Publications by authors named "Ming Chen"

2,373 Publications

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[Prediction of drug-induced cell viability by SAE-XGBoost algorithm based on LINCS-L1000 perturbation signal].

Sheng Wu Gong Cheng Xue Bao 2021 Apr;37(4):1346-1359

School of Sciences, Shanghai Institute of Technology, Shanghai 201418, China.

Different cell lines have different perturbation signals in response to specific compounds, and it is important to predict cell viability based on these perturbation signals and to uncover the drug sensitivity hidden underneath the phenotype. We developed an SAE-XGBoost cell viability prediction algorithm based on the LINCS-L1000 perturbation signal. By matching and screening three major dataset, LINCS-L1000, CTRP and Achilles, a stacked autoencoder deep neural network was used to extract the gene information. These information were combined with the RW-XGBoost algorithm to predict the cell viability under drug induction, and then to complete drug sensitivity inference on the NCI60 and CCLE datasets. The model achieved good results compared to other methods with a Pearson correlation coefficient of 0.85. It was further validated on an independent dataset, corresponding to a Pearson correlation coefficient of 0.68. The results indicate that the proposed method can help discover novel and effective anti-cancer drugs for precision medicine.
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http://dx.doi.org/10.13345/j.cjb.200450DOI Listing
April 2021

Palladium-Catalyzed Markovnikov Hydroaminocarbonylation of 1,1-Disubstituted and 1,1,2-Trisubstituted Alkenes for Formation of Amides with Quaternary Carbon.

J Am Chem Soc 2021 May 10. Epub 2021 May 10.

Key Laboratory of Synthetic and Nature Molecule of Ministry of Education, Department of Chemistry & Materials Science, Northwest University, Xi'an 710127, P.R. China.

Hydroaminocarbonylation of alkenes is one of the most promising yet challenging methods for the synthesis of amides. Herein, we reported the development of a novel and effective Pd-catalyzed Markovnikov hydroaminocarbonylation of 1,1-disubstituted or 1,1,2-trisubstituted alkenes with aniline hydrochloride salts to afford amides bearing an α quaternary carbon. The reaction makes use of readily available starting materials, tolerates a wide range of functional groups, and provides a facile and straightforward approach to a diverse array of amides bearing an α quaternary carbon. Mechanistic investigations suggested that the reaction proceeded through a palladium hydride pathway. The hydropalladation and CO insertion are reversible, and the aminolysis is probably the rate-limiting step.
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http://dx.doi.org/10.1021/jacs.1c03454DOI Listing
May 2021

Family with sequence similarity 83 member A promotes tumor cell proliferation and metastasis and predicts poor prognosis in cervical cancer.

Pathol Res Pract 2021 Apr 15;222:153450. Epub 2021 Apr 15.

Department of Obstetrics and Gynecology, the First Affiliated Hospital, Sun Yat-sen University, Guangzhou, 510080, Guangdong, China. Electronic address:

Family with sequence similarity 83 member A (FAM83A) is a member of the FAM83 family and is proven to have oncogenic properties in several cancers. However, the mechanisms of FAM83A in human cervical cancer (CC) progression are unknown. Here, we found that FAM83A is highly expressed in CC tissues and cell lines through western blot and qRT-PCR. We utilized GEO datasets to assess FAM83A expression in CC in comparison to the normal cervical tissue (NCT) (GSE6791), and similarly, in lymph node positive CC compared to the lymph node negative CC (GSE26511). Immunohistochemistry (IHC) was used to quantify FAM83A expression in 20 NCT and 105 CC patient samples. FAM83A expression is upregulated in early-stage CC and correlates with aggressive clinicopathologic features. Moreover, both our hospital's and TCGA datasets revealed that patients of early-stage CC with higher FAM83A expression had a poorer prognosis. Subsequently, CCK-8 and transwell assays verified that FAM83A promotes proliferation, migration, and invasion of CC cells. Additionally, Gene Set Enrichment Analysis (GSEA) revealed that FAM83A is not only involved in cell development, differentiation, and proliferation but is also correlated with cell junction assembly and cell matrix adhesion. It might also be affiliated with the regulation of tumor necrosis factor-mediated signaling pathway and the regulation of the ErbB signaling pathway in CC. These results indicate that FAM83A promotes tumor cell proliferation, migration, and metastasis. Our study provides novel evidence FAM83A may act as a promising therapeutic target for CC.
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http://dx.doi.org/10.1016/j.prp.2021.153450DOI Listing
April 2021

Li-ESWT treatment reduces inflammation, oxidative stress, and pain via the PI3K/AKT/FOXO1 pathway in autoimmune prostatitis rat models.

Andrology 2021 May 7. Epub 2021 May 7.

Institute of Urology, Lanzhou University Second Hospital, Key Laboratory of Urological Diseases, Gansu Province (Lanzhou University), Gansu Nephro-Urological Clinical Center, Lanzhou, China.

Background: Due to limited data on the pathogenesis of chronic prostatitis/chronic pelvic pain syndrome (CP/CPPS) and the suboptimal therapeutic effect, the development of new and effective treatment modalities was needed urgently. Low-intensity extracorporeal shock wave therapy (Li-ESWT) has been reported for the treatment of CP/CPPS. However, the underlying mechanism remains to be elucidated.

Objective: To interrogated the efficacy and the mechanism of Li-ESWT in the treatment of CP/CPPS.

Materials And Methods: According to different treatments, RWPE-1 cells (human prostate epithelial cells) were randomly divided into three groups: control group, LPS(lipopolysaccharide) group, or Li-ESWT group (LPS induced RWPE-1 managed by Li-ESWT). Following the Li-ESWT treatment, the levels of oxidative stress was assayed. We then established a rat model of experimental autoimmune prostatitis (EAP) by injecting prostatic protein homogenate mixed with complete Freund's adjuvant. The Sprague-Dawley rats were randomly divided into the control group, EAP group, or Li-ESWT group. Von Frey Filament was used to quantify pelvic hyperalgesia in the rats. Prostates tissues from each group were collected for immunohistochemistry, oxidation stress, and western blot analysis.

