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Molecular-epidemiology

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https://www.readbyqxmd.com/read/28325065/low-rates-of-transmitted-drug-resistances-among-treatment-naive-hiv-1-infected-students-in-beijing-china
#1
Mingqiang Hao, Juan Wang, Ruolei Xin, Xue Li, Yinxiao Hao, Jing Chen, Jingrong Ye, Yu Wang, Xiong He, Chun Huang, Hongyan Lu
Beijing has seen a rising epidemic of HIV among students. However, little information was known about the molecular epidemiologic data among HIV-infected students. In this study, the diversity and the prevalence of TDR in pol sequences deriving from 237 HIV-infected students were analyzed. TDR mutations were found in 5 MSM among students. The overall prevalence of TDR in students was 2.1%, comprised of 1.3% to protease inhibitors and 0.8 % to non-nucleoside reverse transcriptase inhibitors. Our finding indicates a low-level prevalence of TDR mutations among students in Beijing...
March 22, 2017: AIDS Research and Human Retroviruses
https://www.readbyqxmd.com/read/28325060/hiv-1-genetic-diversity-in-northeastern-brazil-high-prevalence-of-non-b-subtypes
#2
Edson Delatorre, José C Couto-Fernandez, Gonzalo Bello
The Northeastern Brazilian region has experienced a constant increase in the number of newly reported AIDS cases over the last decade, but the genetic diversity of HIV-1 strains currently disseminated in this region remains poorly explored. HIV-1 pol sequences were obtained from 140 patients followed at outpatient clinics from four Northeastern Brazilian states (Alagoas, Bahia, Ceará and Piauí) between 2014 and 2015. Subtype B was the most prevalent HIV-1 clade (72%) detected in the Northeastern region, followed by subtypes F1 (6%), C (5%) and D (1%)...
March 22, 2017: AIDS Research and Human Retroviruses
https://www.readbyqxmd.com/read/28323835/molecular-epidemiology-of-cryptococcal-genotype-vnic-st5-in-siriraj-hospital-thailand
#3
Chanin Hatthakaroon, Sujiraphong Pharkjaksu, Piriyaporn Chongtrakool, Kamol Suwannakarn, Pattarachai Kiratisin, Popchai Ngamskulrungroj
Despite the strong association between Cryptococcus neoformans infection and the Human immunodeficiency virus (HIV) status of patients globally, most cryptococcosis cases in Far East Asia occur in non-HIV individuals. Molecular epidemiological studies, using multilocus sequence typing (MLST), have shown that more than 95% of cryptococcal strains belong to a specific subtype of VNI. However, this association has never been specifically examined in other parts of Asia. Therefore, in this study, we investigated the VNIc/ST5 genotype distribution among cryptococcosis patients in Thailand...
2017: PloS One
https://www.readbyqxmd.com/read/28317799/a-first-insight-into-the-genetic-diversity-of-mycobacterium-tuberculosis-in-veracruz-mexico
#4
Raquel Almaraz-Velasco, Daniela Munro-Rojas, Javier Fuentes-Domínguez, Raquel Muñiz-Salazar, Maria Angélica Ibarra-Estela, Alma Delia Guevara-Méndez, Rosa Icela Chaparro-Martinez, Monserrat Perez-Navarro, Roberto Zenteno-Cuevas
OBJECTIVE/BACKGROUND: Tuberculosis (TB) remains one of the most important infectious diseases. Although Mexico is one of the Latin American countries with the largest contribution to these statistics, there are few reports that describe the genotypic characteristics of TB. The aim of this study was to use the MIRU-VNTR-24 loci to analyze the genetic diversity of M. tuberculosis circulating in the state of Veracruz, Mexico. METHODS: Here, we analyze by MIRU-VNTR-24 loci 80 clinical isolates from individuals with confirmed TB from Veracruz México, also clinical and epidemiological variables were recovered and analyzed...
