Publications by authors named "Dawei Li"

572 Publications

Effect of the interface on femtosecond laser damage of a metal-dielectric low dispersion mirror.

Opt Express 2021 Mar;29(6):8171-8180

Metal-dielectric low dispersion mirrors (MLDM) have a promising application prospect in petawatt (PW) laser systems. We studied the damage characteristics of MLDM and found that the damage source of MLDM (Ag + AlO+SiO) is located at the metal-dielectric interface. We present the effect of the interface on the femtosecond laser damage of MLDM. Finite element analysis shows that thermal stress is distributed at the interface, causing stress damage which is consistent with the damage morphology. After enhancing the interface adhesion and reducing the residual stress, the damage source transfers from the interface to a surface SiO layer, and the damage threshold can be increased from 0.60 J/cm to 0.73 J/cm. This work contributes to the search for new techniques to improve the damage threshold of MLDM used in PW laser systems.
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http://dx.doi.org/10.1364/OE.416141DOI Listing
March 2021

Study of compositions of musks in different types secreted by forest musk deer (Moschus berezovskii).

PLoS One 2021 16;16(3):e0245677. Epub 2021 Mar 16.

School of Ecology and Nature Conservation, Beijing Forestry University, Beijing, People's Republic of China.

Musk is a secretion of the forest musk deer (Moschus berezovskii). Normal musk is a brown solid secretion with a light fragrance. In this study, abnormal types of musk, namely, white and black musks, were discovered during the musk collection process. Researchers have long been concerned with the components of musk. Herein, GC-MS, headspace solid-phase microextraction (HS-SPME), and nonmetric multidimensional scaling (NMDS) were used to analyze the nonpolar organic components, volatile organic components, and sample similarities among different musks, respectively. Abundant steroid hormones and proteins were also found in the musk. The steroid hormone concentrations were detected using a radioimmunoassay (RIA). Proteins in the samples were hydrolyzed and the amino acids concentrations were detected. The steroid hormone and amino acid concentrations in white musk were significantly lower than in normal and black musks (p<0.05). The components were subjected to NMDS analysis to understand the differences in components among different types of musk, with the results suggesting that white musk was different from normal and black musks.
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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0245677PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7963063PMC
March 2021

Anti-contactin-associated protein-like 2 antibody-associated cerebellar ataxia: A case report and literature review.

J Neuroimmunol 2021 Apr 3;353:577515. Epub 2021 Feb 3.

Department of Neurology, Xuanwu Hospital, Capital Medical University, Beijing 100053, PR China. Electronic address:

The spectrum of anti-contactin-associated protein-like 2 (CASPR2) antibody-associated disease is expanding and the involvement of cerebellum was reported in the past few years. We report a 45-year-old male with chronically progressive cerebellar ataxia. CASPR2 antibodies were detected in his serum and cerebellar atrophy was observed on MRI. His symptoms improved prominently with steroids and intravenous immunoglobulins. 23 cases with CASPR2 antibodies and cerebellar ataxia were identified from previous publications. Most of patients showed acute or subacute onset with other typical presentations of anti-CASPR2 antibody-associated disease, such as limbic encephalitis. Immunotherapy was effective in the majority of patients.
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http://dx.doi.org/10.1016/j.jneuroim.2021.577515DOI Listing
April 2021

Clinical Characteristics and CT Findings in 148 Non-COVID-19 Influenza-Like Illness Cases: A Retrospective Control Study.

Front Public Health 2021 9;9:616963. Epub 2021 Feb 9.

Department of Critical Care Medicine, The Sixth Medical Center, Chinese PLA General Hospital, Beijing, China.

This study was to collect clinical features and computed tomography (CT) findings of Influenza-Like Illness (ILI) cases, and to evaluate the correlation between clinical data and the abnormal chest CT in patients with the Influenza-Like Illness symptoms. Patients with the Influenza-Like Illness symptoms who attended the emergency department of The Six Medical Center of The PLA General Hospital from February 10 to April 1, 2020 were enrolled. Clinical and imaging data of the enrolled patients were collected and analyzed. The association between clinical characteristics and abnormal chest CT was also analyzed. A total of 148 cases were enrolled in this study. Abnormalities on chest CT were detected in 61/148 (41.2%) patients. The most common abnormal CT features were as follows: patchy consolidation 22/61(36.1%), ground-glass opacities 21/61(34.4%), multifocal consolidations 17/61(27.9%). The advanced age and underlying diseases were significantly associated with abnormal chest CT. Abnormal chest CT is a common condition in Influenza-Like Illness cases. The presence of advanced age and concurrent underlying diseases is significantly associated with abnormal chest CT findings in patients with ILI symptoms. The chest CT characteristic of ILI is different from the manifestation of COVID-19 infection, which is helpful for differential diagnosis.
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http://dx.doi.org/10.3389/fpubh.2021.616963DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7900189PMC
March 2021

Genomic insights into the formation of human populations in East Asia.

Nature 2021 Mar 22;591(7850):413-419. Epub 2021 Feb 22.

Department of Genetics, Harvard Medical School, Boston, MA, USA.

The deep population history of East Asia remains poorly understood owing to a lack of ancient DNA data and sparse sampling of present-day people. Here we report genome-wide data from 166 East Asian individuals dating to between 6000 BC and AD 1000 and 46 present-day groups. Hunter-gatherers from Japan, the Amur River Basin, and people of Neolithic and Iron Age Taiwan and the Tibetan Plateau are linked by a deeply splitting lineage that probably reflects a coastal migration during the Late Pleistocene epoch. We also follow expansions during the subsequent Holocene epoch from four regions. First, hunter-gatherers from Mongolia and the Amur River Basin have ancestry shared by individuals who speak Mongolic and Tungusic languages, but do not carry ancestry characteristic of farmers from the West Liao River region (around 3000 BC), which contradicts theories that the expansion of these farmers spread the Mongolic and Tungusic proto-languages. Second, farmers from the Yellow River Basin (around 3000 BC) probably spread Sino-Tibetan languages, as their ancestry dispersed both to Tibet-where it forms approximately 84% of the gene pool in some groups-and to the Central Plain, where it has contributed around 59-84% to modern Han Chinese groups. Third, people from Taiwan from around 1300 BC to AD 800 derived approximately 75% of their ancestry from a lineage that is widespread in modern individuals who speak Austronesian, Tai-Kadai and Austroasiatic languages, and that we hypothesize derives from farmers of the Yangtze River Valley. Ancient people from Taiwan also derived about 25% of their ancestry from a northern lineage that is related to, but different from, farmers of the Yellow River Basin, which suggests an additional north-to-south expansion. Fourth, ancestry from Yamnaya Steppe pastoralists arrived in western Mongolia after around 3000 BC but was displaced by previously established lineages even while it persisted in western China, as would be expected if this ancestry was associated with the spread of proto-Tocharian Indo-European languages. Two later gene flows affected western Mongolia: migrants after around 2000 BC with Yamnaya and European farmer ancestry, and episodic influences of later groups with ancestry from Turan.
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http://dx.doi.org/10.1038/s41586-021-03336-2DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7993749PMC
March 2021

