Phylogenetic analysis of the nucleoprotein gene of measles viruses prevalent in Nantong, Jiangsu Province, China, during 2010

2011 ◽  
Vol 140 (9) ◽  
pp. 1607-1611
Author(s):  
H. LI ◽  
S. D. SPENCER ◽  
L. LIAN ◽  
Z. ZHANG ◽  
P. LU
Keyword(s):  
Phylogenetic Analysis ◽  
Nucleotide Sequence ◽  
Measles Virus ◽  
Genetic Characterization ◽  
Jiangsu Province ◽  
Wild Type ◽  
City Region ◽  
Rt Pcr ◽  
Nucleoprotein Gene ◽  
Endemic Transmission

SUMMARYMeasles control in China is monitored in part by surveillance of circulating wild-type viruses. The objective of this study was genetic characterization and phylogenetic analysis of measles strains in the Nantong City region of Jiangsu province, China, during 2010. Sera from suspected cases were tested for IgM antibodies and measles virus isolated by inoculation of transport medium onto Vero/SLAM cells. Isolated strains were phylogenetically analysed according to the nucleotide sequence of the C-terminal region of the nucleoprotein gene amplified by RT–PCR. The results revealed 34 cases confirmed by positive IgM, for an incidence of 0·45/100 000. Six isolates identified were all clustered within genotype H1. The findings reported here support continued endemic transmission of measles virus in China.

scholarly journals Complete Genome Sequences of Six Measles Virus Strains

2018 ◽  
Vol 6 (13) ◽  
Author(s):  
My V. T. Phan ◽  
Claudia M. E. Schapendonk ◽  
Bas B. Oude Munnink ◽  
Marion P. G. Koopmans ◽  
Rik L. de Swart ◽  
...  
Keyword(s):  
Next Generation Sequencing ◽  
Complete Genome ◽  
Measles Virus ◽  
Genetic Characterization ◽  
Critical Component ◽  
Wild Type ◽  
Genome Sequences ◽  
Virus Strains ◽  
Generation Sequencing

ABSTRACT Genetic characterization of wild-type measles virus (MV) strains is a critical component of measles surveillance and molecular epidemiology. We have obtained complete genome sequences of six MV strains belonging to different genotypes, using random-primed next generation sequencing.

scholarly journals Molecular epidemiological analysis of wild animal rabies isolates from India

2019 ◽  
Vol 12 (3) ◽  
pp. 352-357 ◽  
Author(s):  
Gundallhalli Bayyappa Manjunatha Reddy ◽  
Rajendra Singh ◽  
Karam Pal Singh ◽  
Anil Kumar Sharma ◽  
Sobharani Vineetha ◽  
...  
Keyword(s):  
Phylogenetic Analysis ◽  
Fluorescent Antibody ◽  
Antibody Test ◽  
Reservoir Host ◽  
Wild Animals ◽  
Rt Pcr ◽  
Epidemiological Analysis ◽  
Nucleoprotein Gene ◽  
Single Cluster

Aim: This study was conducted to know the genetic variability of rabies viruses (RVs) from wild animals in India. Materials and Methods: A total of 20 rabies suspected brain samples of wild animals from different states of India were included in the study. The samples were subjected for direct fluorescent antibody test (dFAT), reverse transcription polymerase chain reaction (RT-PCR), and quantitative reverse transcriptase real-time PCR (RT-qPCR). The phylogenetic analysis of partial nucleoprotein gene sequences was performed. Results: Of 20 samples, 11, 10, and 12 cases were found positive by dFAT, RT-PCR, and RT-qPCR, respectively. Phylogenetic analysis showed that all Indian wild RVs isolates belonged to classical genotype 1 of Lyssavirus and were closely related to Arctic/Arctic-like single cluster indicating the possibility of a spillover of rabies among different species. Conclusion: The results indicated the circulation of similar RVs in sylvatic and urban cycles in India. However, understanding the role of wild animals as reservoir host needs to be studied in India.

