their previous treatment. Successful eradication was achieved in 172 patients (92.5%, 172/186). The adverse effects (referring to skin rash, abdominal pain, diarrhea, and headache), mainly mild and did not cause quit of treatment, occurred in 14 patients (7.5%, 14/186) and all symptoms relieved spontaneously.

Conclusions: Dual regimen composed of vonoprazan and amoxicillin for 14 days was effective and safe as rescue therapy in Helicobacter pylori infection treatment. It could be chosen as a "simplified rescue therapy" with relatively high eradication rate no matter how many times the patients had failed and what regimens they had used previously.
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http://dx.doi.org/10.1111/hel.12918DOI Listing
July 2022

Enhancing phosphorus recovery from efficient acidogenic fermentation of waste activated sludge with acidic cation exchange resin pretreatment: Insights from occurrence states and transformation.

Sci Total Environ 2022 Jul 21:157534. Epub 2022 Jul 21.

State Key Laboratory of Pollution Control and Resource Reuse, College of Environmental Science and Engineering, Tongji University, Shanghai 200092, PR China; Shanghai Institute of Pollution Control and Ecological Security, Shanghai 200092, PR China. Electronic address:

Achieving phosphorus (P) recovery during treatment and disposal of waste activated sludge (WAS) by anaerobic-based processes has received increasing attention. To solve the problem of low phosphorus release efficiency, anaerobic fermentation (AF) combined with acidic cation exchange resin (ACER) pretreatment was first proposed in this study. Results showed that the isoelectric point pretreatment with ACER increased the recoverable phosphorus content by 2.3 times compared to that without ACER pretreatment. Phosphorus transformation was systematically analyzed from a whole-process perspective, and the results visually revealed that the release of phosphorus during the conventional AF process (without ACER pretreatment) was limited by insufficient phosphorus release from extracellular polymeric substances (EPS) and mineral precipitation, as well as the reprecipitation of soluble phosphorus with metals. ACER enabled effective dissolution of mineral phosphorus by acidifying WAS. On the other hand, ACER adsorbed metals to promote EPS disintegration and hydrolysis, thereby enhancing the release of EPS-bound P, which also reduced the reprecipitation of soluble phosphorus during AF. Furthermore, ACER pretreatment increased volatile fatty acids production by >2-fold with enhanced sludge hydrolysis. This finding has important implications for both non-renewable phosphorus recovery and sludge resource recovery.
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http://dx.doi.org/10.1016/j.scitotenv.2022.157534DOI Listing
July 2022

The Effects of Learning Transfer on Clinical Performances Among Medical Staff: A Systematic Review of Randomized Controlled Trials.

Front Public Health 2022 5;10:874115. Epub 2022 Jul 5.

Evidence-Based Medicine Center, Taizhou Hospital of Zhejiang Province Affiliated to Wenzhou Medical University, Linhai, China.

Purpose: This study aimed to evaluate the influence of learning transfer on the clinical performance of medical staff.

Methods: We searched PubMed, Embase, and the Cochrane Library for all associated studies without any language restrictions from the inception until 31 December 2021.

Results: This systematic review screened out 14 eligible studies that met the inclusion criteria. Most of these studies showed that learning transfer contributed to the clinical performance of medical staff. Through education, or when knowledge and skills have common basic principles, learning transfer will be more apparent than for those who learn by themselves and those without simulation training.

Conclusions: The findings of this review support an association between learning transfer and the clinical performance of medical staff. However, it was noted that due to the lack of relevant research and the major differences in the methods and indicators used in previous studies, we are restricted in conducting an effective meta-analysis. Further comprehensive trials will be needed to assess the impact of learning transfer on the clinical performance of medical staff.

Systematic Review Registration: PROSPERO, identifier: 341439.
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http://dx.doi.org/10.3389/fpubh.2022.874115DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC9294317PMC
July 2022

CpG-binding protein CFP1 promotes ovarian cancer cell proliferation by regulating BST2 transcription.

Cancer Gene Ther 2022 Jul 21. Epub 2022 Jul 21.