Texture Analysis of Native T1 Images as a Novel Method for Noninvasive Assessment of Uremic Cardiomyopathy.

J Magn Reson Imaging 2021 Feb 18. Epub 2021 Feb 18.

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

Background: Noncontrast cardiac T times are increased in dialysis patients which might indicate fibrotic alterations in uremic cardiomyopathy.

Purpose: To explore the application of the texture analysis (TA) of T images in the assessment of myocardial alterations in dialysis patients.

Study Type: Case-control study.

Population: A total of 117 subjects, including 22 on hemodialysis, 44 on peritoneal dialysis, and 51 healthy controls.

Field Strength: A 3 T, steady-state free precession (SSFP) sequence, modified Look-Locker imaging (MOLLI).

Assessment: Two independent, blinded researchers manually delineated endocardial and epicardial borders of the left ventricle (LV) on midventricular T maps for TA.

Statistical Tests: Texture feature selection was performed, incorporating reproducibility verification, machine learning, and collinearity analysis. Multivariate linear regressions were performed to examine the independent associations between the selected texture features and left ventricular function in dialysis patients. Texture features' performance in discrimination was evaluated by sensitivity and specificity. Reproducibility was estimated by the intraclass correlation coefficient (ICC).

Results: Dialysis patients had greater T values than normal (P < 0.05). Five texture features were filtered out through feature selection, and four showed a statistically significant difference between dialysis patients and healthy controls. Among the four features, vertical run-length nonuniformity (VRLN) had the most remarkable difference among the control and dialysis groups (144 ± 40 vs. 257 ± 74, P < 0.05), which overlap was much smaller than Global T times (1268 ± 38 vs. 1308 ± 46 msec, P < 0.05). The VRLN values were notably elevated (cutoff = 170) in dialysis patients, with a specificity of 97% and a sensitivity of 88%, compared with T times (specificity = 76%, sensitivity = 60%). In dialysis patients, VRLN was significantly and independently associated with left ventricular ejection fraction (P < 0.05), global longitudinal strain (P < 0.05), radial strain (P < 0.05), and circumferential strain (P < 0.05); however, T was not.

Data Conclusion: The texture features obtained by TA of T images and VRLN may be a better parameter for assessing myocardial alterations than T times.

Level Of Evidence: 4 TECHNICAL EFFICACY: Stage 3.
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http://dx.doi.org/10.1002/jmri.27529DOI Listing
February 2021

Farnesoid X receptor promotes renal ischaemia-reperfusion injury by inducing tubular epithelial cell apoptosis.

Cell Prolif 2021 Apr 16;54(4):e13005. Epub 2021 Feb 16.

Department of Nephrology, School of Medicine, Renji Hospital, Shanghai Jiaotong University, Shanghai, China.

Purpose: We investigated the role of farnesoid X receptor (FXR), a ligand-dependent transcription factor, in renal ischaemia-reperfusion (I/R) injury.

Materials And Methods: We performed unilateral renal I/R model in FXR knockout (Fxr ) and wild-type (WT) mice in vivo and a hypoxia-reoxygenation (H/R) model in vitro. The pathways by which FXR induces apoptosis were detected using a proteome profiler array. The effects of FXR on apoptosis were evaluated using immunoblotting, TUNEL assays and flow cytometry.

Results: Compared with WT mice, Fxr mice showed improved renal function and reduced tubular injury scores and apoptosis. Consistent with the in vivo results, the silencing of FXR decreased the number of apoptotic HK-2 cells after H/R, while FXR overexpression aggravated apoptosis. Notably, bone marrow transplantation (BMT) and immunohistochemistry experiments revealed the involvement of FXR in the tubular epithelium rather than in inflammatory cells. Furthermore, in vivo and in vitro studies demonstrated that FXR deficiency increased phosphorylated Bcl-2 agonist of cell death (p-Bad) expression levels and the ratio of Bcl-2/Bcl-xL to Bax expression in the kidney. Treatment with wortmannin, which reduced p-Bad expression, inhibited the effects of FXR deficiency and eliminated the tolerance of Fxr mouse kidneys to I/R injury.

Conclusions: These results established the pivotal importance of FXR inactivation in tubular epithelial cells after I/R injury. FXR may promote the apoptosis of renal tubular epithelial cells by inhibiting PI3k/Akt-mediated Bad phosphorylation to cause renal I/R damage.
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http://dx.doi.org/10.1111/cpr.13005DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC8016637PMC
April 2021

The serine/threonine/tyrosine kinase STY46 defends against hordeivirus infection by phosphorylating γb protein.

Plant Physiol 2021 Feb 12. Epub 2021 Feb 12.

State Key Laboratory of Agro-Biotechnology, College of Biological Sciences, China Agricultural University, Beijing 100193, P. R. China.

