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genotyping dengue 2

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https://www.readbyqxmd.com/read/28544099/genetic-signatures-coupled-with-lineage-shift-characterize-endemic-evolution-of-dengue-virus-serotype-2-during-2015-outbreak-in-delhi-india
#1
Manish Chandra Choudhary, Ekta Gupta, Shvetank Sharma, Nadeem Hasnain, Pragya Agarwala
OBJECTIVE: In 2015 New Delhi witnessed a massive outbreak of Dengue virus (DENV) resulting in high morbidity and mortality. We report the molecular characterization of the dominant circulating DENV strain to understand its evolution and dispersal. MATERIALS AND METHODS: DENV infections were diagnosed by detection of IgM/NS1 antigen and serotyping was performed by C-PrM PCR. Envelope gene was amplified and variation(s) in envelope gene were analyzed. Phylogenetic tree construction, time-based phylogeny and origin of DENV were analyzed...
May 23, 2017: Tropical Medicine & International Health: TM & IH
https://www.readbyqxmd.com/read/28531223/dengue-in-bali-clinical-characteristics-and-genetic-diversity-of-circulating-dengue-viruses
#2
Dewi Megawati, Sri Masyeni, Benediktus Yohan, Asri Lestarini, Rahma F Hayati, Febrina Meutiawati, Ketut Suryana, Tangking Widarsa, Dewa G Budiyasa, Ngurah Budiyasa, Khin S A Myint, R Tedjo Sasmono
A high number of dengue cases are reported annually in Bali. Despite the endemicity, limited data on dengue is available for Bali localities. Molecular surveillance study was conducted to explore the clinical and virological characteristics of dengue patients in urban Denpasar and rural Gianyar areas in Bali during the peak season in 2015. A total of 203 adult dengue-suspected patients were recruited in a prospective cross-sectional study. Demographic and clinical information were obtained, and dengue screening was performed using NS1 and IgM/IgG ELISAs...
May 22, 2017: PLoS Neglected Tropical Diseases
https://www.readbyqxmd.com/read/28482813/epidemiological-and-molecular-characteristics-of-emergent-dengue-virus-in-yunnan-province-near-the-china-myanmar-laos-border-2013-2015
#3
Ting-Song Hu, Hai-Lin Zhang, Yun Feng, Jian-Hua Fan, Tian Tang, Yong-Hua Liu, Liu Zhang, Xiao-Xiong Yin, Gang Chen, Hua-Chang Li, Jin Zu, Hong-Bin Li, Yuan-Yuan Li, Jing Yu, Fu-Qiang Zhang, Quan-Shui Fan
BACKGROUND: Yunnan Province is located in southwestern China and neighbors the Southeast Asian countries, all of which are dengue-endemic areas. In 2000-2013, sporadic imported cases of dengue fever (DF) were reported almost annually in Yunnan Province. During 2013-2015, we confirmed that a large-scale indigenous DF outbreak emerged in cities of Yunnan Province near the China-Myanmar-Laos border. METHODS: Epidemiological characteristics of DF in Yunnan Province during 2013-2015 were evaluated by retrospective analysis...
May 8, 2017: BMC Infectious Diseases
https://www.readbyqxmd.com/read/28456663/comparative-whole-genome-analysis-of-dengue-virus-serotype-2-strains-differing-in-trans-endothelial-cell-leakage-induction-in-vitro
#4
Sneha Singh, M G Anupriya, Easwaran Sreekumar
The role of genetic differences among dengue virus (DENV) in causing increased microvascular permeability is less explored. In the present study, we compared two closely related DENV serotype-2 strains of Cosmopolitan genotype for their in vitro infectivity phenotype and ability to induce trans-endothelial leakage. We found that these laboratory strains differed significantly in infecting human microvascular endothelial cells (HMEC-1) and hepatocytes (Huh7), two major target cells of DENV in in vivo infections...
April 27, 2017: Infection, Genetics and Evolution
https://www.readbyqxmd.com/read/28450505/complete-coding-sequences-of-two-dengue-virus-type-2-strains-isolated-from-an-outbreak-in-burkina-faso-in-2016
#5
Cécile Baronti, Géraldine Piorkowski, Franck Touret, Rémi Charrel, Xavier de Lamballerie, Antoine Nougairede
We report here the complete coding sequences of two strains of dengue virus type 2, isolated in France from patients returning from Burkina Faso in November 2016. Both strains (cosmopolitan genotype) are almost identical (99.91% nucleotide identity) and closely related to a strain circulating in Burkina Faso in 1983.