Department of Cell Biology, College of Medicine, Jiaxing University, 118 Jiahang Road, Jiaxing, 314001, China.

Epigenetic alterations have been functionally linked to ovarian cancer development and occurrence. The CXXC zinc finger protein 1 (CFP1) is an epigenetic regulator involved in DNA methylation and histone modification in mammalian cells. However, its role in ovarian cancer cells is unknown. Here, we show that CFP1 protein is highly expressed in human ovarian cancer tissues. Loss of CFP1 inhibited the growth of human ovarian cancer cells, promoted apoptosis, and increased senescence. CFP1 knockdown resulted in reduced levels of SETD1 (a CFP1 partner) and histone H3 trimethylation at the fourth lysine residue (H3K4me3). RNA-sequencing revealed that deletion of CFP1 resulted in mRNA reduction of bone marrow stromal cell antigen 2 (BST2). Bioinformatics analysis and chromatin immunoprecipitation showed that CFP1 binds to the promoter of BST2 and regulates its transcription directly. Overexpression of BST2 rescued the growth inhibitory effect of CFP1 loss. Furthermore, depletion of cullin-RING ubiquitin ligases 4 (CRL4) components ROC1 or CUL4A had significantly inhibited the expression of CFP1 and BST2 similar to MLN4924 treatment that blocked cullin neddylation and inactivated CRL4s. In conclusion, CFP1 promotes ovarian cancer cell proliferation and apoptosis by regulating the transcription of BST2, and the expression of CFP1 was affected by CRL4 ubiquitin ligase complex.
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http://dx.doi.org/10.1038/s41417-022-00503-zDOI Listing
July 2022

Prevalence of Sarcopenia in Patients With COVID-19: A Systematic Review and Meta-Analysis.

Front Nutr 2022 4;9:925606. Epub 2022 Jul 4.

Evidence-Based Medicine Centre, Taizhou Hospital of Zhejiang Province Affiliated to Wenzhou Medical University, Linhai, China.

Background: It has been speculated that patients with sarcopenia are aggravated by the current novel coronavirus disease 2019 (COVID-19) epidemic. However, there is substantial uncertainty regarding the prevalence of sarcopenia in patients with COVID-19.

Objectives: The purpose of the study was to systematically evaluate the prevalence of sarcopenia in patients with COVID-19, including stratification by gender, study location, study population, study design, and diagnostic criteria.

Design: This is the systematic literature review and meta-analysis.

Methods: An electronic search was performed in MEDLINE/PubMed, Embase, Cochrane Library, and Web of Science and Scopus to identify observational studies reporting a prevalence estimate for sarcopenia in patients with COVID-19. Studies were reviewed in accordance with the Preferred Reporting Items for Systematic reviews and Meta-Analyses (PRISMA) guidelines and a meta-analysis was performed. Risk of bias (RoB) was assessed using the Newcastle-Ottawa Scale (NOS) for cohort studies and Joanna Briggs Institute (JBI) manual for cross-sectional studies, and Stata 14.0 was used to perform meta-analyses.

Results: A total of 4,639 studies were initially identified. After removing the duplicates and applying the selection criteria, we reviewed 151 full-text studies. A total of 21 studies, including 5,407 patients, were eligible for inclusion in this review finally. The prevalence of sarcopenia in patients with COVID-19 in individual studies varied from 0.8 to 90.2%. The pooled prevalence of sarcopenia in COVID-19 was 48.0% (95% confidence interval, CI: 30.8 to 65.1%, = 99.68%, = 0.000). We did not find any significant differences in the prevalence estimates between gender specificity (OR = 1.34; 95% CI = 0.80-2.26; = 0.001). By sex, the prevalence was 42.5% (95% CI: 31.7 to 53.4%) in men and 35.7% (95% CI: 24.2 to 47.2%) in women. The prevalence estimates significantly varied based on population settings and different diagnostic criteria of sarcopenia. ICU patients (69.7, 95% CI: 51.7 to 85.2%) were more likely to suffer from sarcopenia compared to other population settings.