Results: Histological analysis showed reduced inflammation and expression of cytokines (TNF-α, IL-1β, IL-6, COX-2, SP) in prostate tissues from the Li-ESWT group compared with those from the EAP group (all P < 0.05). Similarly, there was reduced pelvic pain and allergic symptoms in the Li-ESWT group compared with the EAP group (all P < 0.05). Besides, Li-ESWT treatment could decrease oxidative stress in the prostate and in RWPE-1 cells, respectively (both P < 0.05). Moreover, the Li-ESWT up-regulated the expression of CAT through the inhibition of phosphorylation of AKT/FOXO1 signaling pathway.

Discussion And Conclusions: Li-ESWT may reduce inflammation, oxidative stress and pain in rats with autoimmunity-induced prostatitis via the PI3K/AKT/FOXO1 pathway. It implies that Li-ESWT can present a potential therapeutic option for the treatment of CP/CPPS.
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http://dx.doi.org/10.1111/andr.13027DOI Listing
May 2021

Click preparation of multiple-thioether bridged cyclodextrin chiral materials for efficient enantioseparation in high-performance liquid chromatography.

Analyst 2021 May;146(9):3025-3033

School of Science, Tianjin Key Laboratory of Molecular Optoelectronic Science, Department of Chemistry, Collaborative Innovation Center of Chemical Science and Engineering, Tianjin University, Tianjin 300072, P. R. China.

A highly efficient covalent immobilization procedure is considered as an essential tool for obtaining stable and reliable cyclodextrin (CD) chiral stationary phases (CSPs). This work reports the "thiolene" click immobilization of heptakis(6-mercapto-6-deoxy)-β-CD-CSP onto alkene functional silica to afford novel multiple-thioether bridged CD CSPs by controlling the surface CD concentration. Solid-state NMR, FTIR, TGA and X-ray photoelectron diffraction spectroscopy (XPS) results proved the successful preparation of the desired CSPs with different surface CD loadings. The surface CD concentrations were calculated to be 0.49 and 0.68 μmol m-2 according to the elemental analysis results. More than 60 chiral enantiomers including isoxazolines, chiral lactides, chiral ketones, dansyl amino acids, small molecule acids and alkalis as well as some flavonoids were resolved or partially separated in the reversed-phase HPLC mode. Compared with the previously prepared single thiolene bridged CD-CSP, the current multiple-thioether CD-CSP afforded much better enantioseparation ability due to the existence of the thiol moiety and a confined structure.
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http://dx.doi.org/10.1039/d1an00145kDOI Listing
May 2021

Endoscopic Procedures in the Treatment of Ureteroenteric Anastomotic Strictures: A Systematic Review and Meta-Analysis.

Front Surg 2021 14;8:626939. Epub 2021 Apr 14.

Department of Urology, Affiliated Zhongda Hospital of Southeast University, Nanjing, China.

To evaluate the safety and efficacy of endoscopic procedures for ureteroenteric anastomotic strictures (UESs) after radical cystectomy and urinary diversion. We performed a meta-analysis of relevant articles through March 2020 using PubMed, Embase, and Cochrane Central Register to assess the efficacy of endoscopic procedures in UES according to the PRISMA and PICOS criteria. The main endpoints were success rate and complications, and we also compared the efficacy of different methods and stricture length and side in UES. Cochrane Collaboration's Revman version 5.3 and Stata version 15.1 software were used for statistical analysis. A total of 18 retrospective studies with 697 patients were included. The median follow-up ranges from 12 to 62.5 months. Patients treated with endoscopic procedures had an overall success rate of 46%. The pooled rate of Clavien-Dindo ≥ 3 complications was 3.8% among included studies. Laser vaporization and stent insertion (48 and 47%) had a relatively high success rate than balloon dilatation (35%). In subgroup analysis, the success rate of endoscopic procedures for ≤ 1-cm strictures was significantly higher than that for >1-cm ones [odds ratio (OR), 8.65; 95% confidence interval (CI), 3.53-21.21; < 0.00001]. In addition, the success rate in cases with strictures of the right side was relatively higher than that in cases with strictures of the left side (OR, 1.72; 95% CI, 1.05-2.81; = 0.03). Our pooled studies showed that endoscopic operation is feasible and associated with a moderate success rate along with a relatively low incidence of perioperative complications in the treatment of UES, especially with length ≤ 1 cm and right side. Although there is still no consensus on endoscopic technique for UES regarding balloon dilatation, stent insertion, and laser vaporization, we believe that endoscopic management is a safety and available approach for UES with close follow-up.
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http://dx.doi.org/10.3389/fsurg.2021.626939DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC8079934PMC
April 2021

Refractory multiple myeloma with extramedullary plasmacytoma of the spleen and suspicious teratoma: a rare case report and literature review.

Int J Clin Exp Pathol 2021 15;14(4):455-462. Epub 2021 Apr 15.

Department of Hematology, Nanjing Drum Tower Hospital Clinical College of Nanjing Medical University Nanjing, PR China.

Multiple myeloma (MM) is a type of malignant disease that is characterized by a clonal proliferation of plasma cells within the bone marrow. Relapsed and refractory multiple myeloma (RRMM) is a subtype of MM that is unreactive to salvage therapy and progresses during treatment or within 60 days of the last therapy in patients who achieved a minimal response before progression of disease. This usually results in a poor prognosis. Extramedullary plasmacytoma (EMP) occurs when MM occasionally develops in tissues other than bones marrow. To the best of our knowledge, case studies of the presence of EMPs in the spleen have rarely been reported. Teratoma is a type of congenital tumor that consists of tissue that arises from pluripotent embryonic cells. Here we report a case of refractory immunoglobulin G (IgG) MM with both splenic plasmacytomas and a suspicious teratoma. To investigate the clinical and treatment features of patients under similar conditions, we also reviewed the available literature supporting the useful information in the pathogenesis, diagnosis and treatment of RRMM with EMP.
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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC8085831PMC
April 2021

Amyloid-β Protein Precursor Deficiency Changes Neuronal Electrical Activity and Levels of Mitochondrial Proteins in the Medial Prefrontal Cortex.

J Alzheimers Dis 2021 Apr 28. Epub 2021 Apr 28.

Precise Genome Engineering Center, School of Life Sciences, Guangzhou University, Guangzhou, China.