April 27, 2017: Genome Announcements
https://www.readbyqxmd.com/read/28388922/viral-and-serological-kinetics-in-zika-virus-infected-patients-in-south-korea
#6
Young Eui Jeong, Go-Woon Cha, Jung Eun Cho, Eun Ju Lee, Youngmee Jee, Won-Ja Lee
Zika virus is a mosquito-borne flavivirus that causes clinical symptoms similar to those observed in dengue and chikungunya virus infections. The Korea Centers for Disease Control and Prevention initiated laboratory testing using a real-time reverse transcription-polymerase chain reaction in January 2016. More than 1,000 suspected cases of infection were tested and nine were confirmed as imported cases of Zika virus infection from January to July 2016. The travel destinations of the infected individuals were Brazil, Philippines, Viet Nam, Guatemala, Puerto Rico, and the Dominican Republic...
April 7, 2017: Virology Journal
https://www.readbyqxmd.com/read/28367875/laboratory-and-molecular-characterization-of-dengue-virus-during-the-2014-outbreak-in-guangfo-region-southern-china
#7
Zhao-Fan Luo, Bo Hu, Feng-Yi Zhang, Xiang-Hua Lin, Xiao-Ying Xie, Kun-Yi Pan, Hong-Yu Li, Rui-Wen Ren, Wen-Zhong Zhao
Non-specific symptoms and low viremia levels make early diagnosis of dengue virus (DENV) infection challenging. This study aimed to 1) identify laboratory markers which can predict a positive laboratory diagnosis, and 2) perform a molecular characterization of DENV from the 2014 Guangdong epidemic. This retrospective study enrolled 1044 patients from the Guangdong epidemic who had clinically suspected dengue. Viral RNA was detected by real-time RT-PCR and viral-specific NS1 antigen was detected using ELISA...
March 28, 2017: Japanese Journal of Infectious Diseases
https://www.readbyqxmd.com/read/28241052/osbpl10-rxra-and-lipid-metabolism-confer-african-ancestry-protection-against-dengue-haemorrhagic-fever-in-admixed-cubans
#8
Beatriz Sierra, Petr Triska, Pedro Soares, Gissel Garcia, Ana B Perez, Eglys Aguirre, Marisa Oliveira, Bruno Cavadas, Béatrice Regnault, Mayling Alvarez, Didye Ruiz, David C Samuels, Anavaj Sakuntabhai, Luisa Pereira, Maria G Guzman
Ethnic groups can display differential genetic susceptibility to infectious diseases. The arthropod-born viral dengue disease is one such disease, with empirical and limited genetic evidence showing that African ancestry may be protective against the haemorrhagic phenotype. Global ancestry analysis based on high-throughput genotyping in admixed populations can be used to test this hypothesis, while admixture mapping can map candidate protective genes. A Cuban dengue fever cohort was genotyped using a 2.5 million SNP chip...
February 2017: PLoS Pathogens
https://www.readbyqxmd.com/read/28120220/molecular-epidemiology-demonstrates-that-imported-and-local-strains-circulated-during-the-2014-dengue-outbreak-in-guangzhou-china
#9
Geng Li, Pan Pan, Qiuyan He, Xiujuan Kong, Kailang Wu, Wei Zhang, Yuntao Liu, Huiting Huang, Jianbo Liu, Zhongde Zhang, De Wu, Xiaoping Lai, Xiaohong Liu, Jianguo Wu
The dengue virus (DENV) is a vital global public health issue. The 2014 dengue epidemic in Guangzhou, China, caused approximately 40,000 cases of infection and five deaths. We carried out a comprehensive investigation aimed at identifying the transmission sources in this dengue epidemic. To analyze the phylogenetics of the 2014 dengue strains, the envelope (E) gene sequences from 17 viral strains isolated from 168 dengue patient serum samples were sequenced and a phylogenetic tree was reconstructed. All 17 strains were serotype I strains, including 8 genotype I and 9 genotype V strains...
February 2017: Virologica Sinica
https://www.readbyqxmd.com/read/28100385/-phylogenetic-analysis-of-envelope-gene-of-dengue-virus-serotype-2-in-guangzhou-2001-2015
#10
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/28004020/molecular-epidemiology-and-evolutionary-analysis-of-dengue-virus-type-2-circulating-in-delhi-india
#11
Pankaj Sharma, Veena Mittal, Mala Chhabra, Roop Kumari, Priyanka Singh, Srinivas Venkatesh
Dengue virus type 2 (DENV-2) has been associated with severe dengue outbreaks in many countries including India. Its predominance was recorded nearly after a decade in the capital city, Delhi in 2013. The present study characterizes DENV-2 circulated during 2013-2014. Analysis based on envelope (E) gene showed the presence of two clades (I and II) of DENV-2, within the Cosmopolitan genotype. Analysis of time of most recent common ancestor revealed the existence of clade I for more than a decade (95 % HPD 13-16 years) however, clade II showed comparatively recent emergence (95 % HPD 5-13 years)...
