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Local adaptive evolution of two distinct clades of Beijing and T families of Mycobacterium tuberculosis in Chongqing:a Bayesian population structure and phylogenetic study

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Infectious Diseases of Poverty 2020年第3期9卷 134-135页

作者： Peng-kuan Liang Chao Zheng Xiao-Fang Xu Zhe-Ze Zhao chang-Song Zhao chang-He Li david Couvin Yann Reynaud Thierry Zozio Nalin Rastogiand Qun Sun key Laboratory of Bio-resources and Eco-environment of the Ministry of Education College of Life SciencesSichuan UniversityChengduSichuan 610065People’s Republic of China 不详

Background:Beijing sub-pedigree 2(BSP2)and T sub-lineage 6(TSL6)are two clades belonging to Beijing and T family of Mycobacterium tuberculosis(MTB),respectively,defined by Bayesian population structure analysis based on 24-loci mycobacterial interspersed repetitive unit-variable number of tandem repeats(MIRU-VNTR).Globally,over 99%of BSP2 and 89%of TSL6 isolates were distributed in Chongqing,suggesting their possible local adaptive *** objective of this paper is to explore whether BSP2 and TSL6 originated by their local adaptive evolution from the specific isolates of Beijing and T families in ***:The genotyping data of 16090 MTB isolates were collected from laboratory collection,published literatures and SITVIT database before subjected to Bayesian population structure analysis based on 24-loci *** Oligonucleotide Forest(Spoligoforest)and 24-loci MIRU-VNTR-based minimum spanning tree(MST)were used to explore their phylogenetic pathways,with Bayesian demographic analysis for exploring the recent demographic change of ***:Phylogenetic analysis suggested that BSP2 and TSL6 in Chongqing may evolve from BSP4 and TSL5,respectively,which were locally predominant in Tibet and Jiangsu,*** showed that Beijing and T families were genetically distant,while the convergence of the MIRU-VNTR pattern of BSP2 and TSL6 was revealed by *** demographic analysis concluded that the recent demographic change of TSL6 might take 111.25 ***:BSP2 and TSL6 clades might originate from BSP4 and TSL5,respectively,by their local adaptive evolution in *** study suggests MIRU-VNTR be combined with other robust markers for a more comprehensive genotyping approach,especially for families of clades with the same MIRU-VNTR pattern.

关键词： Mycobacterium tuberculosis Local adaptive evolution MIRU-VNTR Bayesian population structure analysis Phylogenetic analysis

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Bioreduction of nitrate in groundwater using a pilot-scale hydrogen-based membrane biofilm reactor

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Frontiers of Environmental Science & Engineering 2010年第3期4卷 280-285页

作者： Youneng TANG Michal ZIV-EL Chen ZHOU Jung Hun SHIN chang Hoon AHN kerry MEYER Daniel CANDELARIA david FRIESE Ryan OVERSTREET Rick SCOTT Bruce ERITTMANN Center for Environmental Biotechnology Biodesign Institute at Arizona State UniversityTempeAZ 85287USA CH2M Hill EnglewoodCO 80112USA Applied Process Technology Inc.Pleasant HillCA 94523USA City of Glendale GlendaleAZ 85303USA

A long-term pilot-scale H_(2)-based membrane biofilm reactor(MBfR)was tested for removal of nitrate from actual groundwater.A key feature of this secondgeneration pilot MBfR is that it employed lower cost polyester hollow fibers and still achieved high loading *** steady-state maximum nitrate surface loading at which the effluent nitrate and nitrite concentrations were below the Maximum Contaminant Level(MCL)was at least 5.9 g·N·(m^(2)·d)^(–1),which corresponds to a maximum volumetric loading of at least 7.7 kg·N·(m^(3)·d)^(–1).The steady-state maximum nitrate surface area loading was higher than the highest nitrate surface loading reported in the firstgeneration MBfRs using composite fibers(2.6 g·N·(m^(2)·d)^(–1)).This work also evaluated the H_(2)-utilization efficiency in *** measured H_(2)supply rate was only slightly higher than the stoichiometric H_(2)-utilization ***,H_(2)utilization was controlled by diffusion and was close to 100%efficiency,as long as biofilm accumulated on the polyester-fiber surface and the fibers had no leaks.