Biodiversity and full genome sequence of potato viruses Alfalfa mosaic virus and potato leaf roll virus in Egypt

2018 ◽  
Vol 73 (11-12) ◽  
pp. 423-438 ◽  
Author(s):  
Engy E. Abdel Aleem ◽  
Radwa M. Taha ◽  
Faiza A. Fattouh
Keyword(s):  
Phylogenetic Analysis ◽  
Nucleotide Sequence ◽  
Mosaic Virus ◽  
Complete Nucleotide Sequence ◽  
Leaf Roll ◽  
Alfalfa Mosaic Virus ◽  
Potato Leaf Roll Virus ◽  
Rt Pcr ◽  
Potato Leaf ◽  
Potato Viruses

Abstract Solanum tuberosum (potato) is the second most important vegetable crop in Egypt. It is locally consumed, manufactured or supplied for export to Europe and other Arab countries. Potato is subject to infection by a number of plant viruses, which affect its yield and quality. Potato virus Y (PVY), potato leaf roll virus (PLRV), and Alfalfa mosaic virus (AMV) were detected in major potato-growing areas surveyed. Multiplex-RT-PCR assay was used for the detection of these three viruses in one reaction using three specific primer pairs designed to amplify genomic parts of each virus (1594 bp for PLRV, 795 bp for AMV, 801 bp for PVY). All three viruses were detected in a single reaction mixture in naturally infected field-grown potatoes. Multiplex RT-PCR improved sensitivity necessary for the early detection of infection. Incidence of single, double, or triple infection has been recorded in some locations. Full-length sequencing has been performed for an Egyptian FER isolate of PLRV. Through phylogenetic analysis, it was shown to occupy the same clade with isolate JokerMV10 from Germany. Complete nucleotide sequence of an Egyptian FER isolate of AMV and phylogenetic analysis was also performed; we propose that it is a new distinct strain of AMV belonging to a new subgroup IIC. This is the first complete nucleotide sequence of an Egyptian isolate of AMV. Genetic biodiversity of devastating potato viruses necessitates continuous monitoring of new genetic variants of such viruses.

scholarly journals Serotype Infectivity and Phylogenetic of Dengue Virus cause of Dengue Fever (DF), Dengue Hemorrhagic Fever (DHF), and Dengue Shock Syndrome (DSS) in Surabaya- Indonesia

2020 ◽  
Vol 4 (1) ◽  
pp. 1
Author(s):  
Fedik Rantam
Keyword(s):  
Phylogenetic Analysis ◽  
Nucleotide Sequence ◽  
Dengue Virus ◽  
Dengue Infection ◽  
Dengue Shock Syndrome ◽  
Hemorrhagic Fever ◽  
Rt Pcr ◽  
Who Criteria ◽  
Plasma Leakage ◽  
Degree Of Severity

Infection with DENV causes a spectrum of clinical disease ranging. The aim of this study is to investigate the infectivity of DENV with degree of severity dengue infection in Surabaya. Dengue infection was established by IgM anti dengue, and two step multiplex RT PCR and Nucleotide sequence. Grading of degree severity infection follow the WHO criteria 2011. DSS cases found 3 from 36 patients caused by DENV 2. The most uninfective was DENV 1, and the most prevalence dengue infection caused  by  DENV  3.  The  infectivity of  dengue  infection shown 16 patients lead to severity with plasma leakage. All of sera patients detecting using multiplex RT-PCR were positive, but it were analyzed using Duo ELISA only 22 serum sera positive IgM and IgG from 36 sera. . The Phylogenetic analysis indicates that the isolates from 2011 to 2012 close related with dengue isolate from 1998 and belong to 2009 to 2020.In this study it indicates that DENV 2 predominantly is the cause of DSS.

scholarly journals The phylodynamic of H1a genotype measles virus in Jiangsu province, China, 2005-2017

2019 ◽  
Author(s):  
Peishan Lu ◽  
Ying Hu ◽  
Xiuying Deng ◽  
Xiang Sun ◽  
Hongxiong Guo
Keyword(s):  
Measles Virus ◽  
Bayesian Skyline Plot ◽  
Jiangsu Province ◽  
Monte Carlo Algorithm ◽  
Gene Sequences ◽  
Effective Population ◽  
Helpful Tool ◽  
Nucleoprotein Gene ◽  
Multiple Origins ◽  
The Mean