December 2016: Virusdisease
https://www.readbyqxmd.com/read/27983492/meningitis-associated-with-simultaneous-infection-by-multiple-dengue-virus-serotypes-in-children-brazil
#12
Paula Eillanny Silva Marinho, Danilo Bretas de Oliveira, Talitah Michel Sanchez Candiani, Ana Paula Correia Crispim, Pedro Paulo Martins Alvarenga, Fabrizia Cristina Dos Santos Castro, Jonatas Santos Abrahão, Maria Rios, Roney Santos Coimbra, Erna Geessien Kroon
To determine the causes of viral meningitis, we analyzed 22 cerebrospinal fluid samples collected during the 2014-2015 dengue epidemics in Brazil. We identified 3 serotypes of dengue virus (DENV-1, -2, and -3), as well as co-infection with 2 or 3 serotypes. We also detected the Asian II genotype of DENV-2.
January 2017: Emerging Infectious Diseases
https://www.readbyqxmd.com/read/27982730/meta-analysis-of-the-relationship-between-tnf-%C3%AE-308g-a-and-il-10-819c-t-gene-polymorphisms-and-susceptibility-to-dengue
#13
Ana Caroline Melo Dos Santos, Edilson Leite de Moura, Jean Moisés Ferreira, Barbara Rayssa Correia Dos Santos, Verônica de Medeiros Alves, Karol Fireman de Farias, Elaine Virgínia Martins de Souza Figueiredo
OBJECTIVE: This study determined whether tumor necrosis factor alpha (TNF-α) and Interleukin-10 (IL-10) polymorphisms are associated with susceptibility to dengue. METHODS: a systematic review with meta-analysis was conducted of the associations between the TNF-α (-308G/A) and IL-10 (-819C/T) polymorphisms and dengue. RESULTS: A total of eight case-controls studies involving 384 individuals with symptomatic dengue, 571 individuals with dengue hemorrhagic fever, and 995 healthy controls were considered in the meta-analysis...
February 2017: Immunological Investigations
https://www.readbyqxmd.com/read/27902331/the-plasma-virome-of-febrile-adult-kenyans-shows-frequent-parvovirus-b19-infections-and-a-novel-arbovirus-kadipiro-virus
#14
Carolyne N Ngoi, Juliana Siqueira, Linlin Li, Xutao Deng, Peter Mugo, Susan M Graham, Matt A Price, Eduard J Sanders, Eric Delwart
Viral nucleic acids present in the plasma of 498 Kenyan adults with unexplained fever were characterized by metagenomics analysis of 51 sample pools. The highest to lowest fraction of plasma pools was positive for parvovirus B19 (75 %), pegivirus C (GBV-C) (67 %), alpha anellovirus (59 %), gamma anellovirus (55 %), beta anellovirus (41 %), dengue virus genotype 2 (DENV-2) (16 %), human immunodeficiency virus type 1 (6 %), human herpesvirus 6 (6 %), HBV (4 %), rotavirus (4 %), hepatitis B virus (4 %), rhinovirus C (2 %), Merkel cell polyomavirus (MCPyV; 2 %) and Kadipiro virus (2 %)...
December 2016: Journal of General Virology
https://www.readbyqxmd.com/read/27765124/-study-of-epidemiological-characteristics-and-viral-sources-of-dengue-fever-outbreak-in-guangxi-zhuang-autonomous-region-2014
#15
M M Chen, Y Tan, Z Z Tang, M Lin, K J Zhou, W T He, Y P Yang, J Wang
Objective: To understand the epidemiological characteristics and viral sources of dengue fever outbreak in Guangxi Zhuang Autonomous Region (Guangxi) in 2014. Methods: A combined analysis of epidemiological characteristics and genetic characteristics were performed in this study. The time, population and area distributions of the cases were analyzed. Serum samples were collected from dengue fever cases to detect NS1 antigen by using commercial ELISA kits according to the guideline of the manufacture. RT-PCR assay was conducted to detect dengue virus in NS1 positive samples...
October 10, 2016: Zhonghua Liu Xing Bing Xue za Zhi, Zhonghua Liuxingbingxue Zazhi
https://www.readbyqxmd.com/read/27722053/epidemiological-and-molecular-characterization-of-dengue-viruses-imported-into-guangzhou-during-2009-2013
#16
Yongxia Shi, Shufen Li, Xiaobo Li, Kui Zheng, Shuai Yuan, Jicheng Huang
BACKGROUND: Dengue virus causes one of the most significant infectious diseases in tropical and subtropical regions, notable number of which is imported into China every year. RESULTS: In this study, the molecular epidemiologic and phylogenetic analyses of dengue cases imported into Guangzhou in South China during 2009-2013 were conducted. During that period, 46 imported dengue cases were identified, including four serotypes. Most of the dengue patients were travelling from Southeast Asia, South Asia and Africa...