January 2017: International Journal of Mycobacteriology
https://www.readbyqxmd.com/read/28316138/irx3-is-a-genetic-modifier-for-birth-weight-adolescent-obesity-and-transaminase-metabolism
#5
C Liu, C Chu, J Zhang, D Wu, D Xu, P Li, Y Chen, B Liu, L Pei, L Zhang, S Liu, T Qi, X-Y Lou, L Li
OBJECTIVE: IRX3 expression has been functionally associated in obesity-associated long-distance susceptibility loci, but the effect of the IRX3 genetic variants on human obesity and obesity-related metabolism remains uncertain. METHODS: To determine the genetic role of IRX3, we conducted a molecular epidemiological analysis using three haplotype tagging single nucleotide polymorphisms (SNPs; rs8053360, rs3751723 and rs12445085) and one nonsynonymous SNP (rs1126960) at the IRX3 locus in 333 junior and senior high school students from a northeast Chinese population...
March 19, 2017: Pediatric Obesity
https://www.readbyqxmd.com/read/28315021/clinical-strains-of-streptococcus-agalactiae-carry-two-different-variants-of-pathogenicity-island-xii
#6
Eugenia Kuleshevich, Joseph Ferretti, Ilda Santos Sanches, Natesan Balasubramanian, Barbara Spellerberg, Androulla Efstratiou, Paula Kriz, Kornelia Grabovskaya, Olga Arjanova, Alevtina Savitcheva, Valentin Shevchenko, Anton Rysev, Alexander Suvorov
Streptococcus agalactiae or Group B streptococci (GBS) are a common cause of serious diseases of newborns and adults. GBS pathogenicity largely depends on genes located on the accessory genome including several pathogenicity islands (PAI). The present paper is focused on the structure and molecular epidemiological analysis of one of the GBS pathogenicity islands-the pathogenicity island PAI XII (Glaser et al. Mol Microbiol 45(6):1499-1513, 2002). This PAI was found to be composed of three different mobile genetic elements: a composite transposon (PAI-C), a genomic islet (PAI-B), and a pathogenicity island associated with gene sspB1 (PAI-A)...
March 18, 2017: Folia Microbiologica
https://www.readbyqxmd.com/read/28303814/spoligotype-defined-lineages-of-mycobacterium-tuberculosis-and-drug-resistance-merely-a-casual-correlation
#7
REVIEW
Nikita Panwalkar, Devendra S Chauhan, Prabha Desikan
Drug-resistant tuberculosis (TB) is a major challenge to TB control strategy worldwide. Analysis of genetic polymorphism among drug resistant Mycobacterium tuberculosis (MTB) strains may help provide some insight into the transmission dynamics of these strains. Spoligotyping is a widely used technique to identify genetic polymorphism, based on 43 known spacers interspersed between direct repeat regions. Considerable work has been done in various parts of the world using this technique to identify and analyse the polymorphic nature of MTB...
January 2017: Indian Journal of Medical Microbiology
https://www.readbyqxmd.com/read/28301925/retrospective-molecular-epidemiology-study-of-pd-l1-expression-in-patients-with-egfr-mutant-non-small-cell-lung-cancer
#8
Jong Ho Cho, Wei Zhou, Yoon-La Choi, Jong-Mu Sun, Hyejoo Choi, Tae-Eun Kim, Marisa Dolled-Filhart, Kenneth Emancipator, Mary Anne Rutkowski, Jhingook Kim
Purpose: Data are limited on PD-L1 expression in epidermal growth factor receptor (EGFR)-mutant non-small cell lung cancer (NSCLC). Materials and Methods: We retrospectively evaluated the relationship between PD-L1 expression and recurrence-free (RFS) and overall survival in 319 patients with EGFR-mutant NSCLC who were treated at Samsung Medical Center from 2006 to 2014. Membranous PD-L1 expression on tumor cells was measured using the PD-L1 IHC 22C3 pharmDx antibody and reported as tumor proportion score (TPS)...