Background: Neuropathological features of Alzheimer's disease are characterized by the deposition of amyloid-β (Aβ) plaques and impairments in synaptic activity and memory. However, we know little about the physiological role of amyloid-β protein precursor (AβPP) from which Aβ derives.

Objective: Evaluate APP deficiency induced alterations in neuronal electrical activity and mitochondrial protein expression.

Methods: Utilizing electrophysiological, biochemical, pharmacological, and behavioral tests, we revealed aberrant local field potential (LFP), extracellular neuronal firing and levels of mitochondrial proteins.

Result: We show that APP knockout (APP -/- ) leads to increased gamma oscillations in the medial prefrontal cortex (mPFC) at 1-2 months old, which can be restored by baclofen (Bac), a γ-aminobutyric acid type B receptor (GABABR) agonist. A higher dose and longer exposure time is required for Bac to suppress neuronal firing in APP -/-  mice than in wild type animals, indicating enhanced GABABR mediated activity in the mPFC of APP -/-  mice. In line with increased GABABR function, the glutamine synthetase inhibitor, L-methionine sulfonate, significantly increases GABABR levels in the mPFC of APP -/-  mice and this is associated with a significantly lower incidence of death. The results suggest that APP -/-  mice developed stronger GABABR mediated inhibition. Using HEK 293 as an expression system, we uncover that AβPP functions to suppress GABABR expression. Furthermore, APP -/-  mice show abnormal expression of several mitochondrial proteins.

Conclusion: APP deficiency leads to both abnormal network activity involving defected GABABR and mitochondrial dysfunction, suggesting critical role of AβPP in synaptic and network function.
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http://dx.doi.org/10.3233/JAD-201557DOI Listing
April 2021

Rapid Hemostatic Biomaterial from a Natural Bath Sponge Skeleton.

Mar Drugs 2021 Apr 15;19(4). Epub 2021 Apr 15.

Department of Marine Biological Science & Technology, College of Ocean and Earth Sciences, Xiamen University, Xiamen 361102, China.

Uncontrolled bleeding is the main cause of mortality from trauma. Collagen has been developed as an important hemostatic material due to its platelet affinity function. A bath sponge skeleton is rich in collagen, also known as spongin. To understand the hemostatic effect of spongin, spongin materials, SX, SFM and SR were prepared from the bath sponge , and hemostatic experiments were performed. The SX, SFM and SR were significantly better than the positive control, type I collagen, in shortening the whole blood clotting time in vitro and hemostasis upon rat tail amputation. In a hemostatic experiment of rabbit common carotid artery injury, the hemostatic time and 3 h survival rate of the SFM group were 3.00 ± 1.53 min and 100%, respectively, which are significantly better than those of the commercial hemostat CELOX-A (10.33 ± 1.37 min and 67%, respectively). Additionally, the SFM showed good coagulation effects in platelet-deficient blood and defibrinated blood, while also showing good biocompatibility. Through a variety of tests, we speculated that the hemostatic activity of the SFM is mainly caused by its hyperabsorbency, high affinity to platelets and high effective concentration. Overall, the SFM and spongin derivates could be potential hemostatic agents for uncontrolled bleeding and hemorrhagic diseases caused by deficiency or dysfunction of coagulation factors.
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http://dx.doi.org/10.3390/md19040220DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC8071530PMC
April 2021

Governance Capability of the Public Health System: A Comparative Analysis of the Control of COVID-19 in the Different Provinces of China.

Int J Environ Res Public Health 2021 04 15;18(8). Epub 2021 Apr 15.

School of Economics and Management, Wuhan University, Wuhan 430072, China.

At the beginning of 2020, the global outbreak of the novel coronavirus COVID-19 posed a huge challenge to the governance capabilities of public health in various countries. In this paper, the SEIR model is used to fit the number of confirmed cases in each province in China, and the reduction rate of the basic reproduction number is used to measure the actual score of the control effect of COVID-19. The potential capacity of prevention and control of epidemics, in theory, is constructed, and we use the difference between theoretical ability and actual score to measure the ability of governance of public health. We found that there were significant differences between actual effect and theoretical ability in various regions, and governance capabilities were an important reason leading to this difference, which was not consistent with the level of economic development. The balance of multiple objectives, the guiding ideology of emphasizing medical treatment over prevention, the fragmentation of the public health system, and the insufficiency of prevention and control ability in primary public health systems seriously affected the government's ability to respond to public health emergencies.
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http://dx.doi.org/10.3390/ijerph18084210DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC8071522PMC
April 2021

An Automatic Platform Based on Nanostructured Microfluidic Chip for Isolating and Identification of Circulating Tumor Cells.

Micromachines (Basel) 2021 Apr 21;12(5). Epub 2021 Apr 21.

International College of Semiconductor Technology, National Yang Ming Chiao Tung University, Hsinchu 30010, Taiwan.

Circulating tumor cell (CTC) test is currently used as a biomarker in cancer treatment. Unfortunately, the poor reproducibility and limited sensitivity with the CTC detection have limited its potential impact on clinical application. A reliable automated CTC detection system is therefore needed. We have designed an automated microfluidic chip-based CTC detection system and hypothesize this novel system can reliably detect CTC from clinical specimens. SKOV3 ovarian cancer cell line was used first to test the reliability of our system. Ten healthy volunteers, 5 patients with benign ovarian tumors, and 8 patients with epithelial ovarian cancer (EOC) were recruited to validate the CTC capturing efficacy in the peripheral blood. The capture rates for spiking test in SKOV3 cells were 48.3% and 89.6% by using anti-EpCAM antibody alone and a combination of anti-EpCAM antibody and anti-N-cadherin antibody, respectively. The system was sensitive to detection of low cell count and showed a linear relationship with the cell counts in our test range. The sensitivity and specificity were 62.5% and 100% when CTC was used as a biomarker for EOC. Our results demonstrated that this automatic CTC platform has a high capture rate and is feasible for detection of CTCs in EOC.
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http://dx.doi.org/10.3390/mi12050473DOI Listing
April 2021

A Bayesian Approach to Predict Blast-Induced Damage of High Rock Slope Using Vibration and Sonic Data.

Sensors (Basel) 2021 Apr 2;21(7). Epub 2021 Apr 2.