Conclusion: To our knowledge, this is the first meta-analysis reporting on the prevalence of sarcopenia in patients with COVID-19. Sarcopenia is frequently observed in patients with COVID-19, with varying prevalence across population settings. This study would be useful for clinicians to prompt the increasing awareness of identifying sarcopenia and developing interventions at patients with COVID-19 with high risk of sarcopenia. Further prospective longitudinal studies to define the association of sarcopenia and its prognostic outcomes in COVID-19 survivors are urgently needed to propose the most appropriate treatment strategies during their admission and discharge.

Systematic Review Registration: [www.crd.york.ac.uk/prospero/], identifier [CRD42022300431].
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http://dx.doi.org/10.3389/fnut.2022.925606DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC9289534PMC
July 2022

Correlation between impaired hemodynamic response and cardiopulmonary fitness in middle-aged type 2 diabetes mellitus patients: a case-control study.

Eur J Appl Physiol 2022 Jul 20. Epub 2022 Jul 20.

College of Rehabilitation Medicine, Fujian University of Traditional Chinese Medicine, Fuzhou, Fujian, China.

Purpose: Impaired cardiorespiratory fitness (CRF) is a predictor of mortality in patients with type 2 diabetes mellitus (T2DM). It is still not known how the exercise hemodynamic response correlates with CRF. The purpose was to assess the correlation between hemodynamic changes and CRF in middle-aged patients with T2DM.

Methods: After 1:1 matching by age and sex, 139 T2DM patients and 139 non-T2DM controls who completed the exercise treadmill test were included. Maximal aerobic capacity (VO), exercise-induced changes in heart rate (ΔHR), systolic blood pressure (ΔSBP), diastolic blood pressure (ΔDBP), and rate-pressure product (ΔRPP) were measured. HRR was calculated as the maximum heart rate minus the heart rate after 1 min of rest.

Results: Compared to the control population, T2DM patients had decreased ΔHR (87 (77, 97) v 93 (84, 104) bpm, p < 0.05), ΔRPP (3833.64 ± 1670.34 v 4381.16 ± 1587.78 bpm∙mmHg, p < 0.05), HRR (21 (14, 27) v 21 (17, 27) bpm, p < 0.05), and VO (32.76 ± 5.63 v 34.68 ± 5.70 ml/kg/min, p < 0.05). Multiple linear regression analysis showed that ΔHR and HRR, yielded a positive correlation with VO in T2DM patients (β = 0.325, P < 0.001; β = 0.173, P = 0.01).

Conclusion: The presence of impaired hemodynamic response and VO in middle-aged T2DM patients and the association of impaired ΔHR, HRR, and VO may indicate a physiological pathway of impaired CRF, and our results support the need for cardiorespiratory screening and individualized treatment of middle-aged T2DM patients.
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http://dx.doi.org/10.1007/s00421-022-05008-zDOI Listing
July 2022

Brain Mitochondrial Dysfunction: A Possible Mechanism Links Early Life Anxiety to Alzheimer's Disease in Later Life.

Aging Dis 2022 Jul 11;13(4):1127-1145. Epub 2022 Jul 11.

1Institute for Interdisciplinary Medicine Sciences, Shanghai University of Traditional Chinese Medicine, Shanghai, China.

Alzheimer's disease (AD) is usually manifested in patients with dementia, accompanied by anxiety and other mental symptoms. Emerging evidence from humans indicates that people who suffer from anxiety in their early life are more likely to develop AD in later life. Mitochondria, the prominent organelles of energy production in the brain, have crucial physiological significance for the brain, requiring considerable energy to maintain its normal physiological activities. Net reactive oxygen species (ROS) was produced by mitochondrial impairment, in which oxidative stress is also included, and the production of ROS is mostly more than that of removal. In this paper, we propose that as a critical process in brain pathology, mitochondrial dysfunction caused by anxiety triggering oxidative stress might be a possible mechanism that links early life anxiety to AD in later life. Several pivotal physiological roles of mitochondria are reviewed, including functions regulating glucose homeostasis, which may disrupt in oxidative stress. Increased levels of oxidative stress are constantly shown in anxiety disorder patients, and antioxidant drugs have promise in treating anxiety. In the early stages of AD, mitochondrial dysfunction is concentrated around senile plaques, a landmark lesion composed of aggregated Aβ and Tau protein. In turn, the accumulated Aβ and Tau disrupts mitochondrial activity, and the tricky physiological processes of mitochondria might be significant to the course of AD. In the end, we conclude that mitochondria might present as one of the novel therapeutic targets to block oxidative stress in patients with anxiety disorders to prevent AD in the early stage.
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http://dx.doi.org/10.14336/AD.2022.0221DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC9286915PMC
July 2022