March 17, 2017: Cancer Research and Treatment: Official Journal of Korean Cancer Association
https://www.readbyqxmd.com/read/28300648/detection-and-molecular-characterization-of-emergent-gii-p17-gii-17-norovirus-in-brazil-2015
#9
Juliana S R Andrade, Tulio M Fumian, José Paulo G Leite, Matheus R de Assis, Gonzalo Bello, Daiana Mir, Marize P Miagostovich
A newly GII.17 Kawazaki_2014 variant strain was detected recently in Brazil. Phylogenetic analysis reveals at least four independent introduction events of this lineage into this country that took place throughout 2014, coinciding with FIFA World Cup in Brazil, 2014, and Hong Kong has been identified as the most likely source of introduction. This variant emerged in Asia causing outbreaks and replacing prevalent GII.4. Emergence of GII.P17/GII.17 variant emphasizes the need for active laboratory surveillance for NoV including molecular epidemiology and studies on virus evolution...
March 11, 2017: Infection, Genetics and Evolution
https://www.readbyqxmd.com/read/28298145/genotypic-characterization-of-human-immunodeficiency-virus-type-1-derived-from-antiretroviral-drug-treated-individuals-residing-in-earthquake-affected-areas-in-nepal
#10
Bharat Singh Negi, Tomohiro Kotaki, Sunil Kumar Joshi, Anup Bastola, Minato Nakazawa, Masanori Kameoka
Molecular epidemiological data on human immunodeficiency virus type 1 (HIV-1) are limited in Nepal, and has not been available in areas affected by the April 2015 earthquake. Therefore, we conducted a genotypic study on HIV-1 genes derived from individuals on antiretroviral therapy residing in 14 districts in Nepal highly affected by the earthquake. HIV-1 genomic fragments were amplified from 40 blood samples of HIV treatment-failure individuals, and a sequencing analysis was performed on these genes. In the 40 samples, 29 protease, 32 reverse transcriptase, 25 gag and 21 env genes were sequenced...
March 16, 2017: AIDS Research and Human Retroviruses
https://www.readbyqxmd.com/read/28296192/inferring-source-attribution-from-a-multiyear-multisource-data-set-of-salmonella-in-minnesota
#11
C Ahlstrom, P Muellner, S E F Spencer, S Hong, A Saupe, A Rovira, C Hedberg, A Perez, U Muellner, J Alvarez
Salmonella enterica is a global health concern because of its widespread association with foodborne illness. Bayesian models have been developed to attribute the burden of human salmonellosis to specific sources with the ultimate objective of prioritizing intervention strategies. Important considerations of source attribution models include the evaluation of the quality of input data, assessment of whether attribution results logically reflect the data trends and identification of patterns within the data that might explain the detailed contribution of different sources to the disease burden...
March 13, 2017: Zoonoses and Public Health
https://www.readbyqxmd.com/read/28292653/co-circulating-serotypes-in-a-dengue-fever-outbreak-differential-hematological-profiles-and-phylogenetic-relationships-among-viruses
#12
Andreia Moreira Dos Santos Carmo, Rodrigo Buzinaro Suzuki, Aline Diniz Cabral, Renata Torres da Costa, Gabriela Pena Massari, Michele Marcondes Riquena, Helio Augusto Alves Fracasso, Andre Eterovic, Arlei Marcili, Márcia Aparecida Sperança
BACKGROUND: Dengue virus, represented by four distinct, genetically diverse serotypes, is the etiologic agent of asymptomatic to severe hemorrhagic diseases. The spatiotemporal dynamics of dengue serotypes and its association to specific diseases vary among the different regions worldwide. By 2007, and in São Paulo State, Brazil, dengue-case concentration in urban centers had changed to increased incidence in small- and medium-sized towns, the case of Marília. OBJECTIVES: The aim of this article was to distinguish dengue serotypes circulating during the 2007 Marília outbreak and define their association to demographic and hematological patient profiles, as well as the phylogenetic relationships among the different viruses...
