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Antigenic Structural Similarity as a Predictor for Antibody Cross-Reactivity 抗原结构相似性作为抗体交叉反应性的预测因子
Pub Date : 2021-09-20 DOI: 10.35248/2155-9597.21.S12.002
Christopher A. Beaudoin, T. Blundell
Antibodies are an essential component of the adaptive immune system that function to neutralize foreign invaders, such as bacterial and parasitic pathogens. However, B-cell epitopes remain difficult to predict due to their general indistinguishability from other protein regions. Epitope prediction tools in the past have largely relied on amino acid sequence similarity; however, implementing three-dimensional protein structure analyses into the epitope prediction algorithms has been shown to increase detection accuracy. Furthermore, structural comparisons between antigenic proteins for their potential to bind cross-reactive antibodies have not been explored extensively in the literature. Recent studies have pointed to the utility of looking at shared epitope structures in predicting antibody crossreactivity, which may shed light on cross-immunity between infectious pathogens and autoimmune diseases induced after infection. Thus, herein, the potential impact of including structural similarity comparisons in detecting shared epitopes is discussed. With the large amount of structural information being determined by three-dimensional computational protein modelling methods, the ability to perform these analyses is becoming more feasible.
抗体是适应性免疫系统的重要组成部分,其功能是中和外来入侵者,如细菌和寄生病原体。然而,由于b细胞表位与其他蛋白质区域一般难以区分,因此仍然难以预测。过去的表位预测工具主要依赖于氨基酸序列相似性;然而,在表位预测算法中实施三维蛋白质结构分析已被证明可以提高检测精度。此外,抗原蛋白结合交叉反应抗体的潜力的结构比较尚未在文献中广泛探讨。最近的研究指出,观察共享表位结构在预测抗体交叉反应性方面的效用,这可能有助于揭示感染性病原体与感染后诱导的自身免疫性疾病之间的交叉免疫。因此,本文讨论了包括结构相似性比较在内的检测共享表位的潜在影响。随着三维计算蛋白质建模方法确定了大量的结构信息,执行这些分析的能力变得更加可行。
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引用次数: 0
What is the Probability that a Vaccinated Person is Shielded from COVID-19? 接种疫苗的人不感染COVID-19的概率是多少?
Pub Date : 2021-02-15 DOI: 10.35248/2155-9597.21.S12.003
G. D'Agostini, Alfredo Esposito
Based on the information communicated in press releases, and finally published towards the end of 2020 by Pfizer, Moderna and AstraZeneca, we have built up a simple Bayesian model, in which the main quantity of interest plays the role of {em vaccine efficacy} (`$ε$'). The resulting Bayesian Network is processed by a Markov Chain Monte Carlo (MCMC), implemented in JAGS interfaced to R via rjags. As outcome, we get several probability density functions (pdf's) of $ε$, each conditioned on the data provided by the three pharma companies. The result is rather stable against large variations of the number of people participating in the trials and it is `somehow' in good agreement with the results provided by the companies, in the sense that their values correspond to the most probable value (`mode') of the pdf's resulting from MCMC, thus reassuring us about the validity of our simple model. However we maintain that the number to be reported as `vaccine efficacy' should be the mean of the distribution, rather than the mode, as it was already very clear to Laplace about 250 years ago (its `rule of succession' follows from the simplest problem of the kind). This is particularly important in the case in which the number of successes equals the numbers of trials, as it happens with the efficacy against `severe forms' of infection, claimed by Moderna to be 100%. The implication of the various uncertainties on the predicted number of vaccinated infectees is also shown, using both MCMC and approximated formulae.