Abstract Background: The change on the pressures during viruses evolving will cause changes in phylodynamic. To know phylodynamic characteristic of measles virus in high vaccination coverage era, the phylodynamic characteristic was analyzed using nucleoprotein gene sequences of measles viruses isolated from Jiangsu province of China from 2005 to 2017. Methods: Nucleoprotein gene sequences of measles viruses were used to analyze gene distance and construct phylogenetic tree with Markov chain Monte Carlo algorithm. The mean gene distance within each group was computed with MEGA7.0 software. The phylodynamic of measles virus circulating in Jiangsu province was constructed using Bayesian skyline plot analyses. Results: Our results showed that the decline trend is observed in the gene distance of nucleoprotein gene and effective population size of measles virus with time. Two clusters of H1a genotype shows multiple origins and the extinction of variants with time. Conclusion: These findings highlight that phylodynamic of measles viruses is a helpful tool to assess the effectiveness of epidemic control.

scholarly journals Nucleotide sequence of the genes encoding the matrix protein of two wild-type measles virus strains

1991 ◽  
Vol 72 (9) ◽  
pp. 2279-2282 ◽  
Author(s):  
K. Baczko ◽  
U. Brinckmann ◽  
I. Pardowitz ◽  
B. K. Rima ◽  
V. ter Meulen
Keyword(s):  
Nucleotide Sequence ◽  
Measles Virus ◽  
Matrix Protein ◽  
Wild Type ◽  
The Matrix ◽  
Genes Encoding ◽  
Virus Strains

scholarly journals Genetic Characterization of the Hemagglutinin Genes of Wild-Type Measles Virus Circulating in China, 1993–2009

PLoS ONE ◽  
2013 ◽  
Vol 8 (9) ◽  
pp. e73374 ◽  
Author(s):  
Songtao Xu ◽  
Yan Zhang ◽  
Zhen Zhu ◽  
Chunyu Liu ◽  
Naiying Mao ◽  
...  
Keyword(s):  
Measles Virus ◽  
Genetic Characterization ◽  
Wild Type

scholarly journals Molecular characterization of measles viruses isolated in Victoria, Australia, between 1973 and 1998

2000 ◽  
Vol 81 (10) ◽  
pp. 2511-2518 ◽  
Author(s):  
Doris Chibo ◽  
Christopher J. Birch ◽  
Paul A. Rota ◽  
Michael G. Catton
Keyword(s):  
Measles Virus ◽  
Geographical Location ◽  
World Health ◽  
Wild Type Virus ◽  
Virus Infections ◽  
Wild Type ◽  
Nucleoprotein Gene ◽  
Genetic Lineages ◽  
Health Organization ◽  
Measles Outbreaks

Molecular epidemiology studies have made significant contributions to the control of measles virus infection through the identification of source and transmission pathways of the virus. These studies allow observation of changes in measles virus genotypes over time in a particular geographical location, clarification of epidemiological links during measles outbreaks, separation of indigenous strains from newly imported strains and distinction between vaccine- and wild-type virus-associated illness. A total of 35 wild-type measles viruses identified in Victoria, Australia, between 1973 and 1998 were characterized by nucleic acid sequence analysis of the nucleoprotein gene and, in some cases, the haemagglutinin gene. Relatedness between the viruses was studied and genotypes were assigned using a classification scheme recently proposed by the World Health Organization. Five recognized genotypes (C2, D1, D4, D5 and H) and one previously undescribed genotype, which we propose to be D7, were identified. Successive replacement of measles virus genetic lineages occurred in Victoria, with no evidence of temporal overlap, during this 25 year period. This pattern of circulation is likely to represent serial importation of wild-type measles virus strains from overseas foci of measles virus infections.

Genetic characterization of wild type measles virus isolated in Croatia during the 2003-2004 outbreak

2004 ◽  
Vol 75 (2) ◽  
pp. 307-312 ◽  
Author(s):  
Dubravko Forcic ◽  
J. Ivancic ◽  
M. Baricevic ◽  
V. Mahovlic ◽  
G. Tesovic ◽  
...  
Keyword(s):  
Measles Virus ◽  
Genetic Characterization ◽  
Wild Type
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