Protein phosphorylation is a common post-translational modification that frequently occurs during plant-virus interaction. Host protein kinases often regulate virus infectivity and pathogenicity by phosphorylating viral proteins. The Barley stripe mosaic virus (BSMV) γb protein plays versatile roles in virus infection and the coevolutionary arms race between plant defense and viral counter-defense. Here, we identified that the autophosphorylated cytosolic serine/threonine/tyrosine (STY) protein kinase 46 of Nicotiana benthamiana (NbSTY46) phosphorylates and directly interacts with the basic motif domain (aa 19-47) of γb in vitro and in vivo. Overexpression of wild-type NbSTY46, either transiently or transgenically, suppresses BSMV replication and ameliorates viral symptoms, whereas silencing of NbSTY46 leads to increased viral replication and exacerbated symptom. Moreover, the antiviral role of NbSTY46 requires its kinase activity, as the NbSTY46T436A mutant, lacking kinase activity, not only loses the ability to phosphorylate and interact with γb but also fails to impair BSMV infection when expressed in plants. NbSTY46 could also inhibit the replication of Lychnis ringspot virus, another chloroplast-replicating hordeivirus. In summary, we report a function of the cytosolic kinase STY46 in defending against plant viral infection by phosphorylating a viral protein in addition to its basal function in plant growth, development, and abiotic stress responses.
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http://dx.doi.org/10.1093/plphys/kiab056DOI Listing
February 2021

Characterization of Hepatitis B Virus Integrations Identified in Hepatocellular Carcinoma Genomes.

Viruses 2021 02 4;13(2). Epub 2021 Feb 4.

Department of Microbiology and Molecular Genetics, University of Vermont, Burlington, VT 05405, USA.

Hepatocellular carcinoma (HCC) is a leading cause of cancer-related mortality. Almost half of HCC cases are associated with hepatitis B virus (HBV) infections, which often lead to HBV sequence integrations in the human genome. Accurate identification of HBV integration sites at a single nucleotide resolution is critical for developing a better understanding of the cancer genome landscape and of the disease itself. Here, we performed further analyses and characterization of HBV integrations identified by our recently reported VIcaller platform in recurrent or known HCC genes (such as , , and ) as well as non-recurrent cancer-related genes (such as , , and ). Our pathway enrichment analysis revealed multiple pathways involving the alcohol dehydrogenase 4 gene, such as the metabolism pathways of retinol, tyrosine, and fatty acid. Further analysis of the HBV integration sites revealed distinct patterns involving the integration upper breakpoints, integrated genome lengths, and integration allele fractions between tumor and normal tissues. Our analysis also implies that the VIcaller method has diagnostic potential through discovering novel clonal integrations in cancer-related genes. In conclusion, although VIcaller is a hypothesis free virome-wide approach, it can still be applied to accurately identify genome-wide integration events of a specific candidate virus and their integration allele fractions.
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http://dx.doi.org/10.3390/v13020245DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7915589PMC
February 2021

Mussel-inspired double cross-linked hydrogels with desirable mechanical properties, strong tissue-adhesiveness, self-healing properties and antibacterial properties.

Mater Sci Eng C Mater Biol Appl 2021 Jan 5;120:111690. Epub 2020 Nov 5.

Key Laboratory of Eco-textiles, Ministry of Education, Jiangnan University, Wuxi, People's Republic of China. Electronic address:

Developing multifunctional hydrogels with good mechanical properties, tissue-adhesiveness, self-healing properties and antioxidant, blood clotting and antibacterial properties is highly desirable for biomedical applications. In this study, a series of multifunctional chitosan-based double cross-linked hydrogels were prepared using a facile method based on quaternized chitosan (QCS) and polyacrylamide (PAM) using polydopamine (PDA) as a novel connecting bridge. Investigation on the content of dopamine (DA) and QCS revealed that the catechol-mediated interactions played an important role in the hydrogel properties. Results showed that the hydrogel exhibited the best mechanical properties when QCS = 12 wt% and DA = 0.4 wt%. Tensile and compressive strength was 13.3 kPa and 67.8 kPa, respectively, and the hydrogel presented strong and repeatable tissue-adhesiveness (27.2 kPa) to porcine skin, as well as good stretchability (1154%). At room temperature, the hydrogel exhibited high self-healing efficiency (90% after 2 h of healing). Antibacterial test results showed that the hydrogel killed 99.99% S. aureus and E. coli. Moreover, the vaccarin-loaded hydrogel exhibited a pH-responsive drug release profile with superior cytocompatibility compared to the pure hydrogel. In summary, this strategy combined double cross-linking and catechol-mediated chemistry to shed new light on the fabrication of novel multifunctional hydrogels with desirable mechanical properties, strong tissue adhesiveness and self-healing abilities.
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http://dx.doi.org/10.1016/j.msec.2020.111690DOI Listing
January 2021

A plant-inspired long-lasting adhesive bilayer nanocomposite hydrogel based on redox-active Ag/Tannic acid-Cellulose nanofibers.

Carbohydr Polym 2021 Mar 15;255:117508. Epub 2020 Dec 15.

Key Laboratory of Eco-Textiles, Ministry of Education, Jiangnan University, Wuxi, People's Republic of China. Electronic address:

Long-lasting and reusable adhesive hydrogels are highly desirable in biomedical and relevant applications, however, its design still remains challenge. Here, a series of plant-inspired adhesive hydrogels were prepared based on Ag/Tannic acid-Cellulose nanofibers (Ag/TA-CNF) triggered reversible quinone/catechol chemistry, which mimicked the long-lasting reductive/oxidative balance in mussels. The dynamic redox system generated catechol groups inner the hydrogel continuously, imparting hydrogels with high and repeatable adhesiveness. Besides, the hydrogel still maintained its high adhesiveness after storing at extreme temperatures for 30 days. Furthermore, to broaden the biomedical applications of the hydrogels, the pre-gel solution with optimal composition was cast onto the surface of vaccarin-loaded electrospun nanofibers to form the bilayer nanocomposite hydrogel (NF@HG) in situ. The NF@HG with the intrinsic properties of the hydrogel layer (e.g. stretchable, adhesive, antioxidant, antifreezing, antidrying, photothermal and antibacterial) exhibited enhanced mechanical properties, sustained drug release and good cytocompatibility, which could be an attractive candidate for wound healing material. Taken together, this study may inspire new aspects for designing reusable and long-lasting adhesive hydrogels according to dynamic catechol chemistry.
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http://dx.doi.org/10.1016/j.carbpol.2020.117508DOI Listing
March 2021

Current Trends of Targeted Drug Delivery for Oral Cancer Therapy.

Front Bioeng Biotechnol 2020 8;8:618931. Epub 2020 Dec 8.

The 4th Medical Center, General Hospital of the Chinese People's Liberation Army, Beijing, China.

Oral cancer is an aggressive tumor that invades the local tissue and can cause metastasis and high mortality. Conventional treatment strategies, e.g., surgery, chemotherapy, and radiation therapy alone or in combinations, possess innegligible issues, and significant side and adverse effects for the clinical applications. Currently, targeting drug delivery is emerging as an effective approach for oral delivery of different therapeutics. Herein we provide a state-of-the-art review on the current progress of targeting drug delivery for oral cancer therapy. Variously oral delivery systems including polymeric/inorganic nanoparticles, liposomes, cyclodextrins, nanolipids, and hydrogels-based forms are emphasized and discussed, and biomimetic systems with respect to oral delivery like therapeutic vitamin, exosomes, proteins, and virus-like particles are also described with emphasis on the cancer treatment. A future perspective is also provided to highlight the existing challenges and possible resolution toward clinical translation of current oral cancer therapies.
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http://dx.doi.org/10.3389/fbioe.2020.618931DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7793972PMC
December 2020

An insight into small extracellular vesicles: Their roles in colorectal cancer progression and potential clinical applications.

Clin Transl Med 2020 Dec;10(8):e249

Department of Colorectal Surgery, Fudan University Shanghai Cancer Center, Shanghai, China.

Colorectal cancer (CRC) is one of the most common cancers and a leading cause of mortality worldwide. Small extracellular vesicles (sEVs) are nano-sized extracellular vesicles containing a variety of bioactive molecules, such as nucleic acids, proteins, lipids, and metabolites. Recent evidence from CRC has revealed that sEVs contribute to tumorigenesis, progression, and drug resistance, and serve as a tool for "liquid biopsy" and a drug delivery system for therapy. In this review, we summarize information about the roles of sEVs in the proliferation, invasion, migration, epithelial-mesenchymal transition, formation of the premetastatic niche, and drug resistance to elucidate the mechanisms governing sEVs in CRC and to identify novel targets for therapy and prognostic and diagnostic biomarkers.
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http://dx.doi.org/10.1002/ctm2.249DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7733319PMC
December 2020

Increased Expression of TXNIP Facilitates Oxidative Stress in Nasal Epithelial Cells of Patients With Chronic Rhinosinusitis With Nasal Polyps.

Am J Rhinol Allergy 2020 Dec 29:1945892420982411. Epub 2020 Dec 29.

Department of Otolaryngology-Head and Neck Surgery, Shanghai Jiao Tong University Affiliated Sixth People's Hospital, Shanghai, P.R. China.

Background: Oxidative stress plays crucial roles in the pathogenesis of chronic rhinosinusitis with nasal polyps (CRSwNP). Thioredoxin-interacting protein (TXNIP) is essential in the process of triggering oxidative stress. However, its role and mechanism in CRSwNP remain unclear. The present study sought to explore the role and mechanism of TXNIP in the pathogenesis of CRSwNP.

Methods: Western blotting, real-time PCR and immunohistochemistry (IHC) were employed to assess TXNIP, thioredoxin (TRX) expression in nasal tissue samples from patients with CRSwNP and control subjects. MDA level and SOD activity in nasal tissue homogenates were measured using MDA and SOD Assay Kit. To evaluate the role and mechanism of TXNIP in CRSwNP, human nasal epithelial cells (HNECs) were cultured and stimulated using TXNIP siRNA, with or without N-acetylcysteine (NAC, an ROS scavenger). Western blotting, real-time PCR, ROS detecting dye DCFH-DA, MDA and SOD Assay Kit were performed to assess the effects and mechanisms of stimulators on the cells.

Results: We found significantly increased levels of TXNIP and decreased levels of TRX protein, mRNA, positive cells, increased MDA level and decreased SOD activity in CRSwNP patients compared with control subjects. In vitro study, significantly altered levels of TXNIP, TRX, MDA, SOD and ROS in HNECs were found following treatment of TXNIP siRNA with or without NAC on HNECs.

Conclusion: TXNIP expression was increased and TRX expression was decreased in CRSwNP at both protein and mRNA levels. MDA levels were increased and SOD activities were decreased in CRSwNP. TXNIP may have negative association with TRX, and then decrease SOD activities and increase MDA levels, resulting in the upregulation of ROS and oxidative stress in HNECs, which may play a pivotal role in the pathogenesis of CRSwNP. Future studies are expected to further explore the role and mechanism of TXNIP in CRSwNP.
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http://dx.doi.org/10.1177/1945892420982411DOI Listing
December 2020

Sequencing facility and DNA source associated patterns of virus-mappable reads in whole-genome sequencing data.

Authors:
Xun Chen Dawei Li

Genomics 2021 Jan 7;113(1 Pt 2):1189-1198. Epub 2020 Dec 7.

Department of Microbiology and Molecular Genetics, University of Vermont, Burlington, VT 05405, USA; Department of Computer Science, University of Vermont, Burlington, VT 05405, USA; Neuroscience, Behavior, Health Initiative, University of Vermont, Burlington, VT 05405, USA. Electronic address:

Numerous viral sequences have been reported in the whole-genome sequencing (WGS) data of human blood. However, it is not clear to what degree the virus-mappable reads represent true viral sequences rather than random-mapping or noise originating from sample preparation, sequencing processes, or other sources. Identification of patterns of virus-mappable reads may generate novel indicators for evaluating the origins of these viral sequences. We characterized paired-end unmapped reads and reads aligned to viral references in human WGS datasets, then compared patterns of the virus-mappable reads among DNA sources and sequencing facilities which produced these datasets. We then examined potential origins of the source- and facility-associated viral reads. The proportions of clean unmapped reads among the seven sequencing facilities were significantly different (P < 2 × 10). We identified 260,339 reads that were mappable to a total of 99 viral references in 2535 samples. The majority (86.7%) of these virus-mappable reads (corresponding to 47 viral references), which can be classified into four groups based on their distinct patterns, were strongly associated with sequencing facility or DNA source (adjusted P value <0.01). Possible origins of these reads include artificial sequences in library preparation, recombinant vectors in cell culture, and phages co-contaminated with their host bacteria. The sequencing facility-associated virus-mappable reads and patterns were repeatedly observed in other datasets produced in the same facilities. We have constructed an analytic framework and profiled the unmapped reads mappable to viral references. The results provide a new understanding of sequencing facility- and DNA source-associated batch effects in deep sequencing data and may facilitate improved bioinformatics filtering of reads.
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http://dx.doi.org/10.1016/j.ygeno.2020.12.004DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7856238PMC
January 2021

Evolution from a single relaxation process to two-step relaxation processes of Dy single-molecule magnets via the modulations of the terminal solvent ligands.

