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https://www.readbyqxmd.com/read/28102319/temporal-topic-modeling-to-assess-associations-between-news-trends-and-infectious-disease-outbreaks
#1
Saurav Ghosh, Prithwish Chakraborty, Elaine O Nsoesie, Emily Cohn, Sumiko R Mekaru, John S Brownstein, Naren Ramakrishnan
In retrospective assessments, internet news reports have been shown to capture early reports of unknown infectious disease transmission prior to official laboratory confirmation. In general, media interest and reporting peaks and wanes during the course of an outbreak. In this study, we quantify the extent to which media interest during infectious disease outbreaks is indicative of trends of reported incidence. We introduce an approach that uses supervised temporal topic models to transform large corpora of news articles into temporal topic trends...
January 19, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28101934/detection-of-neonatal-unit-clusters-of-candida-parapsilosis-fungaemia-by-microsatellite-genotyping-results-from-laboratory-based-sentinel-surveillance-south-africa-2009-2010
#2
Rindidzani E Magobo, Serisha D Naicker, Jeannette Wadula, Maphoshane Nchabeleng, Yacoob Coovadia, Anwar Hoosen, Shawn R Lockhart, Nelesh P Govender
Neonatal candidaemia is a common, deadly and costly hospital-associated disease. To determine the genetic diversity of Candida parapsilosis causing fungaemia in South African neonatal intensive care units (NICUs). From February 2009 through to August 2010, cases of candidaemia were reported through laboratory-based surveillance. C. parapsilosis isolates from neonatal cases were submitted for identification by internal transcribed spacer (ITS) region sequencing, antifungal susceptibility testing and microsatellite genotyping...
January 19, 2017: Mycoses
https://www.readbyqxmd.com/read/28101287/microbiology-instruction-using-current-foodborne-outbreak-resources
#3
Narveen Jandu
No abstract text is available yet for this article.
December 2016: Journal of Microbiology & Biology Education: JMBE
https://www.readbyqxmd.com/read/28100788/genomic-infectious-disease-epidemiology-in-partially-sampled-and-ongoing-outbreaks
#4
Xavier Didelot, Christophe Fraser, Jennifer Gardy, Caroline Colijn
Genomic data is increasingly being used to understand infectious disease epidemiology. Isolates from a given outbreak are sequenced, and the patterns of shared variation are used to infer which isolates within the outbreak are most closely related to each other. Unfortunately, the phylogenetic trees typically used to represent this variation are not directly informative about who infected whom - a phylogenetic tree is not a transmission tree. However, a transmission tree can be inferred from a phylogeny while accounting for within-host genetic diversity by colouring the branches of a phylogeny according to which host those branches were in...
January 18, 2017: Molecular Biology and Evolution
https://www.readbyqxmd.com/read/28100597/investigation-of-a-candida-guilliermondii-pseudo-outbreak-reveals-a-novel-source-of-laboratory-contamination
#5
James E Kirby, Westyn Branch-Elliman, Mary T LaSalvia, Lorinda Longhi, Matthew MacKechnie, Grigoriy Urman, Linda M Baldini, Fatima R Muriel, Bernadette Sullivan, David S Yassa, Howard S Gold, Trevor K Wagner, Daniel J Diekema, Sharon B Wright
Candida guilliermondii was isolated from sterile specimens with increasing frequency over a several-month period despite a paucity of clinical evidence suggesting true Candida infections. However, a healthcare-associated outbreak was strongly considered due to growth patterns in the microbiology laboratory more consistent with true infection than environmental contamination. Therefore, an extensive investigation was performed to identify its cause. With the exception of one case, patient clinical courses were not consistent with true invasive fungal infections...
January 18, 2017: Journal of Clinical Microbiology
https://www.readbyqxmd.com/read/28100385/-phylogenetic-analysis-of-envelope-gene-of-dengue-virus-serotype-2-in-guangzhou-2001-2015
#6
Y Liu, L Y Jiang, L Luo, Y M Cao, Q L Jing, Z C Yang
Objective: To investigate the molecular characteristics of dengue virus serotype 2 (DENV2) in Guangzhou during 2001-2015, and analyze the E gene of the strains isolated, the phylogenetic tree and molecular clock were constructed to know about the evolution of the strains. Methods: The serum samples of the patients were detected by real time PCR, and positive samples were used to isolate dengue virus by using C6/36 cells. The E gene of the isolated strains were sequenced. The phylogenetic tree was constructed by using software Mega 4...