根据辉瑞、Moderna和阿斯利康在2020年底发布的新闻稿中传达的信息,我们建立了一个简单的贝叶斯模型,其中主要的兴趣量起{em疫苗功效}(' $ε$')的作用。得到的贝叶斯网络由马尔可夫链蒙特卡罗(MCMC)处理,在JAGS中实现,通过JAGS与R接口。作为结果,我们得到了ε$的几个概率密度函数,每个函数都以三家制药公司提供的数据为条件。对于参与试验的人数的巨大变化,结果相当稳定,并且它“在某种程度上”与公司提供的结果非常一致,因为它们的值与MCMC产生的pdf的最可能值(“模式”)相对应,从而使我们确信我们的简单模型的有效性。然而,我们坚持认为,作为“疫苗效力”报告的数字应该是分布的平均值,而不是模型,因为拉普拉斯在大约250年前就已经非常清楚了(它的“继承规则”来自这类最简单的问题)。在成功的数量等于试验的数量的情况下,这一点尤为重要,因为它对“严重形式”感染的有效性是100%的,Moderna声称。使用MCMC和近似公式,还显示了各种不确定性对预测接种疫苗感染人数的影响。
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引用次数: 0
Prevalence and Epidemiology of Gastrointestinal Parasites in Cattle in Different Zones of Tehsil Chakwal, Punjab, Pakistan 巴基斯坦旁遮普省特希尔查克瓦尔不同地区牛胃肠道寄生虫的流行病学
Pub Date : 2021-01-01 DOI: 10.35248/2155-9597.21.S8.004
N. Abbas, M. Qayyum, M. Hasan, M. Shoaib, A. Zafar, A. Riaz, Riaz Hussain Pasah, M. Kamran
The study was conducted from March 2015 to February 2016 in different zones of Tehsil Chakwal in different breeds of cattle to detect the prevalence of gastrointestinal parasites. A total of the 1039 faecal samples were randomly collected from cattle in the study area and standard laboratory procedures were followed to determine the prevalence of gastrointestinal parasites. The study revealed that the overall prevalence of gastrointestinal parasites of cattle was 58.13% with maximum prevalence for trematodes (21.56%) following 18.48% for nematodes and 18.09% for cestodes. Highest prevalence was observed during the months of July and August. Exotic breeds were affected more than local breeds by the helminthes. Prevalence was higher in case of young and male animals as compared to adult and female animals respectively. Higher prevalence rates in the study showed the neglect of better management practices targeted at control of gastrointestinal parasites. It was concluded that age, gender, breed and season are the important factors which influence the epidemiology of gastrointestinal parasites.
该研究于2015年3月至2016年2月在特希尔查克瓦尔不同地区不同品种的牛中进行,以检测胃肠道寄生虫的流行情况。从研究区域的牛中随机收集了1039份粪便样本,并按照标准实验室程序确定胃肠道寄生虫的流行情况。结果表明,牛胃肠道寄生虫总体患病率为58.13%,其中吸虫最高(21.56%),线虫次之,为18.48%,绦虫为18.09%。7月和8月的流行率最高。外来品种受蠕虫的影响大于本地品种。与成年动物和雌性动物相比,年轻动物和雄性动物的患病率分别较高。研究中较高的患病率表明忽视了针对胃肠道寄生虫控制的更好的管理措施。结论:年龄、性别、品种和季节是影响胃肠道寄生虫流行病学的重要因素。
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引用次数: 2
Detection of Intestinal Parasites in Stool Samples by Microscopy and Real-Time PCR in Children with Vulnerable Living Conditions in Dakar, Senegal 塞内加尔达喀尔弱势生活条件儿童粪便中肠道寄生虫的显微镜和实时荧光定量PCR检测
Pub Date : 2021-01-01 DOI: 10.35248/2155-9597.21.12.398
Souléye Lélo, F. Ly, A. Lam, C. Fall, Issac Manga, Fassiatou Tairou, K. Sylla, M. Ndiaye, D. Sow, R. Tine, B. Faye
Background: Intestinal Parasitic Infections (IPIs) are considered a serious public health problem and widely distributed worldwide, mainly in urban and rural environments of tropical and subtropical countries. Globally, soil- transmitted helminths and protozoa are the most common intestinal parasites. Decreasing the prevalence of IPIs is one of the main aims of health services in these countries. This study was designed to determine the current status of IPIs in children with vulnerable living conditions by microscopy and PCR. Methodology/main findings: A cross-sectional population-based survey was conducted. One stool sample per participant (n=253) was examined by direct smear, Formal-Ether Concentration (FEC), and real-time PCR. It was found that 17.39% harboured at least one helminth while 12.64% harboured two helminths or more. Among the microscopic techniques, FEC was able to detect the broadest spectrum of parasite species. However, FEC also missed a considerable number of infections, notably S. stercoralis and G. intestinalis. PCR outperformed microscopy in terms of sensitivity and range of parasite species detected. Conclusion: It was shown that intestinal parasites, especially helminths were omnipresent in our population studies. Classical techniques such as FEC are useful for the detection of some intestinal helminth species, but they lack sensitivity for other parasite species. PCR can detect intestinal parasites more accurately but is generally not feasible in resource-poor settings, at least not in peripheral labs. Hence, there is a need for a more field-friendly, sensitive approach for on-the-spot diagnosis of parasitic infections.