关键词： denitrification groundwater treatment hydrogen membrane biofilm reactor(MBfR) polyester fiber

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Macrophages are the primary effector cells in IL-7-induced arthritis

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Cellular & Molecular Immunology 2020年第7期17卷 728-740页

作者： Seung-jae kim Huan J.chang Michael VVolin Sadiq Umar katrien Van Raemdonck Aimee Chevalier karol Palasiewicz John W.Christman Suncica Volkov Shiva Arami Mehrdad Maz Anjali Mehta Ryan k.Zomorrodi david A.Fox Nadera Sweiss Shiva Shahrara Division of Rheumatology Jesse Brown VAMedical CenterChicagoIL 60612USA Department of Medicine Division of RheumatologyUniversity of Illinois at ChicagoChicagoIL 60612USA Department of Microbiology and Immunology Chicago College of Osteopathic MedicineMidwestern UniversityDowners GroveIL 60515USA Pulmonary Critical Care and Sleep MedicineOhio State University Wexner Medical CenterDavis Heart and Lung Research InstituteColumbusOH 43210USA Division of Allergy Clinical Immunology and RheumatologyThe University of Kansas Medical CenterKansas CityKS 66160USA Division of Rheumatology and Clinical Autoimmunity Center of Excellence University of MichiganAnn ArborMI 481096USA

Synovial macrophages are crucial in the development of joint inflammation and bone damage;however, the pathways that controlmacrophage remodeling in inflammatory M1 cells or bone-eroding osteoclasts are not fully understood. We determined thatelevated IL-7R/CD127 expression is the hallmark of rheumatoid arthritis (RA) M1 macrophages and that these cells are highlyresponsive to interleukin-7 (IL-7)-driven osteoclastogenesis. We established that lipopolysaccharide (LPS), interferon-γ (IFNγ), andtumor necrosis factor-α (TNFα), the classic M1 macrophage mediators, enhance IL-7R expression in RA and murine *** local expression of IL-7 provokes arthritis, predominantly through escalating the number of F480^(+)iNOS^(+) cells rather than CD3^(+)T cells. Ectopic LPS injection stabilizes IL-7-induced arthritis by increasing myeloid IL-7R expression, in part via IFNγ ***, in RAG−/− mice, IL-7-mediated arthritis is suppressed because of the reduction in myeloid IL-7R expression due to the lackof IFNγ. Moreover, the amelioration of IL-7-induced arthritis by anti-TNF therapy is due to a decrease in the number of cells in theunique F480^(+)iNOS^(+)IL-7R^(+)CCL5^(+) subset, with no impact on the F480^(+)Arginase^(+) cell or CD3^(+) T cell frequency. Consistent with thepreclinical findings, the findings of a phase 4 study performed with RA patients following 6 months of anti-TNF therapy revealedthat IL-7R expression was reduced without affecting the levels of IL-7. This study shifts the paradigm by discovering that IL-7-induced arthritis is dependent on F480^(+)iNOS^(+)IL-7R^(+)CCL5^(+) cell function, which activates TH-1 cells to amplify myeloid IL-7Rexpression and disease severity.

关键词： myeloid elevated inflammation

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Disease monitoring in inflammatory bowel disease

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World Journal of Gastroenterology 2015年第40期21卷 11246-11259页

作者： Shannon chang Lisa Malter david Hudesman Division of Gastroenterology New York University

The optimal method for monitoring quiescent disease in patients with Crohn's disease(CD) and ulcerative colitis is yet to be determined. Endoscopic evaluation with ileocolonoscopy is the gold standard but is invasive,costly,and time-consuming. There are many commercially available biomarkers that may be used in clinical practice to evaluate disease status in patients with inflammatory bowel disease(IBD),but the most widely adopted biomarkers are C-reactive protein(CRP) and fecal calprotectin(FC). This review summarizes the evidence for utilizing CRP and FC for monitoring IBD during clinical remission and after surgical resection. Endoscopic correlation with CRP and FC is evaluated in each disease state. Advantages and drawbacks of each biomarker are discussed with special consideration of isolated ileal CD. Fecal immunochemical testing,traditionally used for colorectal cancer screening,is mentioned as a potential new alternative assay in the evaluation of IBD. Based on a mixture of information gleaned from biomarkers,clinical status,and endoscopic evaluation,the best treatment decisions can be made for the patient with IBD.