Dalton Trans 2021 Jan 9;50(1):217-228. Epub 2020 Dec 9.

College of Chemistry, Chemical Engineering and Materials Science, Soochow University, Suzhou 215123, P. R. China.

To explore the influences of magnetic interactions on the relaxation dynamics of single-molecule magnets (SMMs) and to understand the relationship between single-ion relaxation and the relaxation of a molecular entity, it is very important to design dinuclear lanthanide-based SMMs with two-step relaxation processes. Here, three Dy complexes of compositions [Dy(L)(NO)(MeOH)] (1), [Dy(L)(NO)(EtOH)] (2), and [Dy(L)(NO)(DMF)]·0.5EtOH (3) (HL = 2-(((2-hydroxy-3-methoxybenzyl)imino)methyl)-4-methoxyphenol) were successfully synthesized via elaborately introducing different terminal solvent ligands. X-ray single-crystal diffraction analyses revealed that complexes 1-3 are isostructural. The two Dy ions of 1 and 2 both adopt D symmetry, while the two Dy centres of 3 display D and D symmetries, respectively. The magnetic property studies of 1-3 indicated that all three complexes exhibit single-molecule magnet (SMM) behaviours with energy barriers of 104 K for 1, 98.94 K for 2, and 76.28 K and 45.54 K for 3 under zero dc field. The target of assembling Dy SMMs with two-step relaxation processes was achieved by gradually increasing the sizes of the terminal solvent ligands. Complex 3 exhibits two-step relaxation processes. Complete active space self-consistent field (CASSCF) calculations were performed on 1-3 to rationalize the observed differences in the magnetic behaviour. It is found that both the angles θ between the magnetic axis and the vector connecting two Dy ions and the symmetries of Dy ions are vital factors that affect the energy barriers of 1-3. The high local symmetries of the central metals in 1 and 2 make the complexes act as SMMs with higher energy barriers, while the smaller θ angle and different symmetries of the two Dy ions render complex 3 as a SMM with a two-step relaxation process. This work demonstrates a new methodology for preparing SMMs with two-step relaxation processes by fine-tuning the terminal solvent ligands.
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http://dx.doi.org/10.1039/d0dt03093gDOI Listing
January 2021

Unusual terpenoids from the fruits of Evodia rutaecarpa and their activation on the farnesoid X receptor.

Bioorg Chem 2020 11 29;104:104325. Epub 2020 Sep 29.

College of Pharmacy, Academy of Integrative Medicine, Advanced Institute for Medical Sciences, and Liaoning Engineering Technology Centre of Target-based Nature Products for Prevention and Treatment of Ageing-related Neurodegeneration, Dalian Medical University, Dalian 116044, People's Republic of China; Jiangsu Key Laboratory of New Drug Research and Clinical Pharmacy, Xuzhou Medical University, Xuzhou 221004, People's Republic of China. Electronic address:

Evolides A (1) and B (2) were isolated from the fruits of Evodia rutaecarpa and characterized by various spectroscopic data analyses (NMR, HRESIMS, ECD, and X-ray crystallography) and were thought to be new unusual terpenoids possessing lactone groups. An in vitro bioassay showed that compound 1 exhibited a significant activation effect on the farnesoid X receptor (EC 0.73 μM).
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http://dx.doi.org/10.1016/j.bioorg.2020.104325DOI Listing
November 2020

A developed hybrid fixed-bed bioreactor with Fe-modified zeolite to enhance and sustain biohydrogen production.

Sci Total Environ 2021 Mar 20;758:143658. Epub 2020 Nov 20.

Graduate School of Life and Environmental Science, University of Tsukuba, 1-1-1 Tennodai, Tsukuba, Ibaraki 305-8572, Japan. Electronic address:

In this study, we describe the development of a hybrid bioreactor with integrated chlorinated polyethylene (CPE) fixed-bed and zeolite as a microorganism nutrition carrier (MNC), aiming at enhancing and sustaining biohydrogen production during the anaerobic digestion (AD) process. In the batch test, the hybrid bioreactor achieved a maximum biohydrogen production of 646.3 mL/L. Accordingly, the hybrid bioreactor significantly enhanced biohydrogen production and maintained a stable performance for 50 days of semi-continuous operation. This result should be attributed to the CPE providing roughness surface and high porosity for microorganism immobilization, resulting in the enhancement of microbial quantity, confirmed by our scanning electron microscope and immobilized biomass analyses. Moreover, the element ratio significantly decreased, indicating that zeolite could provide metal cations for stimulating microbial bioactivity and growth, as well as contributing to superior biohydrogen productivity during the 50-day operation. In order to further enhance and sustain long-term biohydrogen production, raw zeolite was modified with iron. The hybrid-Fe bioreactor (CPE with Fe-modified zeolite) operated mainly following the acetate pathway and exhibited higher sustainability in improving biohydrogen production with a peak value of 1893.0 mL/L during a 72-day-lasting operation. The synergistic mechanism of the Fe-modified zeolite and CPE fixed-bed revealed that it could effectively induce favorable pathways and contribute to the synthesis of essential enzymes, micronutrient supplementation, electoral conductivity, and microbial immobilization for biohydrogen production. Therefore, a hybrid-Fe bioreactor could provide a unique alternative for the enhancement of hydrogen production for practical applications.
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http://dx.doi.org/10.1016/j.scitotenv.2020.143658DOI Listing
March 2021

A novel target anti-interleukin-13 receptor subunit alpha-2 monoclonal antibody inhibits tumor growth and metastasis in lung cancer.

Int Immunopharmacol 2021 Jan 23;90:107155. Epub 2020 Nov 23.

