Publications by authors named "Yangyang Li"

313 Publications

USP4 is pathogenic in allergic airway inflammation by inhibiting regulatory T cell response.

Life Sci 2021 Jun 15:119720. Epub 2021 Jun 15.

Department of Pulmonary and Critical Care Medicine, Rui Jin Hospital, Shanghai Jiao Tong University School of Medicine, Shanghai, China; Institute of Respiratory Disease, Shanghai Jiao Tong University School of Medicine, Shanghai, China. Electronic address:

Aims: Asthma is characterized by chronic inflammation and airway hyperresponsiveness (AHR). It is controllable, but not curable. Ubiquitin-specific peptidase 4 (USP4) has been verified as a regulator of regulatory T (Treg) cells and Th17 cells in vitro. In this study, we aim to investigate whether USP4 could serve as a therapeutic target for asthma.

Main Methods: Age-matched USP4 wild-type and knockout mice received an intraperitoneal injection of 100 μg ovalbumin (OVA) mixed in 2 mg aluminum hydroxide in 1 × PBS on days 0, 7 and 14. On days 21 to 27, the mice were challenged with aerosolized 1% OVA in 1 × PBS for 30 mins. Tissue histology, ELISA and flow cytometry were applied 24 h after the last OVA challenge.

Key Findings: USP4 deficiency protected mice from OVA-induced AHR and decreased the production of several inflammatory cytokines in T cells in vivo. Compared to the lung cells isolated from WT mice, Usp4 lung cells decreased secretion of IL-4, IL-13 and IL-17A upon stimulation in vitro. Meanwhile, the percentage of CD4Foxp3 Treg cells was elevated, with more CCR6Foxp3 Treg cells accumulating in the lungs of OVA-challenged USP4 deficient mice than in their wild-type counterparts. Treatment with the USP4 inhibitor, Vialinin A, reduced inflammatory cell infiltration in the lungs of OVA-challenged mice in vivo.

Significance: We found USP4 deficiency contributes to attenuated airway inflammation and AHR in allergen-induced murine asthma, and Vialinin A treatment alleviates asthma pathogenesis and may serve as a promising therapeutic target for asthma.
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http://dx.doi.org/10.1016/j.lfs.2021.119720DOI Listing
June 2021

Targeted Drug Delivery Systems for Kidney Diseases.

Front Bioeng Biotechnol 2021 28;9:683247. Epub 2021 May 28.

Department of Nephrology, The Fourth Affiliated Hospital, Institute of Translational Medicine, Zhejiang University School of Medicine, Jinhua, China.

Kidney diseases have gradually become a global health burden. Along with the development of nanotechnology, many hybrids or nanomaterials have been utilized to promote treatment efficiency with negligible side effects. These therapeutic agents have been successfully applied in many fields. In particular, some efforts have also been made to ameliorate the treatment of kidney diseases through targeted delivery nanomaterials. Though most of the delivery systems have not yet been transmitted into clinical use or even still at an early stage, they have shown great potential in carrying immunosuppressants like tacrolimus and triptolide, antioxidants, or siRNAs. Excitingly, some of them have achieved significant treatment effectiveness and reduced systemic side effect in kidney disease animal models. Here, we have reviewed the recent advances and presented nanotherapeutic devices designed for kidney targeted delivery.
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http://dx.doi.org/10.3389/fbioe.2021.683247DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC8193852PMC
May 2021

Corrigendum to 'Endometrial membrane organoids from human embryonic stem cell combined with the 3D Matrigel for endometrium regeneration in asherman syndrome' [Bioactive Mater. 6 (2021) 3935-3946].

Bioact Mater 2021 Dec 15;6(12):4591. Epub 2021 May 15.

Key Laboratory of Women's Reproductive Health Research of Zhejiang Province, Women's Hospital, Zhejiang University School of Medicine, Hangzhou City, Zhejiang Province, 310006, China.

[This corrects the article DOI: 10.1016/j.bioactmat.2021.04.006.].
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http://dx.doi.org/10.1016/j.bioactmat.2021.04.035DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC8141502PMC
December 2021

Nickel-catalyzed migratory alkyl-alkyl cross-coupling reaction.

Chem Sci 2020 Sep 9;11(38):10461-10464. Epub 2020 Sep 9.

The Institute for Advanced Studies, Wuhan University Wuhan 430072 China

The selective cross-coupling of activated electrophiles with unactivated ones has been regarded as a challenging task in cross-electrophile couplings. Herein we describe a migratory cross-coupling strategy, which can overcome this obstacle to access the desired cross-coupling products. Accordingly, a selective migratory cross-coupling of two alkyl electrophiles has been accomplished by nickel catalysis. Remarkably, this alkyl-alkyl cross-coupling reaction provides a platform to prepare 2°-2° carbon-carbon bonds from 1° and 2° carbon coupling partners. Preliminary mechanistic studies suggest that chain-walking occurs at both alkyl halides in this reaction, thus a catalytic cycle with the key step involving two alkylnickel(ii) species is proposed for this transformation.
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http://dx.doi.org/10.1039/d0sc03217dDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC8162388PMC
September 2020

Circ-MFN2 Positively Regulates the Proliferation, Metastasis, and Radioresistance of Colorectal Cancer by Regulating the miR-574-3p/IGF1R Signaling Axis.

Front Genet 2021 19;12:671337. Epub 2021 May 19.

Department of General Surgery, The Fourth Affiliated Hospital of Anhui Medical University, Hefei, China.

Numerous studies have shown that the expression of circular RNA (circRNA) is closely related to the malignant progression of cancer. However, the role of circ-MFN2 in colorectal cancer (CRC) is unclear. Our study aims to explore the role and mechanism of circ-MFN2 in CRC progression. The relative expression levels of circ-MFN2, microRNA (miR)-574-3p and insulin-like growth factor 1 receptor (IGF1R) were detected by quantitative real-time polymerase chain reaction (qRT-PCR). Cell viability was determined using 3-(4, 5-dimethyl-2 thiazolyl)-2, 5-diphenyl-2-H-tetrazolium bromide (MTT) assay. The colony number and radioresistance of cells were assessed using colony formation assay. Moreover, the migration and invasion of cells were measured using transwell assay. Tumor xenograft model was constructed to evaluate the effect of circ-MFN2 knockdown on CRC tumor growth. Furthermore, dual-luciferase reporter assay was used to verify the interaction between miR-574-3p and circ-MFN2 or IGF1R. In addition, the protein level of IGF1R was evaluated by western blot (WB) analysis. Circ-MFN2 expression was elevated in CRC tissues and cells. Knockdown of circ-MFN2 restrained the proliferation, migration, invasion, and radioresistance of CRC cells . Furthermore, silenced circ-MFN2 also reduced the tumor volume and weight of CRC . MiR-574-3p could be sponged by circ-MFN2, and its inhibitor reversed the suppression effect of circ-MFN2 silencing on CRC progression. Moreover, IGF1R was a target of miR-574-3p, and its overexpression reversed the inhibition effect of miR-574-3p mimic on CRC progression. In addition, circ-MFN2 could positively regulate IGF1R expression by sponging miR-574-3p. Our results revealed that circ-MFN2 promoted the proliferation, metastasis and radioresistance of CRC through regulating the miR-574-3p/IGF1R axis, suggesting that circ-MFN2 might be a novel therapeutic biomarker for CRC.
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http://dx.doi.org/10.3389/fgene.2021.671337DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC8170135PMC
May 2021