关键词： Inflammatory bowel disease Crohn’s disease Ulcerat

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ADVISING score:a reliable grading scale based on injury and response for intracerebral haemorrhage

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Stroke & Vascular Neurology 2023年第2期8卷 111-118页

作者： Yan Wan Hongxiu Guo Shaoli Chen Jiang chang david Wang Rentang Bi Man Li ke Shi Zhaowei Wang Daokai Gong Jingwen Xu Quanwei He Bo Hu Department of Neurology Union HospitalTongji Medical CollegeHuazhong University of Science and TechnologyWuhanChina School of Public Health Tongji Medical CollegeHuazhong University of Science and TechnologyWuhanChina Neurovascular Division Department of NeurologyBarrow Neurological Institute/Saint Joseph Hospital Medical CenterPhoenixArizonaUSA Department of Neurology Qianjiang Central HospitalQianjiangHubeiChina Department of Neurology Jingzhou Central HospitalJingzhouHubeiChina Department of Neurology Honghu People's HospitalHonghuHubeiChina

Background Intracerebral haemorrhage(ICH)is the most devastating form of stroke causing high morbidity and *** aimed to develop a novel clinical score incorporating multisystem markers to predict functional dependence at 90 days after *** We analysed data from Chinese Cerebral Hemorrhage:Mechanism and Intervention *** logistic regression analysis was used to identify the factors associated with 90-day functional dependency(the modified Rankin Scale≥3)after ICH and develop the ADVISING scoring *** test the scoring system,a total of 2111 patients from Hubei province were included as the training cohort,and 733 patients from other three provinces in China were included as an external validation *** We found nine variables to be significantly associated with functional dependency and included in the ADVISING score system:age,deep location of haematoma,volume of haematoma,National Institutes of Health Stroke Scale,aspartate transaminase,international normalised ratio,neutrophil-lymphocyte ratio,fasting blood glucose and glomerular filtration *** were divided into 12 different categories by using these nine potential *** proportion of patients who were functionally dependent increased with higher ADVISING scores,which showed good discrimination and calibration in both the training cohort(C-statistic,0.866;p value of Hosmer-Lemeshow test,0.195)and validation cohort(C-statistic,0.884;p value of Hosmer-Lemeshow test,0.853).The ADVISING score also showed better discriminative performance compared with the other five existing ICH scores(p<0.001).Conclusions ADVISING score is a reliable tool to predict functional dependency at 90 days after ICH.

关键词： score statistic reliable

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健脾消脂方异病同治2型糖尿病合并脂代谢紊乱的网络药理学机制分析

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中国处方药 2024年第2期22卷 1-7页

作者：朱珠刘怀珍常硕安徽中医药大学第一临床医学院合肥230031 安徽中医药大学第一附属医院合肥230031

目的探讨健脾消脂方异病同治2型糖尿病(T2DM)合并脂代谢紊乱潜在作用机制。方法通过中药系统药理学分析平台(TCMSP)获得健脾消脂方中主要的活性成分及其潜在靶蛋白。利用GeneCards、OMIM和TTD数据库筛选出与T2DM、脂代谢紊乱相关的疾病... 详细信息