State Key Laboratory of Water Resources and Hydropower Engineering Science, Wuhan University, Wuhan 430072, China.

The blast-induced damage of a high rock slope is directly related to construction safety and the operation performance of the slope. Approaches currently used to measure and predict the blast-induced damage are time-consuming and costly. A Bayesian approach was proposed to predict the blast-induced damage of high rock slopes using vibration and sonic data. The relationship between the blast-induced damage and the natural frequency of the rock mass was firstly developed. Based on the developed relationship, specific procedures of the Bayesian approach were then illustrated. Finally, the proposed approach was used to predict the blast-induced damage of the rock slope at the Baihetan Hydropower Station. The results showed that the damage depth representing the blast-induced damage is proportional to the change in the natural frequency. The first step of the approach is establishing a predictive model by undertaking Bayesian linear regression, and the second step is predicting the damage depth for the next bench blasting by inputting the change rate in the natural frequency into the predictive model. Probabilities of predicted results being below corresponding observations are all above 0.85. The approach can make the best of observations and includes uncertainty in predicted results.
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http://dx.doi.org/10.3390/s21072473DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC8038205PMC
April 2021

Evaluation of Multimode Color Doppler Flow Imaging in the Diagnosis of Solid Renal Tumor.

Contrast Media Mol Imaging 2021 1;2021:6656877. Epub 2021 Apr 1.

Department of Medical Ultrasound, Pudong Gongli Hospital, Shanghai 200135, China.

Background: Renal cell carcinoma is one of the most common malignant tumors in urinary system, seriously affecting people's health and life. This study aimed to evaluate the clinical value of multi-mode color Doppler flow imaging for diagnosis of solid renal tumor.

Methods: Sixty-six renal solid tumors from 63 patients were examined by color Doppler flow imaging (CDFI), power Doppler flow imaging (PDFI), superb microvascular imaging (SMI), and contrast-enhanced ultrasound (CEUS) before surgery. The diagnostic efficacy of the four methods was compared by determining blood flow grade and ring-like blood flow with Adler's method. Chi-square test and Fisher's test were performed to compare the results of sensitivity and specificity among four methods.

Results: Statistically significant differences in blood flow grade and ring-like blood flow were observed between benign and malignant renal tumors as detected by SMI and CEUS ( < 0.05), whereas no difference was found as detected by CDFI and PDFI ( > 0.05). The results indicated that the sensitivity and specificity of SMI (82.46%, 88.89%) and CEUS (84.21%, 88.89%) were higher than those of CDFI (42.11%, 66.67%) and PDFI (47.37%, 77.78%). Compared with the abilities of CDFI and PDFI, SMI and CEUS can better display the micro-blood flow in the tumors and evaluate the blood flow grading, which indicated that SMI and CEUS may have high values in the differential diagnosis of benign and malignant solid renal tumors.

Conclusion: SMI and CEUS can improve the sensitivity and specificity of the diagnosis of benign and malignant renal tumors and have a high application value.
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http://dx.doi.org/10.1155/2021/6656877DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC8032533PMC
April 2021

Boolean logic gate based on DNA strand displacement for biosensing: current and emerging strategies.

Nanoscale Horiz 2021 04 24;6(4):298-310. Epub 2021 Mar 24.

Department of Clinical Laboratory Medicine, Southwest Hospital, Army Medical University, 30 Gaotanyan, Shapingba District, Chongqing 400038, China.

DNA computers are considered one of the most prominent next-generation molecular computers that perform Boolean logic using DNA elements. DNA-based Boolean logic gates, especially DNA strand displacement-based logic gates (SDLGs), have shown tremendous potential in biosensing since they can perform the logic analysis of multi-targets simultaneously. Moreover, SDLG biosensors generate a unique output in the form of YES/NO, which is contrary to the quantitative measurement used in common biosensors. In this review, the recent achievements of SDLG biosensing strategies are summarized. Initially, the development and mechanisms of Boolean logic gates, strand-displacement reaction, and SDLGs are introduced. Afterwards, the diversified input and output of SDLG biosensors are elaborated. Then, the state-of-the-art SDLG biosensors are reviewed in the classification of different signal-amplification methods, such as rolling circle amplification, catalytic hairpin assembly, strand-displacement amplification, DNA molecular machines, and DNAzymes. Most importantly, limitations and future trends are discussed. The technology reviewed here is a promising tool for multi-input analysis and lays a foundation for intelligent diagnostics.
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http://dx.doi.org/10.1039/d0nh00587hDOI Listing
April 2021

Size-dependent light scattering of CoOOH nanoflakes for convenient and sensitive detection of alkaline phosphatase in human serum.

Luminescence 2021 Apr 19. Epub 2021 Apr 19.

Key Laboratory of Luminescence Analysis and Molecular Sensing (Southwest University), Ministry of Education; Key Laboratory of Luminescent and Real-Time Analytical Chemistry (Southwest University), Chongqing Science and Technology Bureau; College of Pharmaceutical Sciences, Southwest University, Chongqing, P. R. China.

As a natural enzyme, alkaline phosphatase (ALP) plays an essential role in clinicopathological examinations and biomedical research, which is capable of hydrolyzing the phosphate group of L-ascorbic acid-2-phosephate (AAP) to yield L-ascorbic acid (L-AA). While L-AA could reduce cobalt oxyhydroxide (CoOOH) nanoflakes to Co , leading to a smaller size and weaker light scattering, which could be monitored by electron microscopic images and optical spectra. Hereby, the indirect detection of ALP was achieved by the reduced light scattering signal of CoOOH nanoflakes. Under the optimal conditions, the decrease in the scattering intensity was proportional to the concentration of ALP in the range of 0.1~160 U/L and the detection limit was 0.034 U/L (3σ/k). Compared with the other assays, the proposed light scattering method were more convenient and economic for ALP sensing. The method was successfully applied to ALP analysis in human serum samples, which was similar to the result obtained by the commercial kits.
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http://dx.doi.org/10.1002/bio.4059DOI Listing
April 2021

Spatiotemporal patterning of acoustic gaze in echolocating bats navigating gaps in clutter.

iScience 2021 Apr 23;24(4):102353. Epub 2021 Mar 23.