School of Pharmacy, Shanghai Jiao Tong University, Shanghai, China; Engineering Research Center of Cell and Therapeutic Antibody of Ministry of Education, Shanghai Jiao Tong University, China. Electronic address:

IL13Rα2 shows high expression in different types of tumors and can be a target for cancer therapy in humans due to its poor prognosis. The aim of our study is to characterize and investigate the effect of interleukin-13 receptor subunit alpha-2monoclonal antibody mAb15D8 on lung cancer cells in vitro and in vivo by blocking its specific epitope in IL13Rα2 antigen. The mAb15D8 blocking epitope was analyzed through the mutagenesis of IL13Rα2 and confirmed with western blot. We found that the IL13Rα2 epitope recognized by mAb15D8 antibody is a new binding site localized in the fibronectin-III domain-1 of IL13Rα2 antigen. Moreover, the mAb15D8 obviously reduced cell proliferation, migration of H460, A549, SKOV3, and B16F10 cells. Treatment with mAb15D8 significantly reduced the H460 xenograft tumor formation and growth in nude mice and inhibited B16F10 tumor metastasis and increased survival in C57BL/6 mice. Pharmacokinetic and toxicological analysis demonstrated the safety of mAb15D8 as a potential therapeutic agent. We developed a novel mouse monoclonal antibody against IL13Rα2 which binds to specific epitope on IL13Rα2 antigen. In vivo treatment with the antibody significantly reduced tumor growth and lung metastasis and prolonged survival. These results suggest mAb15D8 antibody as a potential therapeutic agent for cancer therapy.
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http://dx.doi.org/10.1016/j.intimp.2020.107155DOI Listing
January 2021

Tumor-derived exosomal miR-934 induces macrophage M2 polarization to promote liver metastasis of colorectal cancer.

J Hematol Oncol 2020 11 19;13(1):156. Epub 2020 Nov 19.

Department of Colorectal Surgery, Fudan University Shanghai Cancer Center, 270 Dong'an Road, Shanghai, 200032, China.

Background: Mounting evidence has demonstrated the vital importance of tumor-associated macrophages (TAMs) and exosomes in the formation of the premetastatic niche. However, the molecular mechanisms by which tumor-derived exosomal miRNAs interact with TAMs underlying premetastatic niche formation and colorectal cancer liver metastasis (CRLM) remain largely unknown.

Methods: Transmission electron microscopy and differential ultracentrifugation were used to verify the existence of exosomes. In vivo and in vitro assays were used to identify roles of exosomal miR-934. RNA pull-down assay, dual-luciferase reporter assay, etc. were applied to clarify the mechanism of exosomal miR-934 regulated the crosstalk between CRC cells and M2 macrophages.

Results: In the present study, we first demonstrated the aberrant overexpression of miR-934 in colorectal cancer (CRC), especially in CRLM, and its correlation with the poor prognosis of CRC patients. Then, we verified that CRC cell-derived exosomal miR-934 induced M2 macrophage polarization by downregulating PTEN expression and activating the PI3K/AKT signaling pathway. Moreover, we revealed that hnRNPA2B1 mediated miR-934 packaging into exosomes of CRC cells and then transferred exosomal miR-934 into macrophages. Interestingly, polarized M2 macrophages could induce premetastatic niche formation and promote CRLM by secreting CXCL13, which activated a CXCL13/CXCR5/NFκB/p65/miR-934 positive feedback loop in CRC cells.

Conclusions: These findings indicate that tumor-derived exosomal miR-934 can promote CRLM by regulating the crosstalk between CRC cells and TAMs. These findings reveal a tumor and TAM interaction in the metastatic microenvironment mediated by tumor-derived exosomes that affects CRLM. The present study also provides a theoretical basis for secondary liver cancer.
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http://dx.doi.org/10.1186/s13045-020-00991-2DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7678301PMC
November 2020

Mechanism of Abnormal Chondrocyte Proliferation Induced by Piezo1-siRNA Exposed to Mechanical Stretch.

Biomed Res Int 2020 4;2020:8538463. Epub 2020 Nov 4.

Department of Joint Surgery, The Affiliated Hospital of Qingdao University, Qingdao 266000, China.

Objective: To investigate the effect of small interfering RNA targeting mechanosensitive ion channel protein Piezo1 (Piezo1-siRNA) on abnormal chondrocyte proliferation exposed to mechanical stretch.

Methods: Construct and screen effective Piezo1-siRNA sequences and explore an appropriate method to transfect lentiviral vector into chondrocytes exposed to mechanical stretch. Western blot and RT-PCR were used to detect the mRNA and protein expression of Piezo1, Kif18A, and -tubulin, respectively. Flow cytometry was used to measure the changes in the chondrocyte cycle. The proliferation of chondrocyte was evaluated by cell counting kit-8.

Results: According to the mRNA and protein expression of Piezo1, the effective siRNA sequence was successfully screened. Compared with the 0 h group, mechanical stretch upregulated the expression of Piezo1, Kif18A, and -tubulin, resulting in chondrocyte cycle arrest and eventually inhibiting chondrocyte proliferation. Moreover, Piezo1-siRNA transfection effectively blocks this process and promotes the proliferation of chondrocyte.

Conclusion: Piezo1-siRNA can reduce the inhibition of chondrocyte proliferation induced by mechanical stretch via downregulating the expression of Kif18A and inhibiting the depolymerization of microtubules. Piezo1-siRNA plays a protective role in chondrocytes, which provides a potential method for the treatment of OA under abnormal mechanical stimulation.
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http://dx.doi.org/10.1155/2020/8538463DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7661139PMC
March 2021

Profile of circulating microRNAs in myalgic encephalomyelitis and their relation to symptom severity, and disease pathophysiology.

Sci Rep 2020 11 12;10(1):19620. Epub 2020 Nov 12.

Viscogliosi Laboratory in Molecular Genetics of Musculoskeletal Diseases, Office 2.17.027, Sainte-Justine University Hospital Research Center, 3175 Cote-Ste-Catherine Road, Montreal, QC, H3T 1C5, Canada.