目的探讨健脾消脂方异病同治2型糖尿病(T2DM)合并脂代谢紊乱潜在作用机制。方法通过中药系统药理学分析平台(TCMSP)获得健脾消脂方中主要的活性成分及其潜在靶蛋白。利用GeneCards、OMIM和TTD数据库筛选出与T2DM、脂代谢紊乱相关的疾病靶点,并通过Cytoscape3.7.0软件构建“成分-靶点-基因-疾病”网络图;将T2DM、脂代谢紊乱的共同靶点导入STRING数据库构建蛋白质互作(PPI)网络图,并将PPI分析数据导入Cytoscape3.7.0软件中,筛选出健脾消脂方异病同治T2DM合并脂代谢紊乱的核心靶点,并构建核心靶点网络图。在david数据库中进行GO富集分析及kEGG通路富集分析。结果检索到健脾消脂方71种药物活性成分,262个有效靶点,2型糖尿病相关靶点2078个、脂代谢紊乱相关靶点1467个,药物与疾病的共同靶点133个。GO与kEGG分析表明健脾消脂方治疗T2DM合并脂代谢紊乱主要涉及晚期糖基化终末产物-糖基化终末产物受体(AGE-RAGE)信号通路、肿瘤坏死因子(TNF)信号通路、磷脂酰肌醇-3激酶/蛋白激酶B(PI3k-AkT)信号通路、缺氧诱导因子-1(HIF-1)信号通路、丝裂原活化蛋白激酶(MAPk)信号通路、白细胞介素-17(IL-17)信号通路等。结论健脾消脂方异病同治T2DM合并脂代谢紊乱可能是通过AGE-RAGE、TNF、PI3k-AkT、IL-17、HIF-1等信号通路改善了胰岛素抵抗和炎症反应。

关键词：健脾消脂方异病同治 T2DM合并脂代谢紊乱网络药理学作用机制

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Comparing imaging capabilities of spectral domain and swept source optical coherence tomography angiography in healthy subjects and central serous retinopathy

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Eye and Vision 2018年第1期5卷 182-190页

作者： Fupeng Wang Qinqin Zhang Anthony J.Deegan Jun chang Ruikang k.Wang Department of Bioengineering University of WashingtonSeattleWashington 98105USA School of Information Science and Engineering Shandong UniversityJinan 250100China

Background:There are two forms of system implementation of optical coherence tomography angiography(OCTA)in ophthalmic imaging,i.e.,spectral domain(SD-)and swept source OCTA(SS-OCTA).The purpose of this paper is to compare the SD-OCTA and SS-OCTA for elucidating structural and vascular features associated with central serous retinopathy(CSR),and to evaluate the effects of CSR on SD-and SS-OCTA’s imaging ***:Normal subjects and CSR patients were imaged by SD-and SS-OCTA using 3×3 mm and 6×6 mm scan *** signal strengths at the superficial retina,deep retina,Sattler’s layer and Haller’s layer were used to compare the ability of SD-and SS-OCTA to image structural *** addition,the ability to acquire angiograms were discussed by evaluating retinal vessel *** serous volume(CSV)was measured and it was correlated with difference in signal strengths(ΔS)between two OCTA ***:Seven normal eyes and seven diseased eyes were *** showed no significant differences between SD-and SS-OCT in detecting structural features of the retinal layer according to the paired ***,when imaging the Sattler’s layer for normal eyes,a significant difference is found between SD-and SS-OCT(p<0.0001 for 3×3 mm scan,and p=0.0002 for 6×6 mm);while for CSR eyes,the corresponding values were p<0.0001 and p=0.0003,*** Haller’s layer for normal eyes,the corresponding values were p=0.0004 and p=0.0014;and for CSR eyes,p=0.0004 and p<0.0001,respectively.A strong correlation betweenΔS and CSV was observed in the Sattler’s layer(3×3 mm–p=0.0031 and R^(2)=0.951;6×6 mm–p=0.0075 and R^(2)=0.911)and Haller’s layer(3×3 mm–p=0.0026 and R^(2)=0.955;6×6 mm–p=0.0013 and R^(2)=0.972).Conclusions:The results suggest no differences between SD-and SS-OCTA for imaging the retinal layers however,when imaging beyond retinal layers,SS-OCTA appears advantageous in detecting returning *** CSR cases,the CSV may have an impact on sub-C

关键词： Optical coherence tomography Spectral domain OCTA Swept source OCTA Central serous retinopathy Signal strength Central serous volume

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Detection of genotypic clarithromycin-resistant Helicobacter pylori by string tests

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World Journal of Gastroenterology 2014年第12期20卷 3343-3349页