Soil bacterial community dynamics following bioaugmentation with Paenarthrobacter sp. W11 in atrazine-contaminated soil.

Chemosphere 2021 May 28;282:130976. Epub 2021 May 28.

Institute of Agricultural Resources and Environment, Jilin Academy of Agricultural Sciences, 1363 Shengtai Street, Changchun, 130033, China. Electronic address:

Atrazine is one of the most widely used herbicides, however it and its metabolites cause widespread contamination in soil and ground water. Bioaugmentation is an effective method for remediation of environmental organic pollutants. High-throughput sequencing provides an important tool for understanding the changes of microbial community and function in response to pollutants degradation based on bioaugmentation. In this study, the effect of biodegradation with Paenarthrobacter sp. W11 and the change of microbial community during atrazine degradation were investigated. The results showed that bioaugmentation significantly accelerated the degradation rate of atrazine in soil and reduced the toxic effect of atrazine residues on wheat growth. The extra available NH through atrazine mineralization could serve as a nitrogen source to increase microbial numbers. High-throughput sequencing further revealed that the microbial community restored a new balance. The function of microbial community predicted by PICRUSt2 suggested that the biodegradation process of atrazine affected not only the atrazine degradation pathway, but also the nitrogen metabolism pathway. Methylobacillus and Pseudomonas were considered as the most important indigenous atrazine-degrading microorganisms, because their relative abundances were positively correlated with the relative abundance of Paenarthrobacter and atrazine degradation pathway. This study provides insight into the cooperation between indigenous microorganisms and external inoculums on atrazine degradation process.
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http://dx.doi.org/10.1016/j.chemosphere.2021.130976DOI Listing
May 2021

Decidual NR2F2-Expressing CD4 T Cells Promote TH2 Transcriptional Program During Early Pregnancy.

Front Immunol 2021 18;12:670777. Epub 2021 May 18.

Laboratory for Reproductive Immunology, NHC Key Lab of Reproduction Regulation (Shanghai Institute of Planned Parenthood Research), Shanghai Key Laboratory of Female Reproductive Endocrine Related Diseases, Hospital of Obstetrics and Gynecology, Fudan University Shanghai Medical College, Shanghai, China.

A unique immunotolerant microenvironment with Th2 bias in the decidua provides an essential security for successful pregnancy. The disorganized maternal-fetal immune tolerance contributes to more than 50% of unexplained recurrent spontaneous abortion (RSA). How the Th2 bias is developed at the maternal-fetal interface remains undefined. NR2F2, a member of steroid/thyroid nuclear receptor superfamily, is endowed with diverse importance in cell-fate specification, organogenesis, angiogenesis, and metabolism. Here, we showed that NR2F2 was absolutely highly expressed in decidual CD4T(dCD4T) cells, but not in peripheral circulating CD4T cells during early pregnancy. Decidual NR2F2-expressing CD4T cells dominantly produced Th2 cytokines. In unexplained RSA patients, NR2F2 expression in dCD4T cells was significantly decreased, accompanied with disordered phenotype of dCD4T cells. Furthermore, overexpression of NR2F2 promoted the Th2 differentiation of naive CD4T cells. Immunoprecipitation experiment confirmed the binding relationship between GATA-3 and NR2F2, which implied GATA-3 may be an important interactive element involved in the immunoregulatory process of NR2F2. This study is the first to reveal a previously unappreciated role for NR2F2-mediated dCD4T cells in maternal-fetal immune tolerance and maintenance of normal pregnancy, in the hope of providing a potential biomarker for prediction and prevention of clinical unexplained RSA.
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http://dx.doi.org/10.3389/fimmu.2021.670777DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC8168462PMC
May 2021

Investigation on GeSi-Selective Atomic Layer Wet-Etching of Ge for Vertical Gate-All-Around Nanodevice.

Nanomaterials (Basel) 2021 May 26;11(6). Epub 2021 May 26.

Key Laboratory of Microelectronics Devices & Integrated Technology, Institute of Microelectronics, Chinese Academy of Sciences, Beijing 100029, China.

For the formation of nano-scale Ge channels in vertical Gate-all-around field-effect transistors (vGAAFETs), the selective isotropic etching of Ge selective to GeSi was considered. In this work, a dual-selective atomic layer etching (ALE), including GeSi-selective etching of Ge and crystal-orientation selectivity of Ge oxidation, has been developed to control the etch rate and the size of the Ge nanowires. The ALE of Ge in p-GeSi/Ge stacks with 70% HNO as oxidizer and deionized (DI) water as oxide-removal was investigated in detail. The saturated relative etched amount per cycle (REPC) and selectivity at different HNO temperatures between Ge and p-GeSi were obtained. In p-GeSi/Ge stacks with (110) sidewalls, the REPC of Ge was 3.1 nm and the saturated etching selectivity was 6.5 at HNO temperature of 20 °C. The etch rate and the selectivity were affected by HNO temperatures. As the HNO temperature decreased to 10 °C, the REPC of Ge was decreased to 2 nm and the selectivity remained at about 7.4. Finally, the application of ALE in the formation of Ge nanowires in vGAAFETs was demonstrated where the preliminary I-V output characteristic curves of Ge vGAAFET were provided.
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http://dx.doi.org/10.3390/nano11061408DOI Listing
May 2021

The Effect of Doping on the Digital Etching of Silicon-Selective Silicon-Germanium Using Nitric Acids.

Nanomaterials (Basel) 2021 May 3;11(5). Epub 2021 May 3.

Key Laboratory of Microelectronics Devices & Integrated Technology, Institute of Microelectronics, Chinese Academy of Sciences, Beijing 100029, China.