背景:肠道寄生虫感染被认为是一个严重的公共卫生问题,在世界范围内广泛分布,主要发生在热带和亚热带国家的城市和农村环境中。在全球范围内,土壤传播的蠕虫和原生动物是最常见的肠道寄生虫。减少ipi的流行是这些国家卫生服务的主要目标之一。本研究旨在通过显微镜和PCR方法确定生活条件脆弱的儿童ipi的现状。方法/主要发现:进行了一项以人口为基础的横断面调查。通过直接涂片、甲醛乙醚浓度(FEC)和实时PCR检测每位参与者的一份粪便样本(n=253)。结果发现,17.39%的蚊虫孳生至少1只虫,12.64%的蚊虫孳生2只及以上虫。在显微镜技术中,FEC能够检测到最广泛的寄生虫种类。然而,FEC也遗漏了相当数量的感染,特别是S. stercoralis和G. testinalis。在检测到的寄生虫种类的敏感性和范围方面,PCR优于显微镜。结论:肠道寄生虫,尤其是寄生虫在我国种群研究中普遍存在。FEC等传统技术对某些肠道寄生虫种类的检测是有用的,但对其他寄生虫种类缺乏敏感性。PCR可以更准确地检测肠道寄生虫,但在资源贫乏的环境中通常是不可行的,至少在外围实验室是不可行的。因此,需要一种对现场更友好、更敏感的方法来现场诊断寄生虫感染。
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引用次数: 2
Sars-Cov2 Spike and Telomerase RNAandrsquo;s Compared to Arrive at an Explanation for Increased Ageing in Alveolar Cells in Severe COVID-19 Sars-Cov2尖峰和端粒酶rnaandsquo的比较得出了严重COVID-19患者肺泡细胞老化加剧的解释
Pub Date : 2021-01-01 DOI: 10.35248/2155-9597.21.12.396
H. Geurdes
In this letter we investigate if SARS-CoV-2 RNA is involved in the increased ageing of alveolar cells. Our in silico study is explorative. With the results we are able to outline experiments with AEC2 repair of bleomycin damaged alveolar cells. If AEC2 repair capability is diminished by spike RNA then perhaps this result provides a first step on a route to treat immortal lung cancer cells.
在这封信中,我们研究了SARS-CoV-2 RNA是否参与肺泡细胞的加速老化。我们的计算机研究是探索性的。结果表明,AEC2对博来霉素损伤肺泡细胞的修复具有重要意义。如果AEC2修复能力被刺突RNA削弱,那么这一结果可能为治疗不死肺癌细胞提供了第一步。
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引用次数: 0
Vaccine development for Staphylococcal Infectious Disease 葡萄球菌传染病疫苗的研制
Pub Date : 2021-01-01 DOI: 10.35248/2155-9597.21.S9.005
M. Murugan
Staphylococcus aureus is common bacterial pathogen which causes illnesses ranging from minor infections to life threatening diseases. This bacterium has become major cause of hospital acquired infections. It affects patients who has already weak immune system .It is mostly spread to others by contaminated hands and Skin. Due to skin damages, S.aureus may gain access to tissues or the blood stream and cause infection. These bacteria can survive on dry surfaces and increasing the chance of transmission. It cannot be eradicated by antibiotics like Methicillin, Vanomycin, etc, because it is an antibiotic resistant pathogen. So there is another way to prevent this pathogen’s infection by vaccination. In our lab, few experimental trials were conducted regarding identification and recommendation of various immunogens for vaccine development. The important Immunogens are inactivated cells, peptides, Nucleotides and their fragments .The natural plasmid DNA and their enzyme digested nucleotide fragments produce good immune responses.