Department of Cognitive, Linguistic, & Psychological Sciences, Brown University, Providence, RI 02912, USA.

We challenged four big brown bats to maneuver through abrupt turns in narrow corridors surrounded by dense acoustic clutter. We quantified bats' performance, sonar beam focus, and sensory acquisition rate. Performance was excellent in straight corridors, with sonar beam aim deviating less than 5° from the corridor midline. Bats anticipated an upcoming abrupt turn to the right or left by slowing flight speed and shifting beam aim to "look" proactively into one side of the corridor to identify the new flightpath. All bats mastered the right turn, but two bats consistently failed the left turn. Bats increased their sensory acquisition rate when confronting abrupt turns in both successful and failed flights. Limitations on biosonar performance reflected failures to switch beam aim and to modify a learned spatial map, rather than failures to update acquisition rate.
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http://dx.doi.org/10.1016/j.isci.2021.102353DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC8047172PMC
April 2021

Correction to: Effect of chemoradiotherapy on the proportion of circulating lymphocyte subsets in patients with limited‑stage small cell lung cancer.

Cancer Immunol Immunother 2021 Apr 16. Epub 2021 Apr 16.

Zhejiang Key Laboratory of Radiation Oncology, The Cancer Hospital of the University of Chinese Academy of Sciences (Zhejiang Cancer Hospital), Institute of Basic Medicine and Cancer (IBMC), Chinese Academy of Sciences, Hangzhou, 310022, Zhejiang, China.

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http://dx.doi.org/10.1007/s00262-021-02929-0DOI Listing
April 2021

N-Cadherin Regulates the Odontogenic Differentiation of Dental Pulp Stem Cells via β-Catenin Activity.

Front Cell Dev Biol 2021 30;9:661116. Epub 2021 Mar 30.

Department of Stomatology, Nanfang Hospital, Southern Medical University, Guangzhou, China.

Dental pulp stem cell (DPSC) transplantation has shown new prospects in dental pulp regeneration, and is of great significance in the treatment of pulpitis and pulp necrosis. The fate and regenerative potential of stem cells are dependent, to a great extent, on their microenvironment, which is composed of various tissue components, cell populations, and soluble factors. N-cadherin-mediated cell-cell interaction has been implicated as an important factor in controlling the cell-fate commitment of mesenchymal stem cells. In this study, the effect of N-cadherin on odontogenic differentiation of DPSCs and the potential underlying mechanisms, both and , was investigated using a cell culture model and a subcutaneous transplantation mouse model. It was found that the expression of N-cadherin was reversely related to the expression of odontogenic markers (dentin sialophosphoprotein, DSPP, and runt-related transcription factor 2, Runx2) during the differentiation process of DPSCs. Specific shRNA-mediated knockdown of N-cadherin expression in DPSCs significantly increased the expression of DSPP and Runx2, alkaline phosphatase (ALP) activity, and the formation of mineralized nodules. Notably, N-cadherin silencing promoted nucleus translocation and accumulation of β-catenin. Inhibition of β-catenin by a specific inhibitor XAV939, reversed the facilitating effects of N-cadherin downregulation on odontogenic differentiation of DPSCs. In addition, knockdown of N-cadherin promoted the formation of odontoblast-like cells and collagenous matrix in β-tricalcium phosphate/DPSCs composites transplanted into mice. In conclusion, N-cadherin acted as a negative regulator via regulating β-catenin activity during odontogenic differentiation of DPSCs. These data may help to guide DPSC behavior by tuning the N-cadherin-mediated cell-cell interactions, with implications for pulp regeneration.
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http://dx.doi.org/10.3389/fcell.2021.661116DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC8042212PMC
March 2021

Effectiveness of Chinese herbal medicine combined with Western medicine on deferring dialysis initiation for nondialysis chronic kidney disease stage 5 patients: a multicenter prospective nonrandomized controlled study.

Ann Transl Med 2021 Mar;9(6):490

Department of Nephrology, First Affiliated Hospital of Guiyang College of Traditional Chinese Medicine, Guiyang, China.

Background: In clinical practice, Chinese herbal medicine (CHM) purportedly has beneficial therapeutic effects for chronic kidney disease (CKD), which include delaying disease progression and dialysis initiation. However, there is a lack of high-quality evidence-based results to support this. Therefore, this study aimed to evaluate the efficacy of CHM combined with Western medicine in the treatment of stage 5 CKD.

Methods: This was a prospective nonrandomized controlled study. Stage 5 CKD (nondialysis) patients were recruited form 29 AAA class hospitals across China from July 2014 to April 2019. According to doctors' advice and the patients' wishes, patients were assigned to the CHM group (Western medicine + CHM) and the non-CHM group (Western medicine). Patient demographic data, primary disease, blood pressure, Chinese and Western medical drugs, clinical test results, and time of dialysis initiation were collected during follow-up.

Results: A total of 908 patients were recruited in this study, and 814 patients were finally included for further analysis, including 747 patients in the CHM group and 67 patients in the non-CHM group. 482 patients in the CHM group and 52 patients in the non-CHM group initiated dialysis. The median time of initiating dialysis was 9 (7.90, 10.10) and 3 (0.98,5.02) months in the CHM group and non-CHM group, respectively. The multivariate Cox regression analysis showed that patients in the CHM group had a significantly lower risk of dialysis [adjusted hazard ratio (aHR): 0.38; 95% confidence interval (CI): 0.28, 0.53] compared to those in the non-CHM group. After 1:2 matching, the outcomes of 160 patients were analyzed. The multivariate Cox regression analysis showed that patients in the CHM group had a significantly lower risk of dialysis (aHR: 0.32; 95% CI: 0.21, 0.48) compared to patients in the non-CHM group. Also, the Kaplan-Meier analysis demonstrated that the cumulative incidence of dialysis in the CHM group was significantly lower than that in the non-CHM group (log-rank test, P<0.001) before and after matching.

Conclusions: This study suggest that the combination of CHM and Western medicine could effectively reduce the incidence of dialysis and delay the time of dialysis initiation in stage 5 CKD patients.
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http://dx.doi.org/10.21037/atm-21-871DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC8039672PMC
March 2021

A meta-analysis for comparison of partial nephrectomy radical nephrectomy in patients with pT3a renal cell carcinoma.