Gate-all-around (GAA) field-effect transistors have been proposed as one of the most important developments for CMOS logic devices at the 3 nm technology node and beyond. Isotropic etching of silicon-germanium (SiGe) for the definition of nano-scale channels in vertical GAA CMOS and tunneling FETs has attracted more and more attention. In this work, the effect of doping on the digital etching of Si-selective SiGe with alternative nitric acids (HNO) and buffered oxide etching (BOE) was investigated in detail. It was found that the HNO digital etching of SiGe was selective to n-Si, p-Si, and intrinsic Si. Extensive studies were performed. It turned out that the selectivity of SiGe/Si was dependent on the doped types of silicon and the HNO concentration. As a result, at 31.5% HNO concentration, the relative etched amount per cycle (REPC) and the etching selectivity of SiGe for n-Si was identical to that for p-Si. This is particularly important for applications of vertical GAA CMOS and tunneling FETs, which have to expose both the n and p sources/drains at the same time. In addition, the values of the REPC and selectivity were obtained. A controllable etching rate and atomically smooth surface could be achieved, which enhanced carrier mobility.
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http://dx.doi.org/10.3390/nano11051209DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC8147633PMC
May 2021

First Demonstration of Novel Vertical Gate-All-Around Field-Effect-Transistors Featured by Self-Aligned and Replaced High-κ Metal Gates.

Nano Lett 2021 Jun 26;21(11):4730-4737. Epub 2021 May 26.

Key Laboratory of Microelectronics Devices & Integrated Technology, Institute of Microelectronics, Chinese Academy of Sciences, Beijing 100029, China.

A novel n-type nanowire/nanosheet (NW/NS) vertical sandwich gate-all-around field-effect-transistor (nVSAFET) with self-aligned and replaced high-κ metal gates (HKMGs) is presented for the first time, aiming at a 3 nm technology node and beyond. The nVSAFETs were fabricated by an integration flow of Si/SiGe epitaxy, quasi-atomic layer etching (qALE) of SiGe selective to Si, formation of SiGe/Si core/shell NS/NW structure, building of nitride dummy gate, and replacement of the dummy gate. This fabrication method is complementary metal oxide semiconductor (CMOS)-compatible, simple, and reproducible, and NWs with a diameter of 17 nm and NSs with a thickness of 20 nm were obtained. Excellent control of short-channel-effects was presented. The device performance was also investigated and discussed. The proposed integration scheme has great potential for applications in chip manufacturing, especially with vertical channel devices.
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http://dx.doi.org/10.1021/acs.nanolett.1c01033DOI Listing
June 2021

Correlated Magnetic Weyl Semimetal State in Strained Pr Ir O.

Adv Mater 2021 May 14:e2008528. Epub 2021 May 14.

Center for Correlated Electron Systems, Institute for Basic Science (IBS), Seoul, 08826, Republic of Korea.

Correlated topological phases (CTPs) with interplay between topology and electronic correlations have attracted tremendous interest in condensed matter physics. Therein, correlated Weyl semimetals (WSMs) are rare in nature and, thus, have so far been less investigated experimentally. In particular, the experimental realization of the interacting WSM state with logarithmic Fermi velocity renormalization has not been achieved yet. Here, experimental evidence of a correlated magnetic WSM state with logarithmic renormalization in strained pyrochlore iridate Pr Ir O (PIO) which is a paramagnetic Luttinger semimetal in bulk, is reported. Benefitting from epitaxial strain, "bulk-absent" all-in-all-out antiferromagnetic ordering can be stabilized in PIO film, which breaks time-reversal symmetry and leads to a magnetic WSM state. With further analysis of the experimental data and renormalization group calculations, an interacting Weyl liquid state with logarithmically renormalized Fermi velocity, similar to that in graphene, is found, dressed by long-range Coulomb interactions. This work highlights the interplay of strain, magnetism, and topology with electronic correlations, and paves the way for strain-engineering of CTPs in pyrochlore iridates.
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http://dx.doi.org/10.1002/adma.202008528DOI Listing
May 2021

Long non‑coding RNA NEAT1 regulates glioma cell proliferation and apoptosis by competitively binding to microRNA‑324‑5p and upregulating KCTD20 expression.

Oncol Rep 2021 Jul 13;46(1). Epub 2021 May 13.

Department of Neurosurgery, Xijing Hospital, Fourth Military Medical University, Xi'an, Shaanxi 710032, P.R. China.

Previous studies have demonstrated that long non‑coding RNAs (lncRNAs) serve a key role in the development and progression of several types of cancer, including glioma. The lncRNA nuclear paraspeckle assembly transcript 1 (NEAT1) contributes to cancer growth through its effects on cell proliferation, migration, invasion and drug resistance. However, the exact regulatory mechanisms via which NEAT1 acts in glioma are unclear. In the present study, the expression levels and function of NEAT1 in glioma tissues and cell lines were examined and . By reverse transcription‑quantitative PCR and fluorescence hybridization analysis, NEAT1 expression was upregulated in glioma tissues compared with in adjacent normal brain tissues, and elevated NEAT1 levels were associated with poor prognosis. Cell Counting Kit‑8, colony formation, ethynyldeoxyuridine, flow cytometry and western blotting assays were performed to detect the effects of NEAT1 on cell biological behavior. Knockdown of NEAT1 in glioma cell lines was associated with cell cycle arrest at the G/G phase, decreased proliferation and elevated apoptosis , and resulted in reduced tumor growth and increased survival in a mouse xenograft model of glioma. Using bioinformatics analysis, RNA immunoprecipitation experiments and luciferase reporter assays, it was demonstrated that NEAT1 may competitively bind to microRNA (miR)‑324‑5p, thus blocking its interaction with target mRNAs. Potassium channel tetramerization protein domain containing 20 (KCTD20) was identified as a specific miR‑324‑5p target. Accordingly, the inhibition of NEAT1 resulted in the downregulation of KCTD20 through competitive binding with miR‑324‑5p, decreased cell proliferation and increased apoptosis. Concomitant NEAT1 knockdown and inhibition of miR‑324‑5p partially reversed the effects of NEAT1 knockdown on cell proliferation and apoptosis, and further regulated KCTD20 expression. Collectively, the present findings demonstrated that NEAT1 acted as a competing endogenous RNA for miR‑324‑5p, and identified the NEAT1/miR‑324‑5p/KCTD20 axis as a novel regulatory axis and a potential therapeutic target for human glioma.
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http://dx.doi.org/10.3892/or.2021.8076DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC8129970PMC
July 2021

Genetic Variants Increase Susceptibility to Diabetic Kidney Disease in Chinese Patients with Type 2 Diabetes: A Cross-Sectional Case Control Study.