January 10, 2017: Zhonghua Liu Xing Bing Xue za Zhi, Zhonghua Liuxingbingxue Zazhi
https://www.readbyqxmd.com/read/28100256/transcriptomic-signatures-differentiate-survival-from-fatal-outcomes-in-humans-infected-with-ebola-virus
#7
Xuan Liu, Emily Speranza, César Muñoz-Fontela, Sam Haldenby, Natasha Y Rickett, Isabel Garcia-Dorival, Yongxiang Fang, Yper Hall, Elsa-Gayle Zekeng, Anja Lüdtke, Dong Xia, Romy Kerber, Ralf Krumkamp, Sophie Duraffour, Daouda Sissoko, John Kenny, Nichola Rockliffe, E Diane Williamson, Thomas R Laws, Magassouba N'Faly, David A Matthews, Stephan Günther, Andrew R Cossins, Armand Sprecher, John H Connor, Miles W Carroll, Julian A Hiscox
BACKGROUND: In 2014, Western Africa experienced an unanticipated explosion of Ebola virus infections. What distinguishes fatal from non-fatal outcomes remains largely unknown, yet is key to optimising personalised treatment strategies. We used transcriptome data for peripheral blood taken from infected and convalescent recovering patients to identify early stage host factors that are associated with acute illness and those that differentiate patient survival from fatality. RESULTS: The data demonstrate that individuals who succumbed to the disease show stronger upregulation of interferon signalling and acute phase responses compared to survivors during the acute phase of infection...
January 19, 2017: Genome Biology
https://www.readbyqxmd.com/read/28099857/a-systems-approach-reveals-mavs-signaling-in-myeloid-cells-as-critical-for-resistance-to-ebola-virus-in-murine-models-of-infection
#8
Mukta Dutta, Shelly J Robertson, Atsushi Okumura, Dana P Scott, Jean Chang, Jeffrey M Weiss, Gail L Sturdevant, Friederike Feldmann, Elaine Haddock, Abhilash I Chiramel, Sanket S Ponia, Jonathan D Dougherty, Michael G Katze, Angela L Rasmussen, Sonja M Best
The unprecedented 2013-2016 outbreak of Ebola virus (EBOV) resulted in over 11,300 human deaths. Host resistance to RNA viruses requires RIG-I-like receptor (RLR) signaling through the adaptor protein, mitochondrial antiviral signaling protein (MAVS), but the role of RLR-MAVS in orchestrating anti-EBOV responses in vivo is not known. Here we apply a systems approach to MAVS(-/-) mice infected with either wild-type or mouse-adapted EBOV. MAVS controlled EBOV replication through the expression of IFNα, regulation of inflammatory responses in the spleen, and prevention of cell death in the liver, with macrophages implicated as a major cell type influencing host resistance...
January 17, 2017: Cell Reports
https://www.readbyqxmd.com/read/28099714/zika-virus-infection-in-brazil-and-human-rights-obligations
#9
Debora Diniz, Sinara Gumieri, Beatriz Galli Bevilacqua, Rebecca J Cook, Bernard M Dickens
The February 2016 WHO declaration that congenital Zika virus syndrome constitutes a Public Health Emergency of International Concern reacted to the outbreak of the syndrome in Brazil. Public health emergencies can justify a spectrum of human rights responses, but in Brazil, the emergency exposed prevailing inequities in the national healthcare system. The government's urging to contain the syndrome, which is associated with microcephaly among newborns, is confounded by lack of reproductive health services. Women with low incomes in particular have little access to such health services...
January 2017: International Journal of Gynaecology and Obstetrics
https://www.readbyqxmd.com/read/28099530/nationwide-seropositivity-of-hepatitis-a-in-republic-of-korea-from-2005-to-2014-before-and-after-the-outbreak-peak-in-2009
#10
Kyung-Ah Kim, Anna Lee, Moran Ki, Sook-Hyang Jeong
BACKGROUND/AIMS: The epidemiologic shift of hepatitis A virus (HAV) infection in the South Korean population resulted in a peak outbreak of hepatitis in 2009. The aim of this study was to clarify the seropositivity of anti-HAV antibody (anti-HAV) and its demographic characteristics before and after the peak outbreak from 2005 to 2014. METHODS: This retrospective study analyzed the anti-HAV data of all individuals from 1,795 medical institutions referred to a major central laboratory from January 2005 through December 2014, as a sentineal tool for monitoring annual variation of anti-HAV positivity...