Transl Androl Urol 2021 Mar;10(3):1170-1178

Department of Urology, Binhai People's Hospital, Yancheng, China.

Background: Kidney cancer is the most common malignant tumor of the kidney in adults. However, in terms of the treatment for pT3a renal cell carcinoma (RCC), whether partial nephrectomy (PN) can be selected is still controversial. This study was conducted to compare the efficacy of PN and radical nephrectomy (RN) in treatment for patients with pT3a RCC.

Methods: The relative English databases including PubMed and EMBASE were searched for studies comparing PN and RN for pT3a RCC between 2010 and 2020. Stata 13.0 software was used to compare the cancer-specific survival (CSS), overall survival (OS), cancer-specific mortality (CSM), relapse-free survival (RFS), complications and positive surgical margin.

Results: Nine articles were included with a total of 3,391 patients, of whom 2,113 received RN and 1,278 received PN. The results showed that there is no statistical difference in CSS, OS, CSM, RFS, complications and positive surgical margin between RN and PN. No heterogeneity was shown in study.

Conclusions: There were no differences in the CSS, OS, CSM, RFS, complications and positive surgical margin of the patients in RN and PN group. For pT3a RCC, RN did not provide a better survival benefit compared to PN. Considering PN can suppress the progression of tumor and reduce the risk of postoperative chronic renal insufficiency, we found PN is a good choice for pT3a RCC. However, further large-sample, studies are still needed in future.
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http://dx.doi.org/10.21037/tau-20-1262DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC8039616PMC
March 2021

Database Resources for Functional Circular RNAs.

Methods Mol Biol 2021 ;2284:457-466

Department of Bioinformatics, The State Key Laboratory of Plant Physiology and Biochemistry, College of Life Sciences, Zhejiang University, Hangzhou, China.

Circular RNA (or circRNA) is a type of single-stranded covalently closed circular RNA molecule and play important roles in diverse biological pathways. A comprehensive functionally annotated circRNA database will help to understand the circRNAs and their functions. CircFunBase is such a web-accessible database that aims to provide a high-quality functional circRNA resource including experimentally validated and computationally predicted functions. CircFunBase provides visualized circRNA-miRNA interaction networks. In addition, a genome browser is provided to visualize the genome context of circRNA. In this chapter, we illustrate examples of searching for circRNA and getting detailed information of circRNA. Moreover, other circRNA related databases are outlined.
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http://dx.doi.org/10.1007/978-1-0716-1307-8_24DOI Listing
January 2021

Real-World Verification of Artificial Intelligence Algorithm-Assisted Auscultation of Breath Sounds in Children.

Front Pediatr 2021 23;9:627337. Epub 2021 Mar 23.

Department of Respiratory Medicine, Shanghai Children's Medical Center, Shanghai Jiao Tong University School of Medicine, Shanghai, China.

Lung auscultation plays an important role in the diagnosis of pulmonary diseases in children. The objective of this study was to evaluate the use of an artificial intelligence (AI) algorithm for the detection of breath sounds in a real clinical environment among children with pulmonary diseases. The auscultations of breath sounds were collected in the respiratory department of Shanghai Children's Medical Center (SCMC) by using an electronic stethoscope. The discrimination results for all chest locations with respect to a gold standard (GS) established by 2 experienced pediatric pulmonologists from SCMC and 6 general pediatricians were recorded. The accuracy, sensitivity, specificity, precision, and F1-score of the AI algorithm and general pediatricians with respect to the GS were evaluated. Meanwhile, the performance of the AI algorithm for different patient ages and recording locations was evaluated. A total of 112 hospitalized children with pulmonary diseases were recruited for the study from May to December 2019. A total of 672 breath sounds were collected, and 627 (93.3%) breath sounds, including 159 crackles (23.1%), 264 wheeze (38.4%), and 264 normal breath sounds (38.4%), were fully analyzed by the AI algorithm. The accuracy of the detection of adventitious breath sounds by the AI algorithm and general pediatricians with respect to the GS were 77.7% and 59.9% ( < 0.001), respectively. The sensitivity, specificity, and F1-score in the detection of crackles and wheeze from the AI algorithm were higher than those from the general pediatricians (crackles 81.1 vs. 47.8%, 94.1 vs. 77.1%, and 80.9 vs. 42.74%, respectively; wheeze 86.4 vs. 82.2%, 83.0 vs. 72.1%, and 80.9 vs. 72.5%, respectively; < 0.001). Performance varied according to the age of the patient, with patients younger than 12 months yielding the highest accuracy (81.3%, < 0.001) among the age groups. In a real clinical environment, children's breath sounds were collected and transmitted remotely by an electronic stethoscope; these breath sounds could be recognized by both pediatricians and an AI algorithm. The ability of the AI algorithm to analyze adventitious breath sounds was better than that of the general pediatricians.
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http://dx.doi.org/10.3389/fped.2021.627337DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC8023046PMC
March 2021

Formation of filamentous fungal pellets in aerobic granular sludge via reducing temperature and dissolved oxygen: Characteristics of filamentous fungi and denitrification performance.

Bioresour Technol 2021 Jul 26;332:125056. Epub 2021 Mar 26.

School of Civil Engineering, Southeast University, Nanjing 210096, China. Electronic address:

A lab-scale sequencing batch reactor (SBR) using glucose as carbon source was operated for 500 days to investigate the formation of filamentous organisms and their function on stability of AGS system. After 250 days' stable operation under conditions of 25 ± 2 °C and dissolved oxygen (DO) of 4-5 mg/L (stage I), the temperature and DO were reduced to 10 ± 2 °C and DO of 1-2 mg/L until 280 days (stage II), to induce the growth of filamentous microorganisms. After that until 500 days (stage III), overgrowth of filamentous microorganisms with relative abundances of up to 19.46%, formation of black filamentous fungal pellets, and reconstruction of AGS granules were observed in turn. The relation between settling of AGS (SVI 30-72 mL/g) and filamentous microorganisms was revealed. Filamentous pellets were purified and identified as fungal Bradymyces and Knufia, with stronger denitrification performance on nitrite than nitrate. The results indicated that filamentous fungal pellets contributed to good sludge settling performance and promoted the denitrification process in AGS.
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http://dx.doi.org/10.1016/j.biortech.2021.125056DOI Listing
July 2021

Brain circuit dysfunction in specific symptoms of depression.