Mediators Inflamm 2021 17;2021:5521050. Epub 2021 Apr 17.

Shanghai Diabetes Institute, Shanghai Key Laboratory of Diabetes Mellitus, Shanghai Clinical Centre for Diabetes, Shanghai Jiao Tong University Affiliated Sixth People's Hospital, Shanghai, China.

Few studies have illuminated the genetic role of T cell costimulatory molecule variants in diabetic kidney disease (DKD) susceptibility. We aimed to investigate the causal role of genetic polymorphisms in with DKD susceptibility in patients with T2DM. A total of 3253 patients with T2DM were recruited for genotyping: including 204 DKD patients and 371 controls in stage 1 and 819 DKD patients and 563 controls in stage 2; besides, 1296 T2DM patients were selected for the analysis of association between loci and DKD-related traits. A subset of 227 T2DM patients (118 patients with DKD and 109 patients without DKD) from the total population above were selected to assess serum soluble CD28 (sCD28) levels. Then, we performed a candidate gene association study to identify single-nucleotide polymorphisms (SNPs) associated with DKD susceptibility and further used those SNPs to perform Mendelian randomization analyses of serum sCD28 level and DKD susceptibility. Under additive genetic models, -rs3116494 (OR = 1.29 [95% CI 1.11, 1.51], = 0.0011) and -rs3850890 (OR = 1.16 [95% CI 1.02, 1.31], = 0.0283) were associated with DKD susceptibility adjusted for age, gender, body mass index (BMI), duration of diabetes, and HbA1c. -rs3116494 was associated with serum sCD28 level ( = 0.26 [95% CI 0.08, 0.44], = 0.0043). The Mendelian randomization analysis showed that -rs3116494 played a causal role in DKD by influencing serum sCD28 levels ( = 1.15 [95% CI 0.46, 1.83], = 0.0010). In conclusion, we identified that two novel SNPs, -rs3116494 and -rs3850890, were associated with DKD susceptibility. Using the Mendelian randomization analysis, our study provided evidence for a causal relationship between serum CD28 levels and DKD with T2DM in the Chinese population.
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http://dx.doi.org/10.1155/2021/5521050DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC8075672PMC
April 2021

Corrigendum to "The Antiosteoporosis Effects of Yishen Bugu Ye Based on Its Regulation on the Differentiation of Osteoblast and Osteoclast".

Biomed Res Int 2021 12;2021:9824165. Epub 2021 Apr 12.

Department of Orthodontics, School and Hospital of Stomatology, Jilin University, Changchun 130021, China.

[This corrects the article DOI: 10.1155/2020/9467683.].
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http://dx.doi.org/10.1155/2021/9824165DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC8068548PMC
April 2021

Endometrial membrane organoids from human embryonic stem cell combined with the 3D Matrigel for endometrium regeneration in asherman syndrome.

Bioact Mater 2021 Nov 16;6(11):3935-3946. Epub 2021 Apr 16.

Key Laboratory of Women's Reproductive Health Research of Zhejiang Province, Women's Hospital, Zhejiang University School of Medicine, Hangzhou City, Zhejiang Province, 310006, China.

Asherman's syndrome (AS), a leading cause of uterine infertility worldwide, is characterized by scarring of the uterine surfaces lacking endometrial epithelial cells, which prevents endometrial regeneration. Current research on cell therapy for AS focuses on mesenchymal and adult stem cells from the endometrium. However, insufficient number, lack of purity, and rapid senescence of endometrial epithelial progenitor cells (EEPCs) during experimental processes restrict their use in cell therapies. In this study, we induced human embryonic stem cells-9 (H9-ESC) into EEPCs by optimizing the induction factors from the definitive endoderm. EEPCs, which act as endometrial epithelial cells, accompanied by human endometrial stromal cells provide a niche environment for the development of endometrial membrane organoids (EMOs) in an 3D culture model. To investigate the function of EMOs, we transplanted tissue-engineered constructs with EMOs into an rat AS model. The implantation of EMOs into the damaged endometrium facilitates endometrial regeneration and angiogenesis. Implanting EMOs developed from human embryonic stem cells into the endometrium might prove useful for "endometrial re-engineering" in the treatment of Asherman's syndrome.
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http://dx.doi.org/10.1016/j.bioactmat.2021.04.006DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC8079828PMC
November 2021

Three-in-One Simultaneous Extraction of Proteins, Metabolites and Lipids for Multi-Omics.

Front Genet 2021 15;12:635971. Epub 2021 Apr 15.

Department of Biology, University of Florida, Gainesville, FL, United States.

Elucidation of complex molecular networks requires integrative analysis of molecular features and changes at different levels of information flow and regulation. Accordingly, high throughput functional genomics tools such as transcriptomics, proteomics, metabolomics, and lipidomics have emerged to provide system-wide investigations. Unfortunately, analysis of different types of biomolecules requires specific sample extraction procedures in combination with specific analytical instrumentation. The most efficient extraction protocols often only cover a restricted type of biomolecules due to their different physicochemical properties. Therefore, several sets/aliquots of samples are needed for extracting different molecules. Here we adapted a biphasic fractionation method to extract proteins, metabolites, and lipids from the same sample (3-in-1) for liquid chromatography-tandem mass spectrometry (LC-MS/MS) multi-omics. To demonstrate utility of the improved method, we used bacteria-primed leaves to generate multi-omics datasets from the same sample. In total, we were able to analyze 1849 proteins, 1967 metabolites, and 424 lipid species in single samples. The molecules cover a wide range of biological and molecular processes, and allow quantitative analyses of different molecules and pathways. Our results have shown the clear advantages of the multi-omics method, including sample conservation, high reproducibility, and tight correlation between different types of biomolecules.
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http://dx.doi.org/10.3389/fgene.2021.635971DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC8082496PMC
April 2021

MondoA-Thioredoxin-Interacting Protein Axis Maintains Regulatory T-Cell Identity and Function in Colorectal Cancer Microenvironment.

Gastroenterology 2021 Apr 24. Epub 2021 Apr 24.