March 6, 2017: Journal of Clinical Virology: the Official Publication of the Pan American Society for Clinical Virology
https://www.readbyqxmd.com/read/28287300/clinical-and-molecular-epidemiology-of-acinetobacter-baumannii-bloodstream-infections-in-an-endemic-setting
#13
Dror Marchaim, Dana Levit, Roy Zigron, Michal Gordon, Tsillia Lazarovitch, Joao A Carrico, Vered Chalifa-Caspi, Jacob Moran-Gilad
AIM: The transmission dynamics of Acinetobacter baumannii in endemic settings, and the relation between microbial properties and patients' clinical outcomes, are yet obscure and hampered by insufficient metadata. METHODS & RESULTS: Of 20 consecutive patients with A. baumannii bloodstream infection that were thoroughly analyzed at a single center, at least one transmission opportunity was evident for 85% of patients. This implies that patient-to-patient transmission is the major mode of A...
March 2017: Future Microbiology
https://www.readbyqxmd.com/read/28284623/prevalence-and-molecular-epidemiology-of-canine-parvovirus-2-in-diarrheic-dogs-in-colombia-south-america-a-possible-new-cpv-2a-is-emerging
#14
Yeison Duque-García, Manuela Echeverri-Zuluaga, Juanita Trejos-Suarez, Julian Ruiz-Saenz
Since its identification in 1978, Canine parvovirus type 2 (CPV-2) has been considered a pathogen of great importance in the canine population because it causes severe enteritis with high mortality rates in pups. CPV-2 is a virus belonging to the family Parvoviridae. Currently, there are three described antigenic variants (CPV-2a, CPV-2b, and CPV-2c). CPV-2c is an emerging virus that is seen as a global health hazard. The objective of this work was to confirm the presence of CPV-2 in dogs with acute gastroenteritis compatible with parvovirus and to molecularly characterize the antigenic variants circulating in two regions of Colombia...
March 2017: Veterinary Microbiology
https://www.readbyqxmd.com/read/28282644/antimicrobial-susceptibility-evaluation-and-multiple-locus-variable-number-tandem-repeat-analysis-of-neisseria-gonorrhoeae-isolates-in-china-in-2012
#15
Rui-Xing Yu, Yueping Yin, Xiu-Qin Dai, Shao-Chun Chen, Yan Han, Bing-Jie Zheng, Guo-Yi Zhang, Xiang-Sheng Chen
OBJECTIVE: This study aimed to gain information on the antimicrobial susceptibility and molecular epidemiological typing of Neisseria gonorrhoeae (NG) isolates in China in 2012. METHODS: A total of 244 NG isolates were consecutively recovered from patients with uncomplicated gonorrhea attending sexually transmitted disease clinics in 3 Chinese cities-Guangzhou, Nanjing, and Tianjin-in 2012. Neisseria gonorrhoeae susceptibilities to penicillin and tetracycline were examined by detecting penicillinase-producing NG (PPNG) and high-level tetracycline-resistant NG, and NG susceptibilities to ciprofloxacin, spectinomycin, ceftriaxone, and cefixime were determined using an agar dilution method...
April 2017: Sexually Transmitted Diseases
https://www.readbyqxmd.com/read/28280486/the-resistance-phenotype-and-molecular-epidemiology-of-klebsiella-pneumoniae-in-bloodstream-infections-in-shanghai-china-2012-2015
#16
Shu-Zhen Xiao, Su Wang, Wen-Man Wu, Sheng-Yuan Zhao, Fei-Fei Gu, Yu-Xing Ni, Xiao-Kui Guo, Jie-Ming Qu, Li-Zhong Han
Klebsiella pneumoniae (K.pneumoniae) is a common nosocomial pathogen causing bloodstream infections. Antibiotic susceptibility surveillance and molecular characterization will facilitate prevention and management of K. pneumoniae bloodstream infections. K. pneumoniae isolates causing bloodstream infections were consecutively collected between January 2012 and December 2015 in Shanghai. Eighty isolates (20 per year) were randomly selected and enrolled in this study. Drug susceptibility were determined by the disk diffusion method...