Eur J Neurosci 2021 Apr 5. Epub 2021 Apr 5.

New Drug Screening Center, Jiangsu Center for Pharmacodynamics Research and Evaluation, China Pharmaceutical University, Nanjing, China.

Since the depressive disorder manifests complex and diverse symptoms clinically, its pathological mechanism and therapeutic options are difficult to determine. In recent years, the advent of optogenetics, chemogenetics and viral tracing techniques, along with the well-established rodent model of depression, has led to a shift in the focus of depression research from single molecules to neural circuits. In virtue of the powerful tools above, psychiatric disorder such as depression could be well related to the disfunction of brain's connection. Moreover, compelling studies also support that the diversity of depressive behaviour could be involved with the discrete changes in a distinct circuit of the brain. Therefore, summarising the differential changes of the neural circuits in mice with depression-like behaviour may provide a better understanding of the causal relationships between neural circuit and depressive behaviour. Here, we focus on the changes in the neural circuitry underlying various depression-like phenotypes, including motivation, despair, social avoidance and comorbid sequelae, which may provide an explanation to circuit-specific discrepancy in depression-like behaviour.
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http://dx.doi.org/10.1111/ejn.15221DOI Listing
April 2021

Genome-Wide Analysis of the RLK1-Like in Soybean and Responds to Drought and Salt Stresses.

Front Plant Sci 2021 18;12:614909. Epub 2021 Mar 18.

Institute of Crop Science, Chinese Academy of Agricultural Sciences(CAAS)/National Key Facility for Crop Gene Resources and Genetic Improvement, Key Laboratory of Biology and Genetic Improvement of Triticeae Crops, Ministry of Agriculture, Beijing, China.

Abiotic stresses, such as drought and salinity, severely affects the growth, development and productivity of the plants. The RLK1-like (CrRLK1L) protein kinase family is involved in several processes in the plant life cycle. However, there have been few studies addressing the functions of CrRLK1L proteins in soybean. In this study, 38 genes were identified in the soybean genome ( Wm82.a2.v1). Phylogenetic analysis demonstrated that soybean genes were grouped into clusters, cluster I, II, III. The chromosomal mapping demonstrated that 38 genes were located in 14 of 20 soybean chromosomes. None were discovered on chromosomes 1, 4, 6, 7, 11, and 14. Gene structure analysis indicated that 73.6% soybean genes were characterized by a lack of introns.15.7% soybean genes only had one intron and 10.5% soybean genes had more than one intron. Five genes were obtained from soybean drought- and salt-induced transcriptome databases and were found to be highly up-regulated. was notably up-regulated under drought and salinity stresses, and was therefore studied further. Subcellular localization analysis revealed that the protein was located in the cell membrane. The overexpression of the gene in soybean hairy roots improved both drought tolerance and salt stresses and enhanced the expression of the stress-responsive genes , , , , , and . These results indicated that could play a vital role in defending against drought and salinity stresses in soybean.
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http://dx.doi.org/10.3389/fpls.2021.614909DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC8012678PMC
March 2021

In silico prediction of polyethylene-aqueous and air partition coefficients of organic contaminants using linear and nonlinear approaches.

J Environ Manage 2021 Jul 31;289:112437. Epub 2021 Mar 31.

School of Civil Engineering, Southeast University, Nanjing, 210096, China.

Low-density polyethylene (LDPE) passive sampling is very attractive for use in determining chemicals concentrations. Crucial to the measurement is the coefficient (K) describing partitioning between LDPE and environmental matrices. 255, 117 and 190 compounds were collected for the development of datasets in three different matrices, i.e., water, air and seawater, respectively. Further, 3 pp-LFER models and 9 QSPR models based on classical multiple linear regression (MLR) coupled with prevalent nonlinear algorithms (artificial neural network, ANN and support vector machine, SVM) were performed to predict LDPE-water (K), LDPE-air (K) and LDPE-seawater (K) partition coefficients. These developed models have satisfying predictability (R: 0.805-0.966, 0.963-0.991 and 0.817-0.941; RMSE: 0.233-0.565, 0.200-0.406 and 0.260-0.459) and robustness (Q: 0.840-0.943, 0.968-0.984 and 0.797-0.842; RMSE: 0.308-0.514, 0.299-0.426 and 0.407-0.462) in three datasets (water, air and seawater), respectively. In particular, the reasonable mechanism interpretations revealed that the molecular size, hydrophobicity, polarizability, ionization potential, and molecular stability were the most relevant properties, for governing chemicals partitioning between LDPE and environmental matrices. The application domains (ADs) assessed here exhibited the satisfactory applicability. As such, the derived models can act as intelligent tools to predict unknown K values and fill the experimental gaps, which was further beneficial for the construction of enormous and reliable database to facilitate a distinct understanding of the distribution for organic contaminants in total environment.
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http://dx.doi.org/10.1016/j.jenvman.2021.112437DOI Listing
July 2021

Synthesis, Antifungal Activity, and 3D-QSAR Study of Novel Nopol-Derived 1,3,4-Thiadiazole-Thiourea Compounds.

Molecules 2021 Mar 18;26(6). Epub 2021 Mar 18.

School of Chemistry and Chemical Engineering, Guangxi University, Nanning 530004, China.

A series of novel nopol derivatives bearing the 1,3,4-thiadiazole-thiourea moiety were designed and synthesized by multi-step reactions in search of potent natural product-based antifungal agents. Their structures were confirmed by FT-IR, NMR, ESI-MS, and elemental analysis. Antifungal activity of the target compounds was preliminarily evaluated by in vitro methods against f. sp. , , , , , , , and at 50 µg/mL. All the target compounds exhibited better antifungal activity against , , and . Compound (R = , -Cl Ph) showed the best broad-spectrum antifungal activity against all the tested fungi. Compounds (R = -Me Ph), (R = -Pr), and (R = -Cl Ph) had inhibition rates of 86.1%, 86.1%, and 80.2%, respectively, against , much better than that of the positive control chlorothalonil. Moreover, compounds (R = -Cl Ph) and (R = -CF Ph) held inhibition rates of 80.6% and 79.0% against and , respectively, much better than that of the commercial fungicide chlorothalonil. In order to design more effective antifungal compounds against , analysis of the three-dimensional quantitative structure-activity relationship (3D-QSAR) was carried out using the CoMFA method, and a reasonable and effective 3D-QSAR model ( = 0.992, = 0.753) has been established. Furthermore, some intriguing structure-activity relationships were found and are discussed by theoretical calculation.
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http://dx.doi.org/10.3390/molecules26061708DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC8003325PMC
March 2021

A virus-derived siRNA activates plant immunity by interfering with ROS scavenging.