Department of Biochemistry and Molecular Cell Biology, Shanghai Key Laboratory for Tumor Microenvironment and Inflammation, Key Laboratory of Cell Differentiation and Apoptosis of Chinese Ministry of Education, Shanghai Jiao Tong University School of Medicine, Shanghai, China. Electronic address:

Background & Aims: The metabolic features and function of intratumoral regulatory T cells (Tregs) are ambiguous in colorectal cancer. Tumor-infiltrating Tregs are reprogrammed to exhibit high glucose-depleting properties and adapt to the glucose-restricted microenvironment. The glucose-responsive transcription factor MondoA is highly expressed in Tregs. However, the role of MondoA in colorectal cancer-infiltrating Tregs in response to glucose limitation remains to be elucidated.

Methods: We performed studies using mice, in which MondoA was conditionally deleted in Tregs, and human colorectal cancer tissues. Seahorse and other metabolic assays were used to assess Treg metabolism. To study the role of Tregs in antitumor immunity, we used a subcutaneous MC38 colorectal cancer model and induced colitis-associated colorectal cancer in mice by azoxymethane and dextran sodium sulfate.

Results: Our analysis of single-cell RNA sequencing data of patients with colorectal cancer revealed that intratumoral Tregs featured low activity of the MondoA-thioredoxin-interacting protein (TXNIP) axis and increased glucose uptake. Although MondoA-deficient Tregs were less immune suppressive and selectively promoted T-helper (Th) cell type 1 (Th1) responses in a subcutaneous MC38 tumor model, Treg-specific MondoA knockout mice were more susceptible to azoxymethane-DSS-induced colorectal cancer. Mechanistically, suppression of the MondoA-TXNIP axis promoted glucose uptake and glycolysis, induced hyperglycolytic Th17-like Tregs, which facilitated Th17 inflammation, promoted interleukin 17A-induced of CD8 T-cell exhaustion, and drove colorectal carcinogenesis. Blockade of interleukin 17A reduced tumor progression and minimized the susceptibility of MondoA-deficient mice to colorectal carcinogenesis.

Conclusions: The MondoA-TXNIP axis is a critical metabolic regulator of Treg identity and function in the colorectal cancer microenvironment and a promising target for cancer therapy.
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http://dx.doi.org/10.1053/j.gastro.2021.04.041DOI Listing
April 2021

Ultrasmall Ga-ICG nanoparticles based gallium ion/photodynamic synergistic therapy to eradicate biofilms and against drug-resistant bacterial liver abscess.

Bioact Mater 2021 Nov 10;6(11):3812-3823. Epub 2021 Apr 10.

Eye Center, The Second Affiliated Hospital, Zhejiang University School of Medicine, Hangzhou, 310009, China.

Pyogenic liver abscess and keratitis are aggressive bacterial infections and the treatment has failed to eradicate bacteria in infectious sites completely owing to the currently severe drug resistance to existing antibiotics. Here, we report a simple and efficient one-step development of ultrasmall non-antibiotic nanoparticles (ICG-Ga NPs) containing clinically approved gallium (III) (Ga) and liver targeting indocyanine green (ICG) molecules to eradicate multi-drug resistant (MDR) bacteria thought the synergetic effect of photodynamic therapy and iron metabolism blocking. The ICG-Ga NPs induced photodynamic effect could destroy the bacterial membrane, further boost the endocytosis of Ga, then replace iron in bacteria cells to disrupt bacterial iron metabolism, and demonstrate the synergetic bacterial killing and biofilm disrupting effects. The ICG-Ga NPs show an excellent therapeutic effect against extended spectrum β-lactamases (ESBL ) and significantly improve treatment outcomes in infected liver abscess and keratitis. Meanwhile, the ultrasmall size of ICG-Ga NPs could be cleared rapid via renal clearance route, guaranteeing the biocompatibility. The protective effect and good biocompatibility of ICG-Ga NPs will facilitate clinical treatment of bacteria infected diseases and enable the development of next-generation non-antibiotic antibacterial agents.
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http://dx.doi.org/10.1016/j.bioactmat.2021.03.032DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC8044328PMC
November 2021

3D-printed cell-free PCL-MECM scaffold with biomimetic micro-structure and micro-environment to enhance in situ meniscus regeneration.

Bioact Mater 2021 Oct 27;6(10):3620-3633. Epub 2021 Mar 27.

Institute of Orthopedics, The First Medical Center, Chinese PLA General Hospital; Beijing Key Lab of Regenerative Medicine in Orthopedics, Key Laboratory of Musculoskeletal Trauma & War Injuries PLA. No.28 Fuxing Road, Haidian District, Beijing 100853, People's Republic of China.

Despite intensive effort was made to regenerate injured meniscus by cell-free strategies through recruiting endogenous stem/progenitor cells, meniscus regeneration remains a great challenge in clinic. In this study, we found decellularized meniscal extracellular matrix (MECM) preserved native meniscal collagen and glycosaminoglycans which could be a good endogenous regeneration guider for stem cells. Moreover, MECM significantly promoted meniscal fibrochondrocytes viability and proliferation, increased the expression of type II collagen and proteoglycans in vitro. Meanwhile, we designed 3D-printed polycaprolactone (PCL) scaffolds which mimic the circumferential and radial collagen orientation in native meniscus. Taken these two advantages together, a micro-structure and micro-environment dually biomimetic cell-free scaffold was manipulated. This cell-free PCL-MECM scaffold displayed superior biocompatibility and yielded favorable biomechanical capacities closely to native meniscus. Strikingly, neo-menisci were regenerated within PCL-MECM scaffolds which were transplanted into knee joints underwent medial meniscectomy in rabbits and sheep models. Histological staining confirmed neo-menisci showed meniscus-like heterogeneous staining. Mankin scores showed PCL-MECM scaffold could protect articular cartilage well, and knee X-ray examination revealed same results. Knee magnetic resonance imaging (MRI) scanning also showed some neo-menisci in PCL-MECM scaffold group. In conclusion, PCL-MECM scaffold appears to optimize meniscus regeneration. This could represent a promising approach worthy of further investigation in preclinical applications.
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http://dx.doi.org/10.1016/j.bioactmat.2021.02.019DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC8039774PMC
October 2021

Anaerobic digestion of agricultural wastes from liquid to solid state: Performance and environ-economic comparison.

Bioresour Technol 2021 Jul 30;332:125080. Epub 2021 Mar 30.