Myalgic encephalomyelitis/chronic fatigue syndrome (ME/CFS) is a complex chronic disease, rooted in multi-system dysfunctions characterized by unexplained debilitating fatigue. Post-exertional malaise (PEM), defined as the exacerbation of the patient's symptoms following minimal physical or mental stress, is a hallmark of ME/CFS. While multiple case definitions exist, there is currently no well-established biomarkers or laboratory tests to diagnose ME/CFS. Our study aimed to investigate circulating microRNA expression in severely ill ME/CFS patients before and after an innovative stress challenge that stimulates PEM. Our findings highlight the differential expression of eleven microRNAs associated with a physiological response to PEM. The present study uncovers specific microRNA expression signatures associated with ME/CFS in response to PEM induction and reports microRNA expression patterns associated to specific symptom severities. The identification of distinctive microRNA expression signatures for ME/CFS through a provocation challenge is essential for the elucidation of the ME/CFS pathophysiology, and lead to accurate diagnoses, prevention measures, and effective treatment options.
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http://dx.doi.org/10.1038/s41598-020-76438-yDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7665057PMC
November 2020

Solvent Vapor Strengthened Polyimide Nanofiber-Based Aerogels with High Resilience and Controllable Porous Structure.

ACS Appl Mater Interfaces 2020 Nov 11;12(47):53104-53114. Epub 2020 Nov 11.

Key Laboratory of Eco-Textiles (Ministry of Education), Nonwoven Technology Laboratory, Jiangnan University, Wuxi 214122, China.

Owing to the hierarchically three-dimensional (3D) network, ultralow density, and high porosity, nanofiber-based aerogels (NFAs) have drawn great attention recently. However, precise control of the porous structure and mechanical properties of NFAs, which have been proved to be extremely essential to the applications, still remains a major challenge. Herein, electrospun polyimide (PI) nanofibers were utilized as building blocks to construct NFAs through the solid-templating technique. The porous structure of PI nanofiber-based aerogels (PI-NFAs) could be adjusted by changing the processing parameters. By further welding the adjacent nanofibers at the contact sites with solvent vapor, high-resilience PI-NFAs were successfully prepared with comparable or higher recoverable, under compression, folding and torsion relative to other NFAs. The welded PI-NFAs showed ultralow density (minimum of 0.96 mg/cm), high porosity (maximum of 99.93%), and tunable hierarchical structure. Therefore, this study brought a new perspective on the simple preparation of high-resilience nanofiber-based aerogels with tunable porous structures.
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http://dx.doi.org/10.1021/acsami.0c15751DOI Listing
November 2020

Hierarchical Structured Polyimide-Silica Hybrid Nano/Microfiber Filters Welded by Solvent Vapor for Air Filtration.

Polymers (Basel) 2020 Oct 27;12(11). Epub 2020 Oct 27.

Key Laboratory of Eco-Textiles (Ministry of Education), Nonwoven Technology Laboratory, Jiangnan University, Wuxi 214122, China.

Electrospun polymer membranes were considered to be promising materials for fine particulate matter (PM) filtration. However, the poor mechanical properties of the electrospun membrane restricted their application for pressure-driven air filtration. Herein, strength-enhanced electrospun polyimide (PI) membranes were demonstrated via a synergistic approach. Solvent-vapor treatment was utilized to introduce extra bonding at the cross points of PI nanofiber, while SiO nanoparticles (SiO NPs) were used to reinforce the body of nanofibers. The mechanical strength and filtration performance of hybrid membranes could be regulated by adjusting the quantity of SiO NPs. The tensile strength of the pure PI membrane was increased by 33% via adding 1.5% SiO NPs, which was further promoted by 70% after solvent-vapor treatment. With a slight reduction in pressure drop (6.5%), the filtration efficiency was not greatly suppressed by welding the SiO NP hybrid PI nanofibers. Moreover, the welded composite filter showed high particulate (0.3-1.0 μm) filtration efficiency (up to nearly 100%) and stable pressure drop throughout the 20 tested filtration cycles.
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http://dx.doi.org/10.3390/polym12112494DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7693890PMC
October 2020

Enhanced Thermal Conductivity and Dielectric Properties of h-BN/LDPE Composites.

Materials (Basel) 2020 Oct 23;13(21). Epub 2020 Oct 23.

Tianjin Jinhang Technical Physics Institute, No. 58 Zhong Huan Xi Road, Tianjin Airport Economic Zone, Tianjin 300308, China.

Low-density polyethylene (LDPE), as an excellent dielectric insulating material, is widely used in electrical equipment insulation, whereas its low thermal conductivity limits its further development and application. Hexagonal boron nitride (h-BN) filler was introduced into LDPE to tailor the properties of LDPE to make it more suitable for high-voltage direct current (HVDC) cable insulation application. We employed melt blending to prepare h-BN/LDPE thermally conductive composite insulation materials with different contents. We focused on investigating the micromorphology and structure, thermal properties, and electrical properties of h-BN/LDPE composites, and explained the space charge characteristics. The scanning electron microscope (SEM) results indicate that the h-BN filler has good dispersibility in the LDPE at a low loading (less than 3 phr (3 g of micron h-BN particles filled in 100g of LDPE)), as well as no heterogeneous phase formation. The results of thermal conductivity analysis show that the introduction of h-BN filler can significantly improve the thermal conductivity of composites. The thermal conductivity of the composite samples with 10 phr h-BN particles is as high as 0.51 W/(m·K), which is 57% higher than that of pure LDPE. The electrical performance illustrates that h-BN filler doping can significantly inhibit space charge injection and reduce space charge accumulation in LDPE. The interface effect between h-BN and the substrate reduces the carrier mobility, thereby suppressing the injection of charges of the same polarity and increasing the direct-current (DC) breakdown strength. h-BN/LDPE composite doped with 3 phr h-BN particles has excellent space charge suppression effect and high DC breakdown strength, which is 14.3% higher than that of pure LDPE.
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http://dx.doi.org/10.3390/ma13214738DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7660306PMC
October 2020

Three-dimensional reconstruction and comparison of vacuolar membranes in response to viral infection.

J Integr Plant Biol 2021 Feb;63(2):353-364

State Key Laboratory of Agro-Biotechnology and Ministry of Agriculture Key Laboratory of Soil Microbiology, College of Biological Sciences, China Agricultural University, Beijing, 100193, China.