金黄色葡萄球菌是一种常见的细菌病原体,可引起从轻微感染到危及生命的疾病。这种细菌已成为医院获得性感染的主要原因。它主要影响免疫系统已经较弱的患者,主要通过被污染的手和皮肤传播给他人。由于皮肤受损,金黄色葡萄球菌可能进入组织或血液并引起感染。这些细菌可以在干燥的表面存活,增加了传播的机会。甲氧西林、万诺霉素等抗生素无法根除,因为它是一种耐抗生素病原体。所以还有另一种预防病原体感染的方法就是接种疫苗。在我们的实验室中,很少进行各种免疫原的鉴定和推荐用于疫苗开发的实验试验。灭活细胞、多肽、核苷酸及其片段是重要的免疫原,天然质粒DNA及其酶切核苷酸片段产生良好的免疫应答。
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引用次数: 0
Analytics of Contagion in Inhomogeneous Random Social Networks 非同质随机社会网络中的传染分析
Pub Date : 2021-01-01 DOI: 10.35248/2155-9597.21.12.391
T. Hurd
The inhomogeneous random social network (IRSN) framework, designed to model the spread of COVID-19 and other infectious diseases, follows Einstein's dictum “that the supreme goal of all theory is to make the irreducible basic elements as simple and as few as possible without having to surrender the adequate representation of a single datum of experience.'' It adopts an agent-based perspective with a sample population of size N of individuals classified into an arbitrary number of types, capturing features such as age, profession etc. An individual may become infected by their social contacts via a dose-response mechanism, whereupon they themselves can infect others. The simplicity of the framework arises because of exchangeability: the individuals of each type are modelled as agents with identically distributed random characteristics.
非同质随机社会网络(IRSN)框架,旨在模拟COVID-19和其他传染病的传播,遵循爱因斯坦的格言“所有理论的最高目标是使不可约的基本元素尽可能简单和少,而不必放弃对单一经验数据的充分代表。”“它采用基于主体的视角,样本人口大小为N,将个体分为任意数量的类型,捕捉年龄、职业等特征。一个人可能通过剂量反应机制被其社会接触感染,然后他们自己可以传染给他人。框架的简单性源于可交换性:每种类型的个体都被建模为具有相同分布随机特征的代理。
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引用次数: 0
Occurrence of Ovine Haemonchosis Slaughtered at Abergele Export Abattoir, Northern Ethiopia 埃塞俄比亚北部Abergele出口屠宰场屠宰的羊流行性血病的发生
Pub Date : 2021-01-01 DOI: 10.35248/2155-9597.21.S10.001
Z. Endalew, B. Gebeyehu
A cross sectional study was conducted at Abergele export abattoir with the objectives of determining the occurrence of ovine haemonchosis and investigating potential risk factors associated with them. During the study period, a total of 380 abomasums of sheep, collected from randomly selected male sheep were examined on postmortem for the presence or absence of the parasite according to standard procedures. Among those, 200 sheep were positive for Haemonchus contortus with overall occurrence of 52.6%. The findings of this study exposed that the occurrence of ovine haemonchosis was more frequently recorded in adult (greater than one year) (28.6%) than in young (less than one year) sheep (23.9%). Based on body condition it was noticed that high occurrence was recorded in animals with medium body condition (29.7%), followed by poor body condition (13.2%) and the lowest were recorded in animals with good body condition (9.7 %).The highest occurrence was recorded during the month of April (16.3%), followed by February (12.9%), January (9.2%), December (8.2%) and the lowest occurrence was recorded during the month of March (6.05%). In this study, there was no statistically significant difference (P>0.05) observed with the risk factor like age, origin and months of inspection in relation to the occurrence of Haemonchus contortus. However, there was statistically significant difference (P<0.05) observed among the risk factors (body condition) in relation to the occurrence of Haemonchus contortus. In conclusion, the study revealed that the occurrence of ovine haemoncosis is high in Abergelle export abattoir slaughtered sheep and consequently affects the productivity of the sector. Hence appropriate disease prevention and control measures are requiring to be undertaken to reduce its impact.