2017: Frontiers in Microbiology
https://www.readbyqxmd.com/read/28276526/characterization-of-chinese-porcine-epidemic-diarrhea-virus-with-novel-insertions-and-deletions-in-genome
#17
Baochao Fan, Dian Jiao, Xiaona Zhao, Fengjiao Pang, Qi Xiao, Zhengyu Yu, Aihua Mao, Rongli Guo, Wanzhe Yuan, Pandeng Zhao, Kongwang He, Bin Li
Outbreaks of porcine epidemic diarrhoea virus (PEDV) have caused great economic losses to the global pig industry. PEDV strains with variants in the spike (S) gene have been reported in several countries. To better understand the molecular epidemiology and genetic diversity of PEDV field isolates, in this study, we characterised the complete genome sequence of a novel PEDV variant JSCZ1601 from a outbreak in China in 2016. The PEDV isolate was 28,033 nucleotides (nt) in length without the polyadenylated sequences...
March 9, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28274496/next-generation-sequencing-as-a-tool-for-the-study-of-porcine-reproductive-and-respiratory-syndrome-virus-prrsv-macro-and-micro-molecular-epidemiology
#18
REVIEW
M Cortey, I Díaz, G E Martín-Valls, E Mateu
No abstract text is available yet for this article.
February 9, 2017: Veterinary Microbiology
https://www.readbyqxmd.com/read/28273954/community-associated-staphylococcus-aureus-from-sub-saharan-africa-and-germany-a-cross-sectional-geographic-correlation-study
#19
Ulla Ruffing, Abraham Alabi, Theckla Kazimoto, Delfino C Vubil, Ruslan Akulenko, Salim Abdulla, Pedro Alonso, Markus Bischoff, Anja Germann, Martin P Grobusch, Volkhard Helms, Jonas Hoffmann, Winfried V Kern, Peter G Kremsner, Inacio Mandomando, Alexander Mellmann, Georg Peters, Frieder Schaumburg, Sabine Schubert, Lena Strauß, Marcel Tanner, Hagen von Briesen, Laura Wende, Lutz von Müller, Mathias Herrmann
Clonal clusters and gene repertoires of Staphylococcus aureus are essential to understand disease and are well characterized in industrialized countries but poorly analysed in developing regions. The objective of this study was to compare the molecular-epidemiologic profiles of S. aureus isolates from Sub-Saharan Africa and Germany. S. aureus isolates from 600 staphylococcal carriers and 600 patients with community-associated staphylococcal disease were characterized by DNA hybridization, clonal complex (CC) attribution, and principal component (PCA)-based gene repertoire analysis...
December 2017: Scientific Reports
https://www.readbyqxmd.com/read/28270802/molecular-epidemiology-of-giardia-blastocystis-and-cryptosporidium-among-indigenous-children-from-the-colombian-amazon-basin
#20
Angie Sánchez, Marina Munoz, Natalia Gómez, Juan Tabares, Laura Segura, Ángela Salazar, Cristian Restrepo, Miguel Ruíz, Patricia Reyes, Yuchen Qian, Lihua Xiao, Myriam C López, Juan D Ramírez
The incidence and prevalence of intestinal parasites in children is most likely due to lack of natural or acquired resistance and differences in behavior and habits closely related to environmental and socioeconomic determinants. The most important protozoa that parasitize humans are Giardia, Entamoeba, Blastocystis, and Cryptosporidium. These parasites present wide intraspecific genetic diversity and subsequently classified into assemblages and subtypes. The Amazon basin is the largest in the world and is the fifth freshwater reserve on the planet...
2017: Frontiers in Microbiology
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