Beijing Key Laboratory of Farmland Soil Pollution Prevention and Remediation, College of Resources and Environmental Sciences, China Agricultural University, Beijing 100093, China; Organic Recycling Institute (Suzhou) of China Agricultural University, Wuzhong District, 215128 Jiangsu Province, China. Electronic address:

Performance and environ-economic impacts were compared for anaerobic digestion (AD) of dairy manure and cucumber residues from liquid to solid state. Environ-economic evaluation of the overall AD process at different total solids (TS) was performed with the estimated treatment capacity of 9600 tons/year and service life of 20 years. Results showed that TS increase from 6% to 22% enhanced both cumulative and volumetric methane (CH) production. Further TS increase to 25%, however, reduced CH yield. Environ-economic assessment indicated that TS increase enhanced volumetric waste treatment capacity and thus AD environmental footprints. Environmental credits from digestate and biogas utilization could compensate the adverse environmental impacts of other processes in AD plants. Furthermore, biogas and nutrients in digestate determined AD net-present value. As a result, solid state AD was more profitable with higher CH yield and more nutrients in both biosolids and digested effluent of digestate than its liquid and hemi-solid counterparts.
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http://dx.doi.org/10.1016/j.biortech.2021.125080DOI Listing
July 2021

Simultaneously autotrophic denitrification and organics degradation in low-strength coal gasification wastewater (LSCGW) treatment via microelectrolysis-triggered Fe(II)/Fe(III) cycle.

Chemosphere 2021 Sep 1;278:130460. Epub 2021 Apr 1.

State Key Laboratory of Urban Water Resource and Environment, Harbin Institute of Technology, Harbin, 150090, China. Electronic address:

The autotrophic iron-depended denitrification (AIDD), triggered by microelectrolysis, was established in the microelectrolysis-assistant up-flow anaerobic sludge blanket (MEA-UASB) with the purpose of low-strength coal gasification wastewater (LSCGW) treatment while control UASB operated in parallel. The results revealed that chemical oxygen demand (COD) removal efficiency and total nitrogen (TN) removal load at optimum current (2.5 A/m) in MEA-UASB (83.2 ± 2.6% and 0.220 ± 0.010 kg N/m·d) were 1.42-fold and 1.57-fold higher than those (58.5 ± 2.1% and 0.139 ± 0.011 kg N/m·d) in UASB, verifying that AIDD and following dissimilatory iron reduction (DIR) process could offer the novel pathway to solve the electron donor-deficient and traditionally denitrification-infeasible problems. High-throughput 16S rRNA gene pyrosequencing shown that iron-oxidizing denitrifiers (Thiobacillus and Acidovorax species) and iron reducing bacteria (Geothrix and Ignavibacterium speices), acted as microbial iron cycle of contributors, were specially enriched at optimum operating condition. Additionally, the activities of microbial electron transfer chain, electron transporters (complex I, II, III and cytochrome c) and abundance of genes encoding important enzymes (narG, nirK/S, norB and nosZ) were remarkably promoted, suggesting that electron transport and consumption capacities were stimulated during denitrification process. This study could shed light on better understanding about microelectrolysis-triggered AIDD for treatment of refractory LSCGW and further widen its application potential in the future.
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http://dx.doi.org/10.1016/j.chemosphere.2021.130460DOI Listing
September 2021

Engineering of bioactive metal sulfide nanomaterials for cancer therapy.

J Nanobiotechnology 2021 Mar 31;19(1):93. Epub 2021 Mar 31.

Department of Pharmacy, Women's Hospital, Zhejiang University School of Medicine, Hangzhou, 310006, China.

Metal sulfide nanomaterials (MeSNs) are a novel class of metal-containing nanomaterials composed of metal ions and sulfur compounds. During the past decade, scientists found that the MeSNs engineered by specific approaches not only had high biocompatibility but also exhibited unique physicochemical properties for cancer therapy, such as Fenton catalysis, light conversion, radiation enhancement, and immune activation. To clarify the development and promote the clinical transformation of MeSNs, the first section of this paper describes the appropriate fabrication approaches of MeSNs for medical science and analyzes the features and limitations of each approach. Secondly, we sort out the mechanisms of functional MeSNs in cancer therapy, including drug delivery, phototherapy, radiotherapy, chemodynamic therapy, gas therapy, and immunotherapy. It is worth noting that the intact MeSNs and the degradation products of MeSNs can exert different types of anti-tumor activities. Thus, MeSNs usually exhibit synergistic antitumor properties. Finally, future expectations and challenges of MeSNs in the research of translational medicine are spotlighted.
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http://dx.doi.org/10.1186/s12951-021-00839-yDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC8011210PMC
March 2021

Dynamic Dissection of the Endocytosis of Porcine Epidemic Diarrhea Coronavirus Cooperatively Mediated by Clathrin and Caveolae as Visualized by Single-Virus Tracking.

mBio 2021 03 30;12(2). Epub 2021 Mar 30.

Joint International Research Laboratory of Animal Health and Food Safety of Ministry of Education and Single Molecule Nanometry Laboratory (Sinmolab), Nanjing Agricultural University, Nanjing, Jiangsu, China

Coronaviruses (CoVs) have caused severe diseases in humans and animals. Endocytic pathways, such as clathrin-mediated endocytosis (CME) and caveolae-mediated endocytosis (CavME), play an important role for CoVs to penetrate the cell membrane barrier. In this study, a novel CoV entry manner is unraveled in which clathrin and caveolae can cooperatively mediate endocytosis of porcine epidemic diarrhea coronavirus (PEDV). Using multicolor live-cell imaging, the dynamics of the fluorescently labeled clathrin structures, caveolae structures, and PEDV were dissected. During CavME of PEDV, we found that clathrin structures can fuse with caveolae near the cell plasma membrane, and the average time of PEDV penetrating the cell membrane was within ∼3 min, exhibiting a rapid course of PEDV entry. Moreover, based on the dynamic recruitment of clathrin and caveolae structures and viral motility, the direct evidence also shows that about 20% of PEDVs can undergo an abortive entry via CME and CavME. Additionally, the dynamic trafficking of PEDV from clathrin and caveolae structures to early endosomes, and from early endosomes to late endosomes, and viral fusion were directly dissected, and PEDV fusion mainly occurred in late endosomes within ∼6.8 min after the transport of PEDV to late endosomes. Collectively, this work systematically unravels the early steps of PEDV infection, which expands our understanding of the mechanism of CoV infection. Emerging and re-emerging coronaviruses cause serious human and animal epidemics worldwide. For many enveloped viruses, including coronavirus, it is evident that breaking the plasma membrane barrier is a pivotal and complex process, which contains multiple dynamic steps. Although great efforts have been made to understand the mechanisms of coronavirus endocytic pathways, the direct real-time imaging of individual porcine epidemic diarrhea coronavirus (PEDV) internalization has not been achieved yet. In this study, we not only dissected the kinetics of PEDV entry via clathrin-mediated endocytosis and caveolae-mediated endocytosis and the kinetics of endosome trafficking and viral fusion but also found a novel productive coronavirus entry manner in which clathrin and caveolae can cooperatively mediate endocytosis of PEDV. Moreover, we uncovered the existence of PEDV abortive endocytosis. In summary, the productive PEDV entry via the cooperation between clathrin and caveolae structures and the abortive endocytosis of PEDV provide new insights into coronavirus penetrating the plasma membrane barrier.
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http://dx.doi.org/10.1128/mBio.00256-21DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC8092227PMC
March 2021

Anti-freezing, moisturizing, resilient and conductive organohydrogel for sensitive pressure sensors.