Mol Plant 2021 Mar 30. Epub 2021 Mar 30.

State Key Laboratory for Managing Biotic and Chemical Threats to the Quality and Safety of Agroproducts, Key Laboratory of Biotechnology in Plant Protection of MOA of China and Institute of Plant Virology, Ningbo University, Ningbo 315211, China. Electronic address:

Virus-derived small interference RNAs (vsiRNAs) not only suppress virus infection in plants via induction of RNA silencing but also enhance virus infection by regulating host defensive gene expression. However, the underlying mechanisms that control vsiRNA-mediated host immunity or susceptibility remain largely unknown. In this study, we generated several transgenic wheat lines using four artificial microRNA expression vectors carrying vsiRNAs from Wheat yellow mosaic virus (WYMV) RNA1. Laboratory and field tests showed that two transgenic wheat lines expressing amiRNA1 were highly resistant to WYMV infection. Further analyses showed that vsiRNA1 could modulate the expression of a wheat thioredoxin-like gene (TaAAED1), which encodes a negative regulator of reactive oxygen species (ROS) production in the chloroplast. The function of TaAAED1 in ROS scavenging could be suppressed by vsiRNA1 in a dose-dependent manner. Furthermore, transgenic expression of amiRNA1 in wheat resulted in broad-spectrum disease resistance to Chinese wheat mosaic virus, Barley stripe mosaic virus, and Puccinia striiformis f. sp. tritici infection, suggesting that vsiRNA1 is involved in wheat immunity via ROS signaling. Collectively, these findings reveal a previously unidentified mechanism underlying the arms race between viruses and plants.
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http://dx.doi.org/10.1016/j.molp.2021.03.022DOI Listing
March 2021

The mA Reader YTHDF1 Facilitates the Tumorigenesis and Metastasis of Gastric Cancer via USP14 Translation in an mA-Dependent Manner.

Front Cell Dev Biol 2021 15;9:647702. Epub 2021 Mar 15.

Department of Gastroenterology, Shanghai Jiao Tong University Affiliated Sixth People's Hospital, Shanghai, China.

Objectives: N-methyladenosine (mA) RNA methylation is implicated in the progression of multiple cancers via influencing mRNA modification. YTHDF1 can act as an oncogene in gastric cancer (GC), while the biological mechanisms via which YTHDF1 regulates gastric tumorigenesis through mA modification remain largely unknown.

Methods: GEO and TCGA cohorts were analyzed for differentially expressed mA modification components in GC clinical specimens and their association with clinical prognosis. Transwell and flow cytometry assays as well as subcutaneous xenograft and lung metastasis models were used to evaluate the phenotype of YTHDF1 in GC. Intersection of RNA/MeRIP-seq, luciferase assay, RIP-PCR, RNA pull-down and MeRIP-PCR was used to identify YTHDF1- modified USP14 and its mA levels in GC cells.

Results: High-expressed YTHDF1 was found in GC tissues and was related to poor prognosis, acting as an independent prognostic factor of poor survival in GC patients. YTHDF1 deficiency inhibited cell proliferation and invasion (), and gastric tumorigenesis and lung metastasis () and also induced cell apoptosis. Intersection assays revealed that YTHDF1 promoted USP14 protein translation in an mA-dependent manner. USP14 upregulation was positively correlated with YTHDF1 expression and indicated a poor prognosis in GC.

Conclusion: Our data suggested that mA reader YTHDF1 facilitated tumorigenesis and metastasis of GC by promoting USP14 protein translation in an mA-dependent manner and might provide a potential target for GC treatment.
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http://dx.doi.org/10.3389/fcell.2021.647702DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC8006284PMC
March 2021

Comparative research on selective adsorption of Pb(II) by biosorbents prepared by two kinds of modifying waste biomass: Highly-efficient performance, application and mechanism.

J Environ Manage 2021 Jun 26;288:112388. Epub 2021 Mar 26.

College of Environmental Science and Engineering, Hunan University and Key Laboratory of Environmental Biology and Pollution Control (Hunan University), Ministry of Education, Changsha, 410082, PR China.

In this study, we used xanthate to modify two waste biomass materials (corn cob and chestnut shell) and prepared them as biosorbents in one step for effectively removing Pb(II) from aqueous solutions containing only Pb(II) or Pb(II), Cu(II) and Cd(II). The two biosorbents were characterized by SEM, EDS, FTIR and Zeta potential analysis, and the results of the characterization were used to explore the adsorption mechanism of Pb(II) on biosorbents. We compare the Pb(II) removal ability of the two biosorbents and the investigated factors that affect Pb(II) removal. The results show that the adsorption capacity of xanthate modified corn cob (X-CC) and xanthate modified chestnut shell (X-CS) for Pb(II) is related to pH, reaction time, temperature and initial concentrations of both adsorbent and adsorbate. The adsorption of Pb(II) on X-CC and X-CS follows Langmuir isotherm equation and quasi-secondary kinetic equation, and their fitted q values are 166.39 and 124.84 mg g, respectively. The analysis shows that the biosorbent has high selectivity to Pb(II) rather than Cu(II) and Cd(II), and still maintains a high removal rate of Pb(II) in actual wastewater. The biosorbents remove metal ions mainly through ion exchange reaction and the functional group in the material complexes with the metal to form micro-precipitation. The high adsorption capacity in aqueous solution and low costs in the manufacturing process of the present biosorbents ensure that they have great potential in practical applications for treating heavy-metal contaminated surface water.
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http://dx.doi.org/10.1016/j.jenvman.2021.112388DOI Listing
June 2021