2017: PloS One
https://www.readbyqxmd.com/read/28099500/genetic-analysis-of-vibrio-parahaemolyticus-o3-k6-strains-that-have-been-isolated-in-mexico-since-1998
#11
Abraham Guerrero, Marcial Leonardo Lizárraga-Partida, Bruno Gómez Gil Rodríguez, Alexei Fedorovish Licea-Navarro, Valeria Jeanette Revilla-Castellanos, Irma Wong-Chang, Ricardo González-Sánchez
Vibrio parahaemolyticus is an important human pathogen that has been isolated worldwide from clinical cases, most of which have been associated with seafood consumption. Environmental and clinical toxigenic strains of V. parahaemolyticus that were isolated in Mexico from 1998 to 2012, including those from the only outbreak that has been reported in this country, were characterized genetically to assess the presence of the O3:K6 pandemic clone, and their genetic relationship to strains that are related to the pandemic clonal complex (CC3)...
2017: PloS One
https://www.readbyqxmd.com/read/28098800/characterization-of-the-transcriptome-and-gene-expression-of-brain-tissue-in-sevenband-grouper-hyporthodus-septemfasciatus-in-response-to-nnv-infection
#12
Jong-Oh Kim, Jae-Ok Kim, Wi-Sik Kim, Myung-Joo Oh
Grouper is one of the favorite sea food resources in Southeast Asia. However, the outbreaks of the viral nervous necrosis (VNN) disease due to nervous necrosis virus (NNV) infection have caused mass mortality of grouper larvae. Many aqua-farms have suffered substantial financial loss due to the occurrence of VNN. To better understand the infection mechanism of NNV, we performed the transcriptome analysis of sevenband grouper brain tissue, the main target of NNV infection. After artificial NNV challenge, transcriptome of brain tissues of sevenband grouper was subjected to next generation sequencing (NGS) using an Illumina Hi-seq 2500 system...
January 13, 2017: Genes
https://www.readbyqxmd.com/read/28098542/detection-of-vaccinia-virus-in-urban-domestic-cats-brazil
#13
Galileu Barbosa Costa, Júlia Bahia Miranda, Gregório Guilherme Almeida, Jaqueline Silva de Oliveira, Mariana Siqueira Pinheiro, Stefanne Aparecida Gonçalves, Jenner Karlisson Pimenta Dos Reis, Ricardo Gonçalves, Paulo César Peregrino Ferreira, Cláudio Antônio Bonjardim, Jônatas Santos Abrahão, Erna Geessien Kroon, Giliane de Souza Trindade
We investigated possible vaccinia virus (VACV) in urban house cats in Brazil. Serum samples from 6 cats were positive for VACV by PCR, indicating likely VACV circulation among house cats in urban areas of Brazil. This finding highlights the importance of epidemiologic surveillance to avoid outbreaks among urban human populations.
February 2017: Emerging Infectious Diseases
https://www.readbyqxmd.com/read/28098535/outbreak-of-legionnaire-s-disease-caused-by-legionella-pneumophila-serogroups-1-and-13
#14
Toshiro Kuroki, Junko Amemura-Maekawa, Hitomi Ohya, Ichiro Furukawa, Miyuki Suzuki, Tomoka Masaoka, Kastuhiro Aikawa, Kazumi Hibi, Masatomo Morita, Ken-Ichi Lee, Makoto Ohnishi, Fumiaki Kura
In Japan, hot springs and public baths are the major sources of legionellosis. In 2015, an outbreak of Legionnaires' disease occurred among 7 patients who had visited a spa house. Laboratory investigation indicated that L. pneumophila serogroup 1 and 13 strains caused the outbreak and that these strains were genetically related.