在Abergele出口屠宰场进行了一项横断面研究,目的是确定绵羊血病的发生情况并调查与之相关的潜在危险因素。在研究期间,随机选取公羊380块皱胃,在死后按标准程序检查是否存在寄生虫。其中扭曲血蜱阳性200只,阳性率为52.6%。本研究的结果表明,成年羊(一岁以上)(28.6%)比幼年羊(一岁以下)(23.9%)更常发生绵羊血液病。从体况来看,体况中等的动物发病率最高(29.7%),体况较差的动物发病率次之(13.2%),体况较好的动物发病率最低(9.7%)。发病率最高的是4月(16.3%),其次是2月(12.9%)、1月(9.2%)、12月(8.2%),最低的是3月(6.05%)。本研究中,年龄、来源地、检查月份等危险因素与扭曲血蜱发生的关系无统计学差异(P < 0.05)。而与扭曲血蜱发生相关的危险因素(身体状况)间差异有统计学意义(P<0.05)。总之,该研究表明,在阿贝格勒出口屠宰场屠宰的绵羊中,绵羊血液病的发病率很高,因此影响了该部门的生产力。因此,需要采取适当的疾病预防和控制措施,以减少其影响。
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引用次数: 1
Level of Knowledge among Doctors and Nurses against Lassa Fever and the Control Mechanisms in FMC, Umuahia 乌穆阿希州FMC医生和护士对拉沙热的知识水平及控制机制
Pub Date : 2021-01-01 DOI: 10.35248/2155-9597.21.12.397
Onyenwe Chinyere Patience, Ezugworie Flora Nnenna, Ajaegbu Eze Elijah, Ogbonnaya Florence, Iloabuchi Lucy Chineye, Dieke Adaobi Janefrances, O. Gloria, Nwaobodo Angel Chineye, Ugochukwu Jane Ijeoma
Background: Lassa fever is a zoonotic viral infection caused by rodents and is presently endemic in some part of Nigeria. The cross infection prevention and control measures practiced by doctors and nurses in Federal Medical Centre (FMC) Umuahia in Abia state was assessed along with the readiness of the health workers on the current Lassa fever outbreak. Methods: Well-structured questionnaire was used to collect data from the respondents. Data on the level of knowledge of respondents and their risk perception on the outbreak were collected and the proportion of risk perception was estimated. Results: One hundred and one respondents were recorded, 97 (96.0%) were aware of the current outbreak, 46 (45.5%) are aware of person to person transmission while 41 (40.6%) are not. Risk perception among doctors and nurses is up to 90.1%, 5.9% are not but 4% are not sure whether they are at risk. Up to 89.1% of the respondents are educated on the precaution measures while others are ignorant of them. Always sanitizing of hand after contact with patients recorded 79 (78.2%), 76 (75.2%) always change their hand gloves between patients, 37 (36.6%) always use facemask while attending to patients, 87 (86.1%) always wear their hand gloves while handling patient’s body fluid and materials, 62 (61.4%) always wear their personal protective equipment while caring for patients. The rate of readiness of doctors and nurses in FMC Umuahia Abia state was rated over 100% and only 43 (42.6%) are ready for the outbreak, others are not prepared. Conclusion: From all indication, there is a gap in the flow of knowledge on prevention and cross infection control measures among doctors and nurses in FMC, Umuahia. Refresher training should be conducted and adequate preventive equipment made available.
背景:拉沙热是一种由啮齿动物引起的人畜共患病毒感染,目前在尼日利亚部分地区流行。评估了阿比亚州乌穆阿希亚联邦医疗中心医生和护士采取的交叉感染预防和控制措施,以及卫生工作者对当前拉沙热暴发的准备情况。方法:采用结构合理的调查问卷,对被调查者进行问卷调查。收集了应答者的知识水平及其对疫情的风险认知的数据,并估计了风险认知的比例。结果:101名被调查者中,97人(96.0%)知道当前疫情,46人(45.5%)知道人际传播,41人(40.6%)不知道。医生和护士的风险认知高达90.1%,5.9%不确定,4%不确定自己是否有风险。高达89.1%的受访者对预防措施进行了教育,而其他人对此一无所知。与患者接触后始终进行手部消毒79人(78.2%),患者间始终更换手套76人(75.2%),护理时始终佩戴口罩37人(36.6%),处理患者体液和材料时始终佩戴手套87人(86.1%),护理时始终佩戴个人防护用品62人(61.4%)。乌穆阿比亚州FMC的医生和护士的准备率超过100%,只有43人(42.6%)对疫情做好了准备,其他人没有做好准备。结论:从各指征来看,乌默亚州FMC的医护人员对预防和交叉感染控制措施的知识流通存在差距。应进行进修培训,并提供适当的预防设备。
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引用次数: 0
What Does the Name Change Entail: Differentiation of Strains for Bacterial Names 名称变化带来什么:细菌名称的菌株分化
Pub Date : 2021-01-01 DOI: 10.35248/2155-9597.21.12.E379
K. Rajagopal
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引用次数: 0
期刊
Journal of Bacteriology & Parasitology
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