J Colloid Interface Sci 2021 Jul 19;594:584-592. Epub 2021 Mar 19.

MIIT Key Laboratory of Critical Materials Technology for New Energy Conversion and Storage, School of Chemistry and Chemical Engineering, Harbin Institute of Technology, Harbin 150001, China. Electronic address:

Conductive hydrogels have attracted significant attention in the area of wearable pressure sensors due to their mechanical flexibility, conductivity and self-healing capability. At subzero temperatures, water-based conductive hydrogels unavoidably lose their elasticity and conductivity which limits their practical usages at low temperatures. However, traditional conductive hydrogels are short of moisturizing and anti-freezing ability due to the limitation of pure water solvent, which greatly restricts their application in extreme environments. In this study, an anti-freezing and moisturizing conductive double network organohydrogel was prepared by incorporating thioctic acid (TA) with polyvinyl alcohol-borate (PVA-PB) in carbon nanotubes (CNTs) that were dispersed in water (HO) and ethylene glycol (EG). The as-prepared PVA-B-TA-CNTs organohydrogel presented outstanding anti-freezing performance (-60 C), long-term moisturizing property (30 days), excellent stability (400 cycles) and fascinating conductive sensitivity (S = 0.625 kPa). The occurrence of dynamic covalent disulfide bonds and noncovalent hydrogen bonds endow the conductive organohydrogels with brilliant remoldability and self-healing ability, which are significant for practical applications. These remarkable advantages make PVA-B-TA-CNTs organohydrogel to have enormous potential in the application of wearable and flexible pressure sensors, human-healthy monitor, and intelligence devices.
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http://dx.doi.org/10.1016/j.jcis.2021.03.079DOI Listing
July 2021

A unique DNA-binding mode of African swine fever virus AP endonuclease.

Cell Discov 2020 Mar 17;6(1):13. Epub 2020 Mar 17.

State Key Laboratory of Genetic Engineering, Collaborative Innovation Center of Genetics and Development, Shanghai Public Health Clinical Center, School of Life Sciences, Fudan University, 200438, Shanghai, China.

African swine fever virus (ASFV) is highly contagious and can cause lethal disease in pigs. ASFV is primarily replicated in the cytoplasm of pig macrophages, which is oxidative and caused constant damage to ASFV genome. ASFV AP endonuclease (AsfvAP) catalyzes DNA cleavage reaction at the abasic site and is a key enzyme of ASFV base excision repair (BER) system. Although it plays an essential role in ASFV survival in host cells, the basis underlying substrate binding and cleavage by AsfvAP remains unclear. Here, we reported the structural and functional studies of AsfvAP, showing that AsfvAP adopts a novel DNA-binding mode distinct from other APs. AsfvAP possesses many unique structural features, including one narrower nucleotide-binding pocket at the active site, the C16-C20 disulfide bond-containing region, and histidine-rich loop. As indicated by our mutagenesis, in vitro binding and cleavage assays, these features are important for AsfvAP to suit the acidic and oxidative environment. Owing to their functional importance, these unique features could serve as targets for designing small molecule inhibitors that could disrupt the repair process of ASFV genome and help fight against this deadly virus in the future.
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http://dx.doi.org/10.1038/s41421-020-0146-2DOI Listing
March 2020

Development of a Reduced Chemical Reaction Mechanism for -Pentanol Based on Combined Reduction Methods and Genetic Algorithm.

ACS Omega 2021 Mar 26;6(9):6448-6459. Epub 2021 Feb 26.

Key Laboratory of Shaanxi Province for Development and Application of New Transportation Energy, Chang'an University, Xi'an 710064, P. R. China.

To gradually reduce the demand for fossil energy and accelerate energy transformation, alcohol fuels are being vigorously developed and utilized in the world. -Pentanol as a common alcohol fuel has attracted increasing attention in recent years owing to its many advantages. In this study, a reduced mechanism of -pentanol containing 148 species and 575 reactions was established based on combined reduction methods including the direct relationship graph with error propagation, reaction pathway analysis, rate of production analysis, and temperature sensitivity analysis methods. Then, the reaction rate parameters were optimized using the nondominated sorting genetic algorithm II. A verification experiment for the oxidation of -pentanol was conducted in a jet-stirred reactor (JSR) with gas chromatography-mass spectrometry. The main species mole fractions were quantitatively analyzed in the temperature range 700-1100 K, equivalence ratios of 0.5-2.0, and a pressure of 1 atm. Extensive validations were performed over wide experimental conditions by comparing the experimental data of the ignition delay time, species concentration profiles in the JSR, and laminar flame speed. It was found that the predicted values were in good agreement with the experimental values. Therefore, the reduced mechanism developed in this study can accurately predict the experimental results, which is capable of reasonably applying to the simulation of combustion behaviors of -pentanol in internal combustion engines.
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http://dx.doi.org/10.1021/acsomega.1c00147DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7948435PMC
March 2021

Intraoperative Assessment and Photothermal Ablation of the Tumor Margins Using Gold Nanoparticles.

Adv Sci (Weinh) 2021 Mar 18;8(5):2002788. Epub 2021 Jan 18.

The Fourth Affiliated Hospital Zhejiang University School of Medicine Yiwu 322000 P. R. China.

Surgical resection is commonly used for therapeutic management of different solid tumors and is regarded as a primary standard of care procedure, but precise localization of tumor margins is a major intraoperative challenge. Herein, a generalized method by optimizing gold nanoparticles for intraoperative detection and photothermal ablation of tumor margins is introduced. These nanoparticles are detectable by highly sensitive surface-enhanced Raman scattering imaging. This non-invasive technique assists in delineating the two surgically challenged tumors in live mice with orthotopic colon or ovarian tumors. Any remaining residual tumors are also ablated by using post-surgical adjuvant photothermaltherapy (aPTT), which results in microscale heat generation due to interaction of these nanoparticles with near-infrared laser. Ablation of these post-operative residual micro-tumors prolongs the survival of mice significantly and delays tumor recurrence by 15 days. To validate clinical translatability of this method, the pharmacokinetics, biodistribution, Raman contrast, aPTT efficiency, and toxicity of these nanoparticles are also investigated. The nanoparticles have long blood circulation time (≈24 h), high tumor accumulation (4.87 ± 1.73%ID g) and no toxicity. This high-resolution and sensitive intraoperative approach is versatile and can be potentially used for targeted ablation of residual tumor after resection within different organs.
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http://dx.doi.org/10.1002/advs.202002788DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7927626PMC
March 2021

Tannic acid/Sr-coated silk/graphene oxide-based meniscus scaffold with anti-inflammatory and anti-ROS functions for cartilage protection and delaying osteoarthritis.

