scholarly journals Co-circulation of Chikungunya and Dengue viruses in Dengue endemic region of New Delhi, India during 2016

2018 ◽  
Vol 146 (13) ◽  
pp. 1642-1653 ◽  
Author(s):  
M. Hisamuddin ◽  
A. Tazeen ◽  
M. Abdullah ◽  
M. Islamuddin ◽  
N. Parveen ◽  
...  
Keyword(s):  
Viral Infections ◽  
Purifying Selection ◽  
Control Measures ◽  
Effective Control ◽  
New Delhi ◽  
Emerging Pathogens ◽  
Endemic Region ◽  
High Entropy ◽  
Genotype Iii ◽  
Two Samples

AbstractCo-circulation of Chikungunya and Dengue viral infections (CHIKV and DENV) have been reported mainly due to transmission by commonAedesvector. The purpose of the study was to identify and characterise the circulating strains of CHIKV and DENV in DENV endemic region of New Delhi during 2016. CHIKV and DENV were identified in the blood samples (n= 130) collected from suspected patients by RT-PCR. CHIKV was identified in 26 of 65 samples (40%). Similarly, DENV was detected in 48 of 120 samples (40%). Co-infection with both the viruses was identified in five (9%) of the samples. Interestingly, concurrent infection with DENV, CHIKV andPlasmodium vivaxwas detected in two samples. CHIKV strains (n= 11) belonged to the ECSA genotype whereas DENV-3 sequences (n= eight) clustered in Genotype III by phylogenetic analysis. Selection pressure of E1 protein of CHIKV and CprM protein of DENV-3 revealed purifying selection with four and two positive sites, respectively. Four amino acids of the CHIKV were positively selected and had high entropy suggesting probable variations. Co-circulation of both viruses in DENV endemic regions warrants effective monitoring of these emerging pathogens via comprehensive surveillance for implementation of effective control measures.

scholarly journals Nationwide Distribution of Dengue Virus Type 3 (DENV-3) Genotype I and Emergence of DENV-3 Genotype III during the 2019 Outbreak in Bangladesh

2021 ◽  
Vol 6 (2) ◽  
pp. 58
Author(s):  
Snigdha Rahman Titir ◽  
Shyamal Kumar Paul ◽  
Salma Ahmed ◽  
Nazia Haque ◽  
Syeda Anjuman Nasreen ◽  
...  
Keyword(s):  
Dengue Virus ◽  
Secondary Infection ◽  
Capital City ◽  
Endemic Region ◽  
Genotype I ◽  
Genotype Iii ◽  
Two Samples ◽  
Dengue Virus Type 3 ◽  
Type 3 ◽  
Epidemiological Characteristics

Bangladesh is an endemic region of dengue fever and experienced an unprecedented large outbreak with more than 100,000 confirmed cases in 2019. To understand the prevalence of dengue antibody in patients and molecular epidemiological characteristics of dengue virus (DENV) in this outbreak, a total of 179 blood samples were collected from patients in 10 districts (seven divisions) covering nearly the whole country from August to December 2019. DENV NS-1 was detected in 162 samples, among which DENV-specific IgM was positive in 119 samples (73.5%), including 60.5% samples also positive for DENV-specific IgG. Sequencing of the partial C-prM gene and its phylogenetic analysis revealed predominance of DENV type 3 genotype I, accounting for 93% of samples examined. DENV-3 genotype III was identified in two samples from separate districts, and only one DENV-2 cosmopolitan genotype was found in the capital city, Dhaka. These findings suggest the predominance of DENV-3 genotype I and occurrence of DENV-3 genotype III, associated with increased incidence of recent secondary infection in Bangladesh in 2019.

scholarly journals SARS-CoV-2 viral load peaks prior to symptom onset: a systematic review and individual-pooled analysis of coronavirus viral load from 66 studies

2020 ◽  
Author(s):  
Amy E Benefield ◽  
Laura A Skrip ◽  
Andrea Clement ◽  
Rachel A Althouse ◽  
Stewart Chang ◽  
...  
Keyword(s):  
Viral Load ◽  
Symptom Onset ◽  
Pooled Analysis ◽  
Interval Censoring ◽  
Additive Models ◽  
Control Measures ◽  
Effective Control ◽  
Emerging Pathogens ◽  
Transmission Potential ◽  
Viral Shedding

Background: Since the emergence of COVID-19, tens of millions of people have been infected, and the global death toll approached 1 million by September 2020. Understanding the transmission dynamics of emerging pathogens, such as SARS-CoV-2 and other novel human coronaviruses is imperative in designing effective control measures. Viral load contributes to the transmission potential of the virus, but findings around the temporal viral load dynamics, particularly the peak of transmission potential, remain inconsistent across studies due to limited sample sizes. Methods: We searched PubMed through June 8th 2020 and collated unique individual-patient data (IPD) from papers reporting temporal viral load and shedding data from coronaviruses. We analyzed viral load trajectories using a series of generalized additive models, and the duration of viral shedding by fitting log-normal models accounting for interval censoring. Results: We identified 115 relevant papers and obtained data from 66 (57.4%) - representing a total of 1198 patients across 14 countries. SARS-CoV-2 viral load peaks prior to symptom onset and remains elevated for up to three weeks, while MERS-CoV and SARS-CoV viral loads peak after symptom onset. SARS-CoV-2, MERS-CoV, and SARS-CoV had median viral shedding durations of 4.8, 4.2, and 1.2 days after symptom onset. Disease severity, age, and specimen type all have an effect on viral load, but sex does not. Discussion: Using a pooled analysis of the largest collection of IPD on viral load to date, we are the first to report that SARS-CoV-2 viral load peaks prior to -- not at -- symptom onset. Detailed estimation of the trajectories of viral load and virus shedding can inform the transmission, mathematical modeling, and clinical implications of SARS-CoV-2, MERS, and SARS infection.

scholarly journals New data on Echinococcus spp. in Southern Brazil

2006 ◽  
Vol 48 (2) ◽  
pp. 103-104 ◽  
Author(s):  
Mário L. de La Rue ◽  
Anke Dinkel ◽  
Ute Mackenstedt ◽  
Thomas Romig
Keyword(s):  
Cytochrome C Oxidase ◽  
Prepatent Period ◽  
Control Measures ◽  
Mitochondrial Cytochrome ◽  
Southern Brazil ◽  
Endemic Region ◽  
Two Samples ◽  
Cattle Strain ◽  
Sheep Strain ◽  
Echinococcus Spp

40 Echinococcus isolates from sheep and cattle in Southern Brazil were genetically analysed in order to obtain further data on the presence of different taxa of the Echinococcus granulosus complex. Differentiation was done using a PCR technique and sequencing of mitochondrial cytochrome c oxidase subunit 1 (CO1). Most samples (38) could be allocated to the sheep strain (G1) of E. granulosus, while two samples belonged to E. ortleppi, previously known as cattle strain (G5) of E. granulosus. Due to the shorter prepatent period in dogs of the latter taxon, this records have important implications for the design of control measures in this endemic region.

scholarly journals New Delhi metallo-beta-lactamase 1–producing Enterobacteriaceae: emergence and response in Europe

2010 ◽  
Vol 15 (46) ◽  
Author(s):  
M J Struelens ◽  
D L Monnet ◽  
A P Magiorakos ◽  
F Santos O’Connor ◽  
J Giesecke ◽  
...  
Keyword(s):  
Public Health ◽  
Indian Subcontinent ◽  
Control Measures ◽  
European Countries ◽  
Effective Control ◽  
New Delhi ◽  
Beta Lactamase ◽  
The European Union ◽  
National Guidance ◽  
Balkan Region

Acquired carbapenemases confer extensive antibiotic resistance to Enterobacteriaceae and represent a public health threat. A novel acquired carbapenemase, New Delhi metallo-beta-lactamase 1 (NDM-1), has recently been described in the United Kingdom and Sweden, mostly in patients who had received care on the Indian subcontinent. We conducted a survey among 29 European countries (the European Union Member States, Iceland and Norway) to gather information on the spread of NDM-1-producing Enterobacteriaceae in Europe, on public health responses and on available national guidance on detection, surveillance and control. A total of 77 cases were reported from 13 countries from 2008 to 2010. Klebsiella pneumoniae was the most frequently reported species with 54%. Among 55 cases with recorded travel history, 31 had previously travelled or been admitted to a hospital in India or Pakistan and five had been hospitalised in the Balkan region. Possible nosocomial acquisition accounted for 13 of 77 cases. National guidance on NDM-1 detection was available in 14 countries and on NDM-1 control in 11 countries. In conclusion, NDM-1 is spreading across Europe, where it is frequently linked to a history of healthcare abroad, but also to emerging nosocomial transmission. National guidance in response to the threat of carbapenemase-producing Enterobacteriaceae is available in approximately half of the surveyed European countries. Surveillance of carbapenemase- producing Enterobacteriaceae must be enhanced in Europe and effective control measures identified and implemented.

scholarly journals Emergent Pneumonia in Children

2021 ◽  
Vol 9 ◽  
Author(s):  
Cecilia Perret ◽  
Nicole Le Corre ◽  
Jose A. Castro-Rodriguez
Keyword(s):  
Pseudomonas Aeruginosa ◽  
Human Population ◽  
Stenotrophomonas Maltophilia ◽  
Control Measures ◽  
Effective Control ◽  
Resistant Bacteria ◽  
Emerging Pathogens ◽  
Appropriate Therapy ◽  
First Time ◽  
Multiple Pathogens

In recent decades there have been multiple pathogens, viruses and bacteria, which have emerged as causal agents of pneumonia affecting adults, albeit less frequently, to children. For the purposes of this article we have classified emerging pathogens as follows: True emerging, to pathogens identified for the very first time affecting human population (SARS-CoV-1, SARS-CoV-2, MERS-CoV, avian influenza, and hantavirus); Re-emerging, to known pathogens which circulation was controlled once, but they have reappeared (measles, tuberculosis, antimicrobial resistant bacteria such as CA-MRSA, Mycoplasma pneumoniae, Acinetobacter baumannii, Pseudomonas aeruginosa, Stenotrophomonas maltophilia, and new serotypes of post-vaccine pneumococcal); and finally, those that we have called old known with new presentations, including common pathogens that, in particular condition, have changed their form of presentation (rhinovirus, and non-SARS coronavirus). We will review for each of them their epidemiology, forms of presentation, therapy, and prognosis in children compared to the adult with the aim of being able to recognize them to establish appropriate therapy, prognostics, and effective control measures.

scholarly journals Emergence of Viral Infections through Food Supply Chain: A Review

2020 ◽  
pp. 83-90
Author(s):  
Rafiya Munshi ◽  
Afsah Iqbal
Keyword(s):  
Human Body ◽  
Food Chain ◽  
Viral Infections ◽  
Control Measures ◽  
Effective Control ◽  
Severe Illness ◽  
Global Epidemic ◽  
Wide Range ◽  
The World ◽  
Wet Market

All living organisms may act as host to a wide range of viruses, and can infect the human body causing severe illness or even death. Viruses have often been important in burdening infections and other illnesses and require special attention because of their different behaviour as compared to bacteria. Two highly pathogenic corona-viruses—severe acute respiratory syndrome (SARS) and Middle East respiratory syndrome (MERS)—supposed to be emerged from an wet market in china resulted in a global epidemic which took a tool on human lives and currently also the world is fighting a deadliest viral infection caused by a small pathogen possibly transmitted through the food chain in a wet market again in china. The environment is the reservoirs for many of these viruses and any human handling of animals carrying such viruses finds an easy route into human body. Besides, there had been various food borne outbreaks throughout the world due to contaminated agricultural produce, packaging, processed foods or through infected food handlers. Such incidents have prioritized the need for effective control measures, intensified research and risk assessment measures in controlling such outbreaks. This review highlights a brief description of viral transmissions, virus and human gut response and preventable strategies in the food chain to contain such infections.

scholarly journals Mixed Infections of Plant Viruses in Crops: Solo vs. Group Game

Proceedings ◽  
2020 ◽  
Vol 50 (1) ◽  
pp. 94
Author(s):  
Inmaculada Ferriol ◽  
Ornela Chase ◽  
María Luisa Domingo-Calap ◽  
Juan José López-Moya
Keyword(s):  
Molecular Mechanisms ◽  
Viral Infections ◽  
Complex Diseases ◽  
Plant Viruses ◽  
Plant Diseases ◽  
Control Measures ◽  
Effective Control ◽  
Economic Losses ◽  
Multiple Infections ◽  
Mixed Infections

Plant diseases are responsible for considerable economic losses in agriculture worldwide. Recent surveys and metagenomics approaches reveal a higher than expected incidence of complex diseases, like those caused by mixed viral infections. Particularly, frequent cases of mixed infections are co-infections or superinfections of plant viruses belonging to different genera in the families Potyviridae (Ipomovirus or Potyvirus) and Closteroviridae (Crinivirus). The outcome of such multiple infections could modify viral traits, such as host range, titer, tissue and cell tropisms, and even vector preference and transmission rates. Therefore, we believe that understanding the virus–virus, virus–host, and virus–vector interactions would be crucial for developing effective control measures. Since there is still limited knowledge about the molecular mechanisms underlying the different interactions, and how they might contribute to specific diseases in mixed infection, we are analyzing ipomovirus–crinivirus and potyvirus–crinivirus pathosystems, to better understand single and mixed infections in selected susceptible hosts (Cucurbitaceae and Convolvulaceae plants), also incorporating in the study the interactions with insect vectors (whiteflies and aphids). Among other strategies, we are engineering new biotechnological tools, to explore the molecular biology and transmission mechanisms of several viruses implicated in complex diseases, and we are also addressing the possibility to produce virus-like particles (VLPs) through transient expression of the CP of different viruses in Nicotiana benthamiana plants, with the aim to study requirements for virion formation and determinants of transmission. Work supported by project AGL2016-75529-R and grant “Severo-Ochoa” SEV-2015-0533.

Characterizing the effectiveness of COVID-19 mitigation measures: A data-centric approach (Preprint)

2020 ◽  
Author(s):  
Lukman Olagoke ◽  
Ahmet E. Topcu
Keyword(s):  
Control Measure ◽  
Control Measures ◽  
World Health ◽  
Mitigation Measures ◽  
Effective Control ◽  
The World ◽  
Decision Making Processes ◽  
And Performance ◽  
Health Organization ◽  
The Impact

BACKGROUND COVID-19 represents a serious threat to both national health and economic systems. To curb this pandemic, the World Health Organization (WHO) issued a series of COVID-19 public safety guidelines. Different countries around the world initiated different measures in line with the WHO guidelines to mitigate and investigate the spread of COVID-19 in their territories. OBJECTIVE The aim of this paper is to quantitatively evaluate the effectiveness of these control measures using a data-centric approach. METHODS We begin with a simple text analysis of coronavirus-related articles and show that reports on similar outbreaks in the past strongly proposed similar control measures. This reaffirms the fact that these control measures are in order. Subsequently, we propose a simple performance statistic that quantifies general performance and performance under the different measures that were initiated. A density based clustering of based on performance statistic was carried out to group countries based on performance. RESULTS The performance statistic helps evaluate quantitatively the impact of COVID-19 control measures. Countries tend show variability in performance under different control measures. The performance statistic has negative correlation with cases of death which is a useful characteristics for COVID-19 control measure performance analysis. A web-based time-line visualization that enables comparison of performances and cases across continents and subregions is presented. CONCLUSIONS The performance metric is relevant for the analysis of the impact of COVID-19 control measures. This can help caregivers and policymakers identify effective control measures and reduce cases of death due to COVID-19. The interactive web visualizer provides easily digested and quick feedback to augment decision-making processes in the COVID-19 response measures evaluation. CLINICALTRIAL Not Applicable

scholarly journals Effectiveness of Epidemic Preventive Policies and Hospital Strategies in Combating COVID-19 Outbreak in Taiwan

2021 ◽  
Vol 18 (7) ◽  
pp. 3456
Author(s):  
Ting Wan Tan ◽  
Han Ling Tan ◽  
Man Na Chang ◽  
Wen Shu Lin ◽  
Chih Ming Chang
Keyword(s):  
Mortality Rate ◽  
Incidence Rate ◽  
Risk Ratio ◽  
Early Stage ◽  
Control Measures ◽  
Polymerase Chain Reaction Test ◽  
Effective Control ◽  
Nasopharyngeal Swab ◽  
Preventive Strategies ◽  
Epidemic Control

(1) Background: The implementation of effective control measures in a timely fashion is crucial to control the epidemic outbreak of COVID-19. In this study, we aimed to analyze the control measures implemented during the COVID-19 outbreak, as well as evaluating the responses and outcomes at different phases for epidemic control in Taiwan. (2) Methods: This case study reviewed responses to COVID-19 and the effectiveness of a range of control measures implemented for epidemic control in Taiwan and assessed all laboratory-confirmed cases between 11 January until 20 December 2020, inclusive of these dates. The confirmation of COVID-19 infection was defined as the positive result of a reverse-transcriptase–polymerase-chain-reaction test taken from a nasopharyngeal swab. Test results were reported by the Taiwan Centers for Disease Control. The incidence rate, mortality rate, and testing rate were compiled, and the risk ratio was provided to gain insights into the effectiveness of prevention measures. (3) Results and Discussion: This study presents retrospective data on the COVID-19 incidence rate in Taiwan, combined with the vital preventive control measures, in a timeline of the early stage of the epidemic that occurred in Taiwan. The implementation of multiple strategy control measures and the assistance of technologies to control the COVID-19 epidemic in Taiwan led to a relatively slower trend in the outbreak compared to the neighboring countries. In Taiwan, 766 confirmed patients were included, comprised of 88.1% imported cases and 7.2% local transmission cases, within the studied period. The incidence rate of COVID-19 in Taiwan during the studied period was 32 per million people, with a mortality rate of 0.3 per million people. Our analysis showed a significantly raised incidence risk ratio in the countries of interest in comparison to Taiwan during the study period; in the range of 1.9 to 947.5. The outbreak was brought under control through epidemic policies and hospital strategies implemented by the Taiwan Government. (4) Conclusion: Taiwan’s preventive strategies resulted in a drastically lower risk for Taiwan nationals of contracting COVID-19 when new pharmaceutical drug or vaccines were not yet available. The preventive strategies employed by Taiwan could serve as a guide and reference for future epidemic control strategies.

scholarly journals Molecular Identification of Mushroom Species in Italy: An Ongoing Project Aimed at Reinforcing the Control Measures of an Increasingly Appreciated Sustainable Food

2020 ◽  
Vol 13 (1) ◽  
pp. 238
Author(s):  
Alice Giusti ◽  
Enrica Ricci ◽  
Laura Gasperetti ◽  
Marta Galgani ◽  
Luca Polidori ◽  
...  
Keyword(s):  
Selection Process ◽  
Winning Strategy ◽  
Control Measures ◽  
Effective Control ◽  
Mushroom Poisoning ◽  
Clinical Samples ◽  
Similar Species ◽  
Mushroom Species ◽  
Ongoing Research ◽  
Genotypic Analysis

Proper investment in mushroom production (farming and wild mushroom picking activities) may represent a winning strategy for many countries, including Italy, to better face the problems of food security and environmental impact, and to break away from imports, enhancing the local products. However, the risk related to the consumption of poisoning species requires governments to implement or reinforce effective control measures to protect consumers. Mushroom identification by phenotype observation is hardly applicable if morphologically-similar species, non-whole specimens, or clinical samples are involved. Genotypic analysis is a valid alternative. An ongoing research project involving the Experimental Zooprophylactic Institute of Lazio and Tuscany, the regional Mycological Inspectorate, the Tuscany Mycological Groups Association, and the Department of Veterinary Sciences of the University of Pisa aims to reinforce the collaboration among institutions for the management of mushroom poisoning. The core’s project aims to develop an internal genetic database to support the identification of wild and cultivated mushroom species in the Italian territory. The database will include Internal Transcribed Spacer (ITS) sequences retrieved from official databases (the NCBI GenBank and the BOLD system) which are considered to be reliable, after a proper selection process, and sequences from specimens collected directly and identified by expert mycologists. Once it is validated, the database will be available and further implementable by the official network of national laboratories.

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