These arboviruses are primarily transmitted by mosquitoes of the species ae. Subgenomic rna from dengue virus type 2 suppresses. Dengue denv and zika zikv viruses are clinically important members of the flaviviridae family with an 11 kb positive strand rna genome that folds to enable virus function. Dengue virus pirates human platelets blood american. Phylogenetic analysis revealed that strain ynpe1 belonged to genotype i. Rna viruses have genomes with a distinct nucleotide composition and codon usage. Although dengue is an old disease, recent decades have seen an unprecedented increase in the geographic range, incidence, and severity of infection. These samples were examined for virus genome by realtime rtpcr taqman rtpcr ito et al. The ability to monitor such epidemics would be enhanced by characterizing the viral populations that circulate within infected individuals. Molecular epidemiology of dengue viruses from complete. Forty percent of the worlds population, about 3 billion people, live in areas with a risk of dengue.
Surprising new dengue virus throws a spanner in disease. Zikv was first isolated in 1947 in uganda, caused a widespread epidemic in south and central america and the caribbean in 2015 and has recently been associated with microcephaly in. This genus includes also the west nile virus, tickborne encephalitis virus, yellow fever virus, and several other viruses, which may cause encephalitis. Frontiers genome sequence of dengue virus 3 from the. Denv1 through denv4 are members of the flavivirus group of the virus family flaviviridae. Author summary dengue virus denv is a major arthropodborne human pathogen, infecting more than 400 million individuals annually worldwide. All serotypes cause syndromes that are selflimited or severe. Pdf functional rna elements in the dengue virus genome. Nikos vasilakis, a virologist at the university of texas medical branch in galveston, sequenced its entire genome and found that the virus occupies a new branch on the dengue family tree.
Major serotype of dengue virus circulating in pakistan is serotype 2. Dengue virus is a mosquitoborne virus that causes dengue fever in humans. O58 presence of dengue virus genome in the bone marrow of asymptomatic adults in a dengue hyperendemic country. Nucleotide composition of the zika virus rna genome and its.
Human to human transmission is currently not proven to be possible. However, the complete genome sequences of denv2 isolates imported from myanmar are not available. Although there was no prior evidence that platelets replicate denv, the virus has been detected in platelets isolated from dengue patients. Coronaviruses possess the largest genomes of all rna viruses, consisting of about 30 kb. Dengue denv and zika zikv viruses are clinically important members of the flaviviridae family with an 11 kb positive strand rna genome that folds to enable virus. This enveloped virus contains a positive singlestranded rna genome.
Vipr uses phyml guindon and gascuel, 2003 and offers multiple evolutionary models to infer phylogenies. Dengue virus is spherical enveloped viruses with approximately 4060 nm in diameter. Jun 15, 2017 complete genome analysis of dengue virus type 3 isolated from the 20 dengue outbreak in yunnan, china author links open overlay panel xiaodan wang a b c 1 dehong ma d 1 xinwei huang a b c lihua li c duo li a b c yujiao zhao a b c lijuan qiu a b c yue pan a b c junying chen a b c juemin xi a b c xiyun shan d qiangming sun a b c. This lesson covers the differences between the types dengue viruses and how they cause disease. Genomic characterization and epidemiology of 2019 novel.
Nevertheless, scientists understanding of dengue virus may be simplistic, as rather than distinct antigenic groups, a continuum appears to exist. The most common causes of viral hepatitis are the five unrelated hepatotropic viruses hepatitis a, hepatitis b, hepatitis c, hepatitis d, and hepatitis e. This article aims to summarize the advances in the understanding of dengue virus genome replication, highlighting the cis as well as trans elements that may have key roles in this process. Apr 19, 2020 organization of the chikungunya virus genome, including the nonstructural and structural polyprotein open reading frames, and the 26s or subgenomic promoter. Author summary chikungunya virus is a reemerging and rapidly spreading arbovirus that has caused several outbreaks in the last decade with the most recent in the caribbean islands and the americas beginