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Infectious disease dynamics

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https://www.readbyqxmd.com/read/28545083/simultaneous-inference-of-phylogenetic-and-transmission-trees-in-infectious-disease-outbreaks
#1
Don Klinkenberg, Jantien A Backer, Xavier Didelot, Caroline Colijn, Jacco Wallinga
Whole-genome sequencing of pathogens from host samples becomes more and more routine during infectious disease outbreaks. These data provide information on possible transmission events which can be used for further epidemiologic analyses, such as identification of risk factors for infectivity and transmission. However, the relationship between transmission events and sequence data is obscured by uncertainty arising from four largely unobserved processes: transmission, case observation, within-host pathogen dynamics and mutation...
May 2017: PLoS Computational Biology
https://www.readbyqxmd.com/read/28542182/modelling-the-transmission-and-control-strategies-of-varicella-among-school-children-in-shenzhen-china
#2
Xiujuan Tang, Shi Zhao, Alice P Y Chiu, Hanwu Ma, Xu Xie, Shujiang Mei, Dongfeng Kong, Yanmin Qin, Zhigao Chen, Xin Wang, Daihai He
OBJECTIVES: Varicella (chickenpox) is a highly transmissible childhood disease. Between 2010 and 2015, it displayed two epidemic waves annually among school populations in Shenzhen, China. However, their transmission dynamics remain unclear and there is no school-based vaccination programme in Shenzhen to-date. In this study, we developed a mathematical model to compare a school-based vaccination intervention scenario with a baseline (i.e. no intervention) scenario. METHODS: Data on varicella reported cases were downloaded from the Infectious Disease Reporting Information Management System...
2017: PloS One
https://www.readbyqxmd.com/read/28539663/modelling-farm-to-farm-disease-transmission-through-personnel-movements-from-visits-to-contacts-and-back
#3
Gianluigi Rossi, Rebecca L Smith, Stefano Pongolini, Luca Bolzoni
Infectious diseases in livestock can be transmitted through fomites: objects able to convey infectious agents. Between-farm spread of infections through fomites is mostly due to indirect contacts generated by on-farm visits of personnel that can carry pathogens on their clothes, equipment, or vehicles. However, data on farm visitors are often difficult to obtain because of the heterogeneity of their nature and privacy issues. Thus, models simulating disease spread between farms usually rely on strong assumptions about the contribution of indirect contacts on infection spread...
May 24, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28539446/infectious-prions-in-the-pregnancy-microenvironment-of-cwd-infected-reeves-muntjac-deer
#4
Amy V Nalls, Erin McNulty, Clare E Hoover, Laura A Pulscher, Edward A Hoover, Candace K Mathiason
Ample evidence exists for the presence of infectious agents at the maternal-fetal interface, often with grave outcomes to the developing fetus (i.e. zika virus, brucella, cytomegalovirus, toxoplasma). While less studied, pregnancy-related transmissible spongiform encephalopathies (TSEs) have been implicated in several species, including humans. Our previous work has shown that prions can be transferred from mother-to-offspring resulting in the development of clinical TSE disease in offspring born to CWD-infected muntjac dams (64)...
May 24, 2017: Journal of Virology
https://www.readbyqxmd.com/read/28537263/evolutionary-dynamics-and-genomic-features-of-the-elizabethkingia-anophelis-2015-to-2016-wisconsin-outbreak-strain
#5
Amandine Perrin, Elise Larsonneur, Ainsley C Nicholson, David J Edwards, Kristin M Gundlach, Anne M Whitney, Christopher A Gulvik, Melissa E Bell, Olaya Rendueles, Jean Cury, Perrine Hugon, Dominique Clermont, Vincent Enouf, Vladimir Loparev, Phalasy Juieng, Timothy Monson, David Warshauer, Lina I Elbadawi, Maroya Spalding Walters, Matthew B Crist, Judith Noble-Wang, Gwen Borlaug, Eduardo P C Rocha, Alexis Criscuolo, Marie Touchon, Jeffrey P Davis, Kathryn E Holt, John R McQuiston, Sylvain Brisse
An atypically large outbreak of Elizabethkingia anophelis infections occurred in Wisconsin. Here we show that it was caused by a single strain with thirteen characteristic genomic regions. Strikingly, the outbreak isolates show an accelerated evolutionary rate and an atypical mutational spectrum. Six phylogenetic sub-clusters with distinctive temporal and geographic dynamics are revealed, and their last common ancestor existed approximately one year before the first recognized human infection. Unlike other E...
May 24, 2017: Nature Communications
https://www.readbyqxmd.com/read/28528587/persistent-infections-support-maintenance-of-a-coronavirus-in-a-population-of-australian-bats-myotis-macropus
#6
J Jeong, C S Smith, A J Peel, R K Plowright, D H Kerlin, J McBroom, H McCallum
Understanding viral transmission dynamics within populations of reservoir hosts can facilitate greater knowledge of the spillover of emerging infectious diseases. While bat-borne viruses are of concern to public health, investigations into their dynamics have been limited by a lack of longitudinal data from individual bats. Here, we examine capture-mark-recapture (CMR) data from a species of Australian bat (Myotis macropus) infected with a putative novel Alphacoronavirus within a Bayesian framework. Then, we developed epidemic models to estimate the effect of persistently infectious individuals (which shed viruses for extensive periods) on the probability of viral maintenance within the study population...
May 22, 2017: Epidemiology and Infection
https://www.readbyqxmd.com/read/28526790/post-epizootic-persistence-of-asymptomatic-mycoplasma-conjunctivae-infection-in-iberian-ibex
#7
Xavier Fernández-Aguilar, Oscar Cabezón, José Enrique Granados, Joachim Frey, Emmanuel Serrano, Roser Velarde, Francisco Javier Cano-Manuel, Gregorio Mentaberre, Arián Ráez-Bravo, Paulino Fandos, Jorge Ramón López-Olvera
The susceptibility of Iberian ibex (Capra pyrenaica) to Mycoplasma conjunctivae ocular infection and the changes in their interaction over time were studied in terms of clinical outcome, molecular detection and IgG immune response in a captive population that underwent a severe infectious keratoconjunctivitis (IKC) outbreak. Mycoplasma conjunctivae was detected for the first time in the Iberian ibexes coinciding with the IKC outbreak. Its prevalence had a decreasing trend in 2013 that was consistent with the clinical resolution (August 35...
May 19, 2017: Applied and Environmental Microbiology
https://www.readbyqxmd.com/read/28524366/contrasting-hcv-and-hiv-seroepidemiology-in-11-years-of-blood-donors-screening-in-brazil
#8
J E Levi, S M Lira, C B Bub, M B Polite, C C Terzian, J M Kutner
BACKGROUND: Blood donors are, in principle, healthy individuals who may be revealed as infectious for blood-borne agents by the laboratory screening process, depicting the asymptomatic burden of the disease. Therefore, monitoring hepatitis C virus (HCV)-infected donor and human immunodeficiency virus (HIV)-infected donor and associating to their demographical and behavioural characteristics may shed light on the dynamics and contemporary changes in these viruses' epidemiology. METHODS: Donors presenting repeatedly reactive HCV or HIV serology/nucleic acid testing (NAT) screening results were submitted to confirmatory testing...
May 19, 2017: Transfusion Medicine
https://www.readbyqxmd.com/read/28521769/modeling-the-dynamics-of-mouse-iron-body-distribution-hepcidin-is-necessary-but-not-sufficient
#9
Jignesh H Parmar, Grey Davis, Hope Shevchuk, Pedro Mendes
BACKGROUND: Iron is an essential element of most living organisms but is a dangerous substance when poorly liganded in solution. The hormone hepcidin regulates the export of iron from tissues to the plasma contributing to iron homeostasis and also restricting its availability to infectious agents. Disruption of iron regulation in mammals leads to disorders such as anemia and hemochromatosis, and contributes to the etiology of several other diseases such as cancer and neurodegenerative diseases...
May 18, 2017: BMC Systems Biology
https://www.readbyqxmd.com/read/28521213/phylogenetic-analysis-of-an-epidemic-outbreak-of-acute-hepatitis-c-in-hiv-infected-patients-by-ultra-deep-pyrosequencing
#10
Noelia Caro-Pérez, María Martínez-Rebollar, Josep Gregori, Josep Quer, Patricia González, Martina Gambato, Neris García-González, Fernando González-Candelas, Josep Costa, Juan Ignacio Esteban, Josep Mallolas, Xavier Forns, Montse Laguno, Sofía Pérez-Del-Pulgar
BACKGROUND: The incidence of acute hepatitis C (AHC) among HIV-infected men who have sex with men (MSM) has increased significantly in the last 10 years. Several studies point to a social and sexual network of HIV-positive MSM that extends internationally. OBJECTIVES: The aim of our study was to investigate the dynamics of HCV transmission in an outbreak of AHC in HIV-infected MSM in Barcelona by ultra-deep pyrosequencing. STUDY DESIGN: Between 2008 and 2013, 113 cases of AHC in HIV-infected MSM were diagnosed in the Infectious Diseases Unit, Hospital Clínic, Barcelona...
May 10, 2017: Journal of Clinical Virology: the Official Publication of the Pan American Society for Clinical Virology
https://www.readbyqxmd.com/read/28520525/companion-and-point-of-care-sensor-system-for-rapid-multiplexed-detection-of-a-panel-of-infectious-disease-markers
#11
Anjan Panneer Selvam, Shalini Prasad
A nanochannel-based electrochemical biosensor has been demonstrated for rapid and multiplexed detection of a panel of three biomarkers associated with rapid detection of sepsis. The label-free biosensor detected procalcitonin (PCT), lipoteichoic acid (LTA), and lipopolysaccharide (LPS) from human whole blood. The biosensor comprises a nanoporous nylon membrane integrated onto a microelectrode sensor platform for nanoconfinement effects. Charge perturbations due to biomarker binding are recorded as impedance changes using electrochemical impedance spectroscopy...
June 2017: SLAS Technology
https://www.readbyqxmd.com/read/28515133/development-of-a-novel-virus-like-particle-vaccine-platform-that-mimics-immature-form-of-alphavirus
#12
Akane Urakami, Atsuko Sakurai, Momoko Ishikawa, Moh Lan Yap, Yevel Flores-Garcia, Yasunari Haseda, Taiki Aoshi, Fidel P Zavala, Michael G Rossmann, Sachiko Kuno, Ryuji Ueno, Wataru Akahata
Virus-like particles (VLPs) are non-infectious multiprotein structures that are engineered to self-assemble from viral structural proteins. Here, we developed a novel VLP-based vaccine platform utilizing VLPs from the Chikungunya virus. We identified two regions within the envelope protein, a structural component of Chikungunya, where foreign antigens can be inserted without compromising VLP structure. Our VLP displays 480 copious copies of an inserted antigen on the VLP surface in a highly symmetric manner, thus capable of inducing strong immune responses against any inserted antigen...
May 17, 2017: Clinical and Vaccine Immunology: CVI
https://www.readbyqxmd.com/read/28511708/enzyme-mediated-formulation-of-stable-elliptical-silver-nanoparticles-tested-against-clinical-pathogens-and-mdr-bacteria-and-development-of-antimicrobial-surgical-thread
#13
Rupak Thapa, Chintan Bhagat, Pragya Shrestha, Suvash Awal, Pravin Dudhagara
BACKGROUND: Silver nanoparticles (AgNPs) are believed to be emerging tool against various infectious diseases including multi-drug resistant (MDR) bacteria. In the present study, in vitro synthesis of AgNPs was optimized using 1:50 ratio of macerozyme (25 μg/μl) and 1 mM AgNO3 incubated at 80 °C for 8 h. AgNPs were characterized by UV-Visible spectroscopy, dynamic light scattering (DLS), scanning electron microscopy, energy-dispersive X-ray spectroscopy, transmission electron microscopy (TEM) and X-ray diffraction (XRD)...
May 16, 2017: Annals of Clinical Microbiology and Antimicrobials
https://www.readbyqxmd.com/read/28502018/evolutionary-processes-in-populations-of-cryptosporidium-inferred-from-gp60-sequence-data
#14
Juan C Garcia-R, David T S Hayman
Cryptosporidiosis is one of the most common human infectious diseases globally. The gp60 gene has been adopted as a key marker for molecular epidemiological investigations into this protozoan disease because of the capability to characterize genotypes and detect variants within Cryptosporidium species infecting humans. However, we know relatively little about the potential spatial and temporal variation in population demography that can be inferred from this gene beyond that it is recognized to be under selective pressure...
May 13, 2017: Parasitology Research
https://www.readbyqxmd.com/read/28494705/brucellosis-in-endangered-hector-s-dolphins-cephalorhynchus-hectori
#15
K Buckle, W D Roe, L Howe, S Michael, P J Duignan, E Burrows, H Ha, S Humphrey, W L McDonald
Brucella spp infections of marine mammals are often asymptomatic but have been associated with reproductive losses and deaths. Zoonotic infections originating from marine isolates have also been described. Hector's dolphins (Cephalorhynchus hectori) are an endangered species with a declining population, and the role of infectious disease in population dynamics is not fully understood. In this study, 27 Hector's dolphins found dead around the New Zealand coastline between November 2006 and October 2010 were evaluated for lesions previously associated with cetacean brucellosis...
January 1, 2017: Veterinary Pathology
https://www.readbyqxmd.com/read/28493054/the-dynamics-of-a-seir-sirc-antigenic-drift-influenza-model
#16
Fajar Adi-Kusumo
We consider the dynamics of an influenza model with antigenic drift mechanism. Antigenic drift is an antigen mutation on the skin surface of the influenza virus that do not produce a new virus strain. The mutation produces the same virus but with slightly different antigens that cannot be recognized by the immune receptors formed by the previous infection. There are some type of influenza that involve the interaction between two populations such as human and animal. In this paper, we construct an influenza model with antigenic drift mechanism on the human population that has interaction with the animal population...
May 10, 2017: Bulletin of Mathematical Biology
https://www.readbyqxmd.com/read/28492179/virulence-variation-among-strains-of-the-emerging-infectious-fungus-batrachochytrium-dendrobatidis-bd-in-multiple-amphibian-host-species
#17
Trang D Dang, Catherine L Searle, Andrew R Blaustein
Emerging infectious diseases have been documented in numerous plant and animal populations. The infectious disease amphibian chytridiomycosis, caused by the fungus Batrachochytrium dendrobatidis (Bd), is associated with global amphibian population declines. While much Bd-amphibian research has centered on response variation in hosts, a paucity of information exists on how variation in the pathogen, such as strain differences, affects infection dynamics. To examine how different Bd strains may differentially impact multiple hosts, we conducted laboratory experiments to measure 2 infection outcomes, viz...
May 11, 2017: Diseases of Aquatic Organisms
https://www.readbyqxmd.com/read/28480928/differential-flap-dynamics-in-l-d-transpeptidase2-from-mycobacterium-tuberculosis-revealed-by-molecular-dynamics
#18
Zeynab Fakhar, Thavendran Govender, Glenn E M Maguire, Gyanu Lamichhane, Ross C Walker, Hendrik G Kruger, Bahareh Honarparvar
Despite the advances in tuberculosis treatment, TB is still one the most deadly infectious diseases and remains a major global health quandary. Mycobacterium tuberculosis (Mtb) is the only known mycobacterium with a high content of 3→3 crosslinks in the biosynthesis of peptidoglycan, which is negligible in most bacterial species. An Mtb lacking LdtMt2 leads to alteration of the colony morphology and loss of virulence which makes this enzyme an attractive target. Regardless of the vital role of LdtMt2 for cell wall survival, the impact of ligand binding on the dynamics of the β-hairpin flap is still unknown...
May 8, 2017: Molecular BioSystems
https://www.readbyqxmd.com/read/28471111/intelligent-diagnosis-of-jaundice-with-dynamic-uncertain-causality-graph-model
#19
Shao-Rui Hao, Shi-Chao Geng, Lin-Xiao Fan, Jia-Jia Chen, Qin Zhang, Lan-Juan Li
Jaundice is a common and complex clinical symptom potentially occurring in hepatology, general surgery, pediatrics, infectious diseases, gynecology, and obstetrics, and it is fairly difficult to distinguish the cause of jaundice in clinical practice, especially for general practitioners in less developed regions. With collaboration between physicians and artificial intelligence engineers, a comprehensive knowledge base relevant to jaundice was created based on demographic information, symptoms, physical signs, laboratory tests, imaging diagnosis, medical histories, and risk factors...
May 2017: Journal of Zhejiang University. Science. B
https://www.readbyqxmd.com/read/28468874/transmission-bottleneck-size-estimation-from-pathogen-deep-sequencing-data-with-an-application-to-human-influenza-a-virus
#20
Ashley Sobel Leonard, Daniel Weissman, Benjamin Greenbaum, Elodie Ghedin, Katia Koelle
The bottleneck governing infectious disease transmission describes the size of the pathogen population transferred from donor to recipient host. Accurate quantification of the bottleneck size is particularly important for rapidly evolving pathogens such as influenza virus, as narrow bottlenecks reduce the amount of transferred viral genetic diversity and, thus, may slow the rate of viral adaptation. Previous studies have estimated bottleneck sizes governing viral transmission using statistical analyses of variants identified in pathogen sequencing data...
May 3, 2017: Journal of Virology
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