Knockdown of lncRNA H19 alleviates ox-LDL-induced HCAECs inflammation and injury by mediating miR-20a-5p/HDAC4 axis.

Inflamm Res 2022 Jul 19. Epub 2022 Jul 19.

Department of Geriatrics, Changsha Third Hospital, No. 176, Laodong West Road, Tianxin District, Changsha, 410004, Hunan Province, People's Republic of China.

Background: Coronary artery disease (CAD) seriously disturbs the life of people. LncRNA H19 is reported to promote the progression of CAD; Nevertheless, the detailed mechanism by which H19 modulates CAD development is unclear.

Methods: Clinical samples of CAD patients were collected, meanwhile we established in vitro and in vivo models of CAD by treating HCAECs with ox-LDL and feeding ApoE mice with high fat diets (HFD). MTT assay was adopted to assess the cell viability. Transwell detection was applied to test the migration, and apoptosis was tested by flow cytometry. The levels of inflammatory cytokines were examined by ELISA. The relation among H19, miR-20a-5p and HDAC4 was explored by dual luciferase reporter and RIP assay.

Results: H19 and HDAC4 levels were elevated, while miR-20a-5p was reduced in plasma of CAD patients and ox-LDL-treated HCAECs. ox-LDL increased H19 level and induced apoptosis and inflammation in HCAECs, while silencing of H19 rescued this phenomenon. In addition, the level of H19 was negatively correlated with miR-20a-5p, and miR-20a-5p inhibitor restored the effect of H19 silencing on HCAECs function. HDAC4 was the downstream mRNA of miR-20a-5p, and miR-20a-5p upregulation reversed ox-LDL-induced HCAECs injury through targeting HDAC4. Furthermore, H19 silencing significantly alleviated the coronary atherosclerotic plaques and inhibited the inflammatory responses in vivo.

Conclusions: We proved that knockdown of H19 alleviated ox-LDL-induced HCAECs injury via miR-20a-5p/HDAC4 axis, which might provide a new tactics against CAD.
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http://dx.doi.org/10.1007/s00011-022-01604-zDOI Listing
July 2022

Metabolomic analysis of serum from pure coronary artery ectasia patients based on UPLC-QE/MS technique.

Clin Chim Acta 2022 Jul 16;534:93-105. Epub 2022 Jul 16.

Department of Geriatric, Nanjing Medical University Second Affiliated Hospital, Nanjing Medical University, Nanjing 210011, China. Electronic address:

Background: Coronary artery ectasia (CAE) is a cardiovascular disorder characterized by abnormal coronary artery dilation and disturbed coronary flow. The exact pathophysiology of CAE is still unclear. We aimed to investigate differences in metabolomic profiles between CAE patients and healthy controls.

Methods: Radial artery blood samples were collected from 14 pure CAE patients, 12 mixed CAE patients with atherosclerosis, and 14 controls with normal angiography. Differential serum metabolites were analyzed by untargeted ultra-high performance liquid chromatography-mass spectrometry. Serum ICAM-1, VEGF, ROS, and glutathione levels were also measured.