作者： Jeng-Yih Wu Sophie S W Wang Yi-Chern Lee Yoshio Yamaoka david Y Graham chang-Ming Jan Wen-Ming Wang Deng-Chyang Wu Department of Internal Medicine Kaohsiung Municipal Ta-Tung Hospital Department of Medicine Faculty of MedicineCollege of MedicineKaohsiung Medical University Division of Gastroenterology Department of Internal MedicineKaohsiung Medical University Hospital Department of Medicine Veterans Affairs Medical Center and Baylor College of Medicine Division of Internal Medicine Kaohsiung Municipal Hsiao-Kang HospitalKaohsiung Medical University

AIM: To evaluate the utility of the string test to detect genotypic clarithromycin-resistant Helicobacter pylori (H. pylori) by polymerase chain reaction (PCR)-restriction fragment length polymorphism.

关键词： Helicobacter pylori String test Clarithromycin resistance Polymerase chain reaction-restriction fragment length polymorphism

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Advanced bioactive glue tethering Lubricin/PRG4 to promote integrated healing of avascular meniscus tears

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Bioactive Materials 2023年第10期28卷 61-73页

作者： Solaiman Tarafder Jaskirti Ghataure david Langford Rachel Brooke Ryunhyung kim Samantha Lewis Eyen Julian Bensadoun Jeffrey T.Felix James L.Cook chang H.Lee Regenerative Engineering Laboratory Columbia University Medical Center630 W.168 St.-VC12-212New YorkNY10032USA Thompson Laboratory for Regenerative Orthopaedics Missouri Orthopedic InstituteUniversity of Missouri1100 Virginia AvenueColumbi1MO65212USA

Meniscus injuries are extremely common with approximately one million patients undergoing surgical treatment annually in the U.S. alone, but no regenerative therapy exist. Previously, we showed that controlled applications of connective tissue growth factor (CTGF) and transforming growth factor beta 3 (TGFβ3) via fibrin-based bio-glue facilitate meniscus healing by inducing recruitment and stepwise differentiation of synovial mesenchymal stem/progenitor cells. Here, we first explored the potential of genipin, a natural crosslinker, to enhance fibrin-based glue’s mechanical and degradation properties. In parallel, we identified the harmful effects of lubricin on meniscus healing and investigated the mechanism of lubricin deposition on the injured meniscus surface. We found that the pre-deposition of hyaluronic acid (HA) on the torn meniscus surface mediates lubricin deposition. Then we implemented chemical modifications with heparin conjugation and CD44 on our bioactive glue to achieve strong initial bonding and integration of lubricin pre-coated meniscal tissues. Our data suggested that heparin conjugation significantly enhances lubricin-coated meniscal tissues. Similarly, CD44, exhibiting a strong binding affinity to lubricin and hyaluronic acid (HA), further improved the integrated healing of HA/lubricin pre-coated meniscus injuries. These findings may represent an important foundation for developing a translational bio-active glue guiding the regenerative healing of meniscus injuries.

关键词： knee meniscus Bioactive glue Stem cell recruitment Lubricin

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Generalizations of the Feline and Texas Chainsaw Josephus Problems

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Open Journal of Discrete Mathematics 2019年第4期9卷 144-158页

作者： david Ariyibi kevin chang Pamela E. Harris Department of Mathematics and Statistics Williams College Williamstown MA USA

We define and study the Extended Feline Josephus Game, a game in which n players, each with ℓlives, stand in a circle. The game proceeds by alternating between hitting k consecutive players—each of whom will consequently lose a life—and skipping s consecutive players. This cycle continues until every player except one loses all of their lives. Given the nonnegative integer parameters n, k, s and ℓ, the goal of the game is to identify the surviving player. In this paper, we show how the defining parameters n, k, s, and ℓaffect the survivor of games with specific constraints on those parameters and our main results provide new closed formulas to determine the survivor of these Extended Feline Josephus Games. Moreover, for cases where these formulas do not apply, we provide recursive formulas for reducing the initial game to other games with smaller parameter values. For the interested reader, we present a variety of directions for future work in this area, including an extension which considers players lying on a general graph, rather than on a circle.

关键词： Josephus Game Feline Josephus Game Texas Chainsaw Josephus Game

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