The vacuole is a unique plant organelle that plays an important role in maintaining cellular homeostasis under various environmental stress conditions. However, the effects of biotic stress on vacuole structure has not been examined using three-dimensional (3D) visualization. Here, we performed 3D electron tomography to compare the ultrastructural changes in the vacuole during infection with different viruses. The 3D models revealed that vacuoles are remodeled in cells infected with cucumber mosaic virus (CMV) or tobacco necrosis virus A Chinese isolate (TNV-A ), resulting in the formation of spherules at the periphery of the vacuole. These spherules contain neck-like channels that connect their interior with the cytosol. Confocal microscopy of CMV replication proteins 1a and 2a and TNV-A auxiliary replication protein p23 showed that all of these proteins localize to the tonoplast. Electron microscopy revealed that the expression of these replication proteins alone is sufficient to induce spherule formation on the tonoplast, suggesting that these proteins play prominent roles in inducing vacuolar membrane remodeling. This is the first report of the 3D structures of viral replication factories built on the tonoplasts. These findings contribute to our understanding of vacuole biogenesis under normal conditions and during assembly of plant (+) RNA virus replication complexes.
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http://dx.doi.org/10.1111/jipb.13027DOI Listing
February 2021

Circular RNA 0086996 regulates growth and migration of osteosarcoma cells via miR-125b-5p.

Pathol Res Pract 2020 Nov 25;216(11):153230. Epub 2020 Sep 25.

Department of Orthopedic, The 8th Medical Center of Chinese PLA General Hospital, Beijing 100091, China. Electronic address:

Circular RNAs (CircRNAs) have been found to be critical in tumorigenesis; however, the role of CircRNAs in osteosarcoma is to be further studied. In this study, we preliminarily identified the up-expressed CircRNAs and its downstream microRNA in osteosarcoma and investigated its potential regulation mechanism. Hsa_circ_0086996 (Circ_0086996) was found to upregulated in tumor tissue compared to adjacent tissue. Circ_0086996 was significantly overexpressed in osteosarcoma tissue, as well as in osteosarcoma cell lines of SAOS2 and MG-63. Circ_0086996 knockdown significantly suppressed cell proliferation, migration, and invasion. Circ_0086996 knockdown also induced cell cycle arrest in G0/G1 phaseand promoted cell apoptosis in SAOS2 and MG-63 cells. Bioinformatics analysis revealed that miR-125b-5p might be of complementary binding region with Circ_0086996, which was confirmed by dual-luciferase reporter assay. Moreover, Circ_0086996 could reverse the effect of miR-125b-5p, as knockdown of Circ_0086996 or application of miR-125b-5p both can inhibit cell proliferation, migration, invasion and promote cell apoptosis and cell cycle arrest. Our study discovers that Circ_0086996 acts as miR-125b-5p sponge to mediate the tumorigenicity, which could act as a potential biomarker for the osteosarcoma and provides a novel insight for the mechanism in osteosarcoma.
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http://dx.doi.org/10.1016/j.prp.2020.153230DOI Listing
November 2020

Encapsulating enzyme into metal-organic framework during in-situ growth on cellulose acetate nanofibers as self-powered glucose biosensor.

Biosens Bioelectron 2021 Jan 7;171:112690. Epub 2020 Oct 7.

Key Laboratory of Eco-Textiles, Ministry of Education, Jiangnan University, 1800 Lihu Avenue, Wuxi, Jiangsu Province, 214122, PR China. Electronic address:

Development of reliable Enzymatic Biofuel Cells (EBFC)-based self-powered glucose biosensor for continuous, noninvasive monitoring without restriction on patient's movement is highly recommendable. However, its application to a large extent is limited by the relatively poor stability. Herein, we synthesized a highly flexible electrode for effective enzyme immobilization by encapsulating enzyme into the metal-organic frameworks (MOFs) and robustly anchored to the cellulose acetate (CA) nanofiber membrane. As is well-known, such nanostructured fiber materials are the first time to be synthesized for glucose biosensor, which encapsulated biomolecules in MOFs platform during the MOFs in-situ growth on the nanofiber membranes. The as-proposed biosensor demonstrated excellent stability over 15 h of continuous long-term monitoring. The remarkable stability of assembled self-powered glucose biosensor in this work could inspire the application of enzymatic biosensors in biometrics, chronic disease management and clinical diagnosis.
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http://dx.doi.org/10.1016/j.bios.2020.112690DOI Listing
January 2021

Deubiquitinase UCHL5 is elevated and associated with a poor clinical outcome in lung adenocarcinoma (LUAD).

J Cancer 2020 23;11(22):6675-6685. Epub 2020 Sep 23.

Center for Translational Medicine, The Affiliated Zhangjiagang Hospital of Soochow University, 68 Jiyang West Road, Suzhou, 215600, China.

Lung cancer is one of the most common malignant tumors in the world, with a high rate of malignancy and mortality. Seeking new biomarkers and potential drug targets is urgent for effective treatment of the disease. Deubiquitinase UCHL5/UCH37, as an important component of the 26S proteasome, plays critical roles in ubiquitinated substrate degradation. Although previous studies have shown that UCHL5 promotes tumorigenesis, its role in lung cancer remains largely unknown. In this study, we evaluated the expression and clinical significance of UCHL5 in non-small cell lung cancer (NSCLC). The results demonstrated that the UCHL5 expression level was significantly upregulated in NSCLC tissues compared with the adjacent noncancerous tissues. The level of UCHL5 was associated with tumor size, lymph node invasion, TNM stage and malignant tumor history in patients with lung adenocarcinoma (LUAD). Importantly, high UCHL5 expression predicted a poor overall survival (OS) and a poor disease-free survival (DFS) in patients with LUAD. Univariate regression analysis showed that tumor size, lymph node invasion, TNM stage and UCHL5 expression were associated with OS and DFS in patients with LUAD. The multivariate analysis indicated that the UCHL5 expression level was an independent prognostic factor for OS (HR=1.171, 95% CI=1.052-1.303) and DFS (HR=1.143, 95% CI=1.031-1.267) in these patients. UCHL5 knockdown in LUAD cells significantly inhibited cell proliferation and reduced the expression of key cell cycle proteins. These findings indicate that UCHL5 may serve as a potential prognostic marker and a new therapeutic target for patients with LUAD.
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http://dx.doi.org/10.7150/jca.46146DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7545677PMC
September 2020