Results: Ten metabolites distinguished pure CAE patients from controls and mixed CAE, including 1-cyano-2-hydroxy-3-butene, 2,3-dihydro-6-methyl-5-(5-methyl-2-furanyl)-1H-pyrrolizine, 2-propionylpyrrole, 2-pyrrolidinone, 3-(2-furanylmethylene)pyrrolidine, D-alanine, furanofukinin, o-ethyltoluene, rotundine A, and SM(d18:1/18:1(9Z)). Related metabolic pathways include amino acid metabolism, sphingolipid dysfunction, energy metabolism, mitochondrial dysfunction, and oxidative stress. Serum concentrations of ICAM-1, VEGF and ROS were significantly elevated in CAE patients compared to controls, while glutathione decreased significantly in CAE patients. Moreover, ICAM-1 levels were negatively correlated with 2-propionylpyrrole, and VEGF levels were negatively correlated with SM(d18:1/18:1(9Z)), while GSH and ROS levels were correlated with the abundance of SM(d18:1/18:1(9Z)), further confirming systemic inflammation and oxidative stress in CAE.

Conclusions: This is the first report describing differential serum metabolomic profiles of pure CAE patients compared to mixed CAE and healthy controls, which revealed 10 potential biomarkers that can provide an early diagnosis of pure CAE. These discriminatory metabolites and related metabolic pathways can help to better understand the pathogenesis of pure CAE.
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http://dx.doi.org/10.1016/j.cca.2022.06.026DOI Listing
July 2022

Ambient synthesis of metal-covalent organic frameworks with Fe-iminopyridine linkages.

Chem Commun (Camb) 2022 Aug 4;58(63):8830-8833. Epub 2022 Aug 4.

Key Laboratory of Molecular Nanostructure and Nanotechnology, Institute of Chemistry, Chinese Academy of Sciences and Beijing National Laboratory for Molecular Sciences, Beijing 100190, P. R. China.

Highly crystalline Fe-COFs were constructed from the building blocks carrying pyridyl-aldehyde and triamine moieties in the presence of Fe(OTf) and acetic acid under ambient conditions a subcomponent assembly strategy. The spectral results prove the coordination of atomically distributed Fe(II) ions with the nitrogen species of covalently formed iminopyridine linkages.
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http://dx.doi.org/10.1039/d2cc03148eDOI Listing
August 2022

Swimming Impedes Intestinal Microbiota and Lipid Metabolites of Tumorigenesis in Colitis-Associated Cancer.

Front Oncol 2022 1;12:929092. Epub 2022 Jul 1.

Department of Endoscopy, Shanghai Tong Ren Hospital, Shanghai Jiao Tong University School of Medicine, Shanghai, China.

Background: Accumulating data support that regular physical activity potentially inhibits chronic colitis, a risk factor for colitis-associated cancer (CAC). However, possible effects of physical activity on CAC and the underlying mechanisms remain poorly understood.

Methods: A pretreatment of swimming on azoxymethane/dextran sodium sulfate (AOM/DSS)-induced CAC mice was implemented to determine its protective effect. Inflammation and tumorigenesis were assessed using colorectums from C57BL/6 mice. In order to determine how swimming alters colonic lipid metabolism and gene expression, a comparative analysis was conducted. Meanwhile, alterations in intestinal microbiota and short-chain fatty acids (SCFAs) were detected and analyzed. Finally, an integration analysis of colonic lipid metabolism with gene expression and intestinal microbiota was performed respectively.

Result: Swimming pretreatment relieved bowel inflammation and minimized tumor formation. We demonstrated that prostaglandin E2 (PGE2)/PGE2 receptor 2 subtype (EP2) signaling as a potential regulatory target for swimming induces colonic lipid metabolites. Swimming-induced genera, Erysipelatoclostridium, Parabacteroides, Bacteroides, and Rikenellaceae_RC9_gut_group, induced intestinal SCFAs and affected the function of colonic lipid metabolites enriched in glycerophospholipid metabolism and choline metabolism in cancer.

Conclusion: According to our experiments, swimming pretreatment can protect mice from CAC by intervention in the possible link between colonic lipid metabolites and PGE2/EP2 signaling. Further, swimming-induced genera and probiotics promoted glycerophospholipid metabolism and choline metabolism in cancer, the major constituents of colonic lipid metabolites, and increased SCFAs, which were also important mechanisms for the anti-inflammatory and anti-tumorigenic effects of swimming.
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http://dx.doi.org/10.3389/fonc.2022.929092DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC9285133PMC
July 2022

Long-term SCN calcium signal recording in freely moving mice.