February 2017: Emerging Infectious Diseases
https://www.readbyqxmd.com/read/28098533/azithromycin-nonsusceptible-shigella-flexneri-3a-in-men-who-have-sex-with-men-taiwan-2015-2016
#15
Ying-Shu Liao, Yen-Yi Liu, Yi-Chun Lo, Chien-Shun Chiou
We report an outbreak of azithromycin-nonsusceptible Shigella flexneri 3a infection in Taiwan associated with men who have sex with men. The bacterial strains belonged to the sublineage A of a recently reported outbreak lineage associated with men who have sex with men, characterized by reduced azithromycin susceptibility and circulation in shigellosis low-risk regions.
February 2016: Emerging Infectious Diseases
https://www.readbyqxmd.com/read/28098530/fatal-infection-with-murray-valley-encephalitis-virus-imported-from-australia-to-canada-2011
#16
Daniel J Niven, Kevin Afra, Mircea Iftinca, Raymond Tellier, Kevin Fonseca, Andreas Kramer, David Safronetz, Kimberly Holloway, Michael Drebot, Andrew S Johnson
Murray Valley encephalitis virus (MVEV), a flavivirus belonging to the Japanese encephalitis serogroup, can cause severe clinical manifestations in humans. We report a fatal case of MVEV infection in a young woman who returned from Australia to Canada. The differential diagnosis for travel-associated encephalitis should include MVEV, particularly during outbreak years.
February 2017: Emerging Infectious Diseases
https://www.readbyqxmd.com/read/28098135/-outbreak-of-whooping-cough-in-2016-%C3%A3-cija-seville-spain
#17
Miguel Porras-Povedano, Ana Roldán-Garrido, Virginia Santacruz-Hamer
OBJECTIVE: Whooping cough is a global public health problem, is a highly contagious disease, and despite universal vaccination increased incidence is observed. The aim of this study was to describe the investigation of a population outbreak. METHODS: A descriptive study of a population outbreak of whooping cough between February and June 2016 in Ecija (Seville). Case and outbreak definitions was taken of Whooping Cough Monitoring Protocol. Information was collected from Health History, Epidemiological Monitoring System and Laboratory...
January 18, 2017: Revista Española de Salud Pública
https://www.readbyqxmd.com/read/28097814/detection-and-molecular-characterization-of-foot-and-mouth-disease-viruses-from-outbreaks-in-some-states-of-northern-nigeria-2013-2015
#18
D O Ehizibolo, A Haegeman, A R De Vleeschauwer, J U Umoh, H M Kazeem, E C Okolocha, K De Clercq, S Van Borm
Control measures for foot and mouth disease (FMD) in Nigeria have not been implemented due to the absence of locally produced vaccines and risk-based analysis resulting from insufficient data on the circulating FMD virus (FMDV) serotypes/strains. In 2013-2015, blood and epithelial samples were collected from reported FMD outbreaks in four states (Kaduna, Kwara, Plateau and Bauchi) in northern Nigeria. FMDV non-structural protein (NSP) seroprevalence for the outbreaks was estimated at 80% (72 of 90) and 70% (131 of 188) post-outbreak...
January 17, 2017: Transboundary and Emerging Diseases
https://www.readbyqxmd.com/read/28097318/emerging-and-reemerging-infectious-diseases-the-dichotomy-between-acute-outbreaks-and-chronic-endemicity
#19
Catharine I Paules, Anthony S Fauci
No abstract text is available yet for this article.
January 12, 2017: JAMA: the Journal of the American Medical Association
https://www.readbyqxmd.com/read/28096975/a-prospective-survey-of-pseudomonas-aeruginosa-colonization-and-infection-in-the-intensive-care-unit
#20
Regev Cohen, Frida Babushkin, Shoshana Cohen, Marina Afraimov, Maurice Shapiro, Martina Uda, Efrat Khabra, Amos Adler, Ronen Ben Ami, Svetlana Paikin
BACKGROUND: Pseudomonas aeruginosa (PA) surveillance may improve empiric antimicrobial therapy, since colonizing strains frequently cause infections. This colonization may be 'endogenous' or 'exogenous', and the source determines infection control measures. We prospectively investigated the sources of PA, the clinical impact of PA colonization upon admission and the dynamics of colonization at different body sites throughout the intensive care unit stay. METHODS: Intensive care patients were screened on admission and weekly from the pharynx, endotracheal aspirate, rectum and urine...
2017: Antimicrobial Resistance and Infection Control
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