Acta Biomater 2021 05 5;126:119-131. Epub 2021 Mar 5.

Institute of Orthopedics, Beijing Key Lab of Regenerative Medicine in Orthopedics, Key Lab of Musculoskeletal Trauma & War Injuries in PLA, Chinese PLA General Hospital, Beijing 100853, China. Electronic address:

Tissue engineering method provides a promising solution for meniscus repair and regeneration. However, the inflammatory environment that persists after meniscus injury in the knee joint impedes meniscus tissue regeneration. The purpose of this study was to investigate the applicability of silk/graphene oxide (GO)-based meniscus scaffold modified with tannic acid (TA)/Sr coating for the elimination of inflammatory cytokines and reactive oxygen species (ROS) under osteoarthritis (OA) environment along with cartilage protection by using a rat model. The self-assembled coating composed of a series of TA-Sr complex concentrations was formed by a facile, rapid, and efficient method on the scaffold. The phenolic hydroxyl groups on the coating endowed the meniscus scaffold with excellent anti-inflammatory and ROS scavenging capacities. We also found that the coating could promote cell migration in a mock wound model and could increase extracellular matrix secretion in vitro. Moreover, the coating components at a certain concentration played an effective role in delaying OA and providing cartilage protection in the rat model. The expression of inflammation cytokines (e.g., IL-6, IL-8, and MMPs) in rat knee tissue was significantly downregulated, and cartilage degeneration and OA damage were also inhibited according to tissue staining results and the OARSI (Osteoarthritis Research Society International) scoring system. Combining these performances, we suggest that this silk/GO-based scaffold modified with TA/Sr coating could have broader application prospects by virtue of its effective and user-friendly properties. STATEMENT OF SIGNIFICANCE: The biological properties of the meniscus play a role in activating and regulating the metabolic and inflammatory responses that influence the homeostasis of joint health and ultimately lead to knee osteoarthritis (OA). The inflammation condition of the knee joint may exacerbate the degeneration of meniscus and cartilage. The present study aimed to develop a functional coating composed of tannic acid/Sr complex on a silk/graphene oxide-based meniscus scaffold and to endow the scaffold with anti-inflammatory and ROS elimination capacities during the meniscus regeneration process to protect cartilage and delay OA development. The in vitro cytocompatibility study and the in vivo rat OA model study revealed that the coating was effective in promoting cell migration, facilitating ECM secretion, inhibiting inflammation, and delaying OA development.
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http://dx.doi.org/10.1016/j.actbio.2021.02.046DOI Listing
May 2021

Genome-wide identification, evolution of Krüppel-like factors (klfs) and their expressions during GCRV challenge in grass carp (Ctenopharyngodonidella).

Dev Comp Immunol 2021 Jul 2;120:104062. Epub 2021 Mar 2.

State Key Laboratory of Freshwater Ecology and Biotechnology, Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan, 430072, China.

The Krüppel-like factors (KLFs) are a family of transcription factors containing three highly conserved tandem zinc finger structures, and each member participates in multiple physiological and pathological processes. The publication of genome sequences and the application of bioinformatics tools have led to the discovery of numerous gene families in fishes. Here, 24 klf genes were re-annotated in grass carp. Subsequently, the number of klf family members were investigated in some representative vertebrate species. Then, a series of bioinformatics analysis showed that grass carp klfs in the same subfamily had similar genome structure patterns and conserved distribution patterns of motifs, which supported their molecular evolutionary relationships. Furthermore, the mRNA expression profiles showed that 24 grass carp klfs were ubiquitously expressed in 11 different tissues, and some of them displayed tissue-enriched expression patterns. Finally, the expressions of the evolutionarily expanded klf members (klf2a, 2b, 2l, 5a, 5b, 5l, 6a, 6b, 7a, 7b, 11a, 11b, 12a, 12b, 15 and 15l) during GCRV infection were also analyzed. The results suggested that grass carp klf genes with common evolutionary sources may share functional diversity and conservation. In conclusion, this study provides preliminary clues for further researches on grass carp klf members and their underlying transcriptional regulatory mechanisms during GCRV infection.
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http://dx.doi.org/10.1016/j.dci.2021.104062DOI Listing
July 2021

Dysbiosis of the Saliva Microbiome in Patients With Polycystic Ovary Syndrome.

Front Cell Infect Microbiol 2020 16;10:624504. Epub 2021 Feb 16.

Department of Endocrinology, Sir Run Run Hospital, Nanjing Medical University, Nanjing, China.

Significant differences in salivary microbiota communities between polycystic ovary syndrome (PCOS) patients and healthy controls have been reported, and interestingly, some salivary microbiota exhibit diurnal oscillation in healthy people. However, whether the diurnal oscillation of salivary microbiota is present in PCOS patients is unknown. In this study, we describe the differences in the saliva microbiome between the PCOS group and the control group at different time points over 24 h. 16S rRNA gene amplicon sequencing was performed on salivary and fecal samples from 10 PCOS patients and 10 healthy controls, and salivary samples were collected at 6-h intervals over 24 h (Zeitgeber (ZT)0, ZT6, ZT12, and ZT18). Among the salivary samples, those from the PCOS group showed significant differences from those of the control group at each time point. Differences were evident in taxa level and metabolic pathways. Interestingly, we found that PCOS disrupted the diurnal rhythm of the salivary microbiota abundance, as determined in the group of healthy women. In addition, no similar changes were found in PCOS patients and controls between the oral and fecal microbiota, including differential microbiota at the phylum level. In this study, significant differences in the composition of the salivary microbiota between PCOS and healthy women were detected at different time points. We also showed that the diurnal rhythm of relative abundance of the salivary microbiota was disrupted in patients with PCOS, which might be related to development of oral-related diseases and systematic metabolic disorders.
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http://dx.doi.org/10.3389/fcimb.2020.624504DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7921782PMC
June 2021