2016: SpringerPlus
https://www.readbyqxmd.com/read/27681163/molecular-characterization-and-viral-origin-of-the-2015-dengue-outbreak-in-xishuangbanna-yunnan-china
#17
Yujiao Zhao, Lihua Li, Dehong Ma, Jia Luo, Zhiqiang Ma, Xiaodan Wang, Yue Pan, Junying Chen, Juemin Xi, Jiajia Yang, Lijuan Qiu, Chunhai Bai, Liming Jiang, Xiyun Shan, Qiangming Sun
A total of 1067 serum samples were collected from febrile patients in Xishuangbanna, Yunnan, 2015. Of these, 852 cases were confirmed to be dengue NS1-positive. 76 structural protein genes were sequenced through RT-PCR based on the viral RNAs extracted from serum samples. Phylogenetic analysis revealed that all strains were classified as cosmopolitan genotype of DENV-2. After comparing with the DENV-2SS, 173 base substitutions were found in 76 sequences, resulting in 43 nonsynonymous mutations, of which 22 mutations existed among all samples...
September 29, 2016: Scientific Reports
https://www.readbyqxmd.com/read/27635316/analysis-of-genotype-diversity-and-evolution-of-dengue-virus-serotype-2-using-complete-genomes
#18
Vaishali P Waman, Pandurang Kolekar, Mukund R Ramtirthkar, Mohan M Kale, Urmila Kulkarni-Kale
BACKGROUND: Dengue is one of the most common arboviral diseases prevalent worldwide and is caused by Dengue viruses (genus Flavivirus, family Flaviviridae). There are four serotypes of Dengue Virus (DENV-1 to DENV-4), each of which is further subdivided into distinct genotypes. DENV-2 is frequently associated with severe dengue infections and epidemics. DENV-2 consists of six genotypes such as Asian/American, Asian I, Asian II, Cosmopolitan, American and sylvatic. Comparative genomic study was carried out to infer population structure of DENV-2 and to analyze the role of evolutionary and spatiotemporal factors in emergence of diversifying lineages...
2016: PeerJ
https://www.readbyqxmd.com/read/27620341/occurrence-of-co-infection-with-dengue-viruses-during-2014-in-new-delhi-india
#19
A Tazeen, N Afreen, M Abdullah, F Deeba, S H Haider, S N Kazim, S Ali, I H Naqvi, S Broor, A Ahmed, S Parveen
Dengue fever is an arthropod-borne viral infection that has become endemic in several parts of India including Delhi. We studied occurrence of co-infection with dengue viruses during an outbreak in New Delhi, India in 2014. For the present study, blood samples collected from symptomatic patients were analysed by RT-PCR. Eighty percent of the samples were positive for dengue virus. The result showed that DENV-1 (77%) was the predominant serotype followed by DENV-2 (60%). Concurrent infection with more than one serotype was identified in 43% of the positive samples...
January 2017: Epidemiology and Infection
https://www.readbyqxmd.com/read/27609639/dengue-virus-surveillance-detection-of-denv-4-in-the-city-of-s%C3%A3-o-jos%C3%A3-do-rio-preto-sp-brazil
#20
Tatiana Elias Colombo, Danila Vedovello, Carolina Colombelli Pacca-Mazaro, Adriano Mondini, João Pessoa Araújo, Eliana Cabrera, José Carlos Lopes, Izalco Nuremberg Penha Dos Santos, Andréia Francesli Negri Reis, Fabiana Rodrigues Costa, Lilian Elisa Arão Antônio Cruz, Jurandir Ferreira, Eliseu Soares de Oliveira Rocha, Erna Geessien Kroon, Roberta Vieira de Morais Bronzoni, Nikos Vasilakis, Maurício Lacerda Nogueira
Dengue viruses are the most common arbovirus infection worldwide and are caused by four distinct serotypes of the dengue virus (DENV). In the present study, we assessed DENV transmission in São José do Rio Preto (SJRP) from 2010 to 2014. We analyzed blood samples from febrile patients who were attended at health care centers in SJRP. DENV detection was performed using multiplex RT-PCR, using flavivirus generic primers, based on the genes of the non-structural protein (NS5), followed by nested-PCR assay with species-specific primers...
December 2016: Acta Tropica
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