STAR Protoc 2022 Jul 15;3(3):101547. Epub 2022 Jul 15.

Jiangsu Key Laboratory of Neuropsychiatric Diseases and Cambridge-Su Genomic Resource Center, Medical School of Soochow University, Suzhou, Jiangsu 215123, China. Electronic address:

The suprachiasmatic nucleus (SCN) is the master circadian pacemaker of the mammalian biological clock. Here, we provide a detailed protocol for long-term recording of calcium signals in SCN neurons of freely moving mice through a multichannel optical fiber recording system. This system can simultaneously collect calcium signals from up to seven animals. The calcium signals can be visualized by the appropriate software and code. This protocol can be used to explore the long-term response of SCN to external environmental stimulation. For complete details on the use and execution of this protocol, please refer to Zhai et al. (2022).
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http://dx.doi.org/10.1016/j.xpro.2022.101547DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC9294265PMC
July 2022

Mechanisms of helicase activated DNA end resection in bacteria.

Structure 2022 Jul 5. Epub 2022 Jul 5.

MOE Key Laboratory of Biosystems Homeostasis & Protection, Institute of Biophysics, College of Life Sciences, Zhejiang University, Hangzhou, China; Cancer Center, Zhejiang University, Hangzhou, Zhejiang 310058, China. Electronic address:

DNA end resection mediated by the coordinated action of nuclease and helicase is a crucial step in initiating homologous recombination. The end-resection apparatus NurA nuclease and HerA helicase are present in both archaea and bacteria. Here, we report the cryo-electron microscopy structure of a bacterial HerA-NurA complex from Deinococcus radiodurans. The structure reveals a barrel-like hexameric HerA and a distinctive NurA dimer subcomplex, which has a unique extended N-terminal region (ENR) involved in bacterial NurA dimerization and activation. In addition to the long protruding linking loop and the C-terminal α helix of NurA, the flexible ENR is close to the HerA-NurA interface and divides the central channel of the DrNurA dimer into two halves, suggesting a possible mechanism of DNA end processing. In summary, this work provides new insights into the structure, assembly, and activation mechanisms of bacterial DNA end resection mediated by a minimal end-resection apparatus.
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http://dx.doi.org/10.1016/j.str.2022.06.005DOI Listing
July 2022

Wide distribution of the sad gene cluster for sub-terminal oxidation in alkane utilizers.

Environ Microbiol 2022 Jul 15. Epub 2022 Jul 15.

State Key Laboratory of Microbial Metabolism, Joint International Research Laboratory of Metabolic & Developmental Sciences, and School of Life Sciences & Biotechnology, Shanghai Jiao Tong University, Shanghai, China.

Alkane constitutes major fractions of crude oils, and its microbial aerobic degradation dominantly follows the terminal oxidation and the sub-terminal pathways. However, the latter one received much less attention, especially since the related genes were yet to be fully defined. Here, we isolated a bacterium designated Acinetobacter sp. strain NyZ410, capable of growing on alkanes with a range of chain lengths and derived sub-terminal oxidation products. From its genome, a secondary alcohol degradation gene cluster (sad) was identified to be likely involved in converting the aliphatic secondary alcohols (the sub-terminal oxidation products of alkanes) to the corresponding primary alcohols by removing two-carbon unit. On this cluster, sadC encoded an alcohol dehydrogenase converting the aliphatic secondary alcohols to the corresponding ketones; sadD encoded a Baeyer-Villiger monooxygenase catalysing the conversion of the aliphatic ketones to the corresponding esters; SadA and SadB are two esterases hydrolyzing aliphatic esters to the primary alcohols and acetic acids. Bioinformatics analyses indicated that the sad cluster was widely distributed in the genomes of probable alkane degraders, apparently coexisting (64%) with the signature enzymes AlkM and AlmA for alkane terminal oxidation in 350 bacterial genomes. It suggests that the alkane sub-terminal oxidation may be more ubiquitous than previously thought.
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http://dx.doi.org/10.1111/1462-2920.16124DOI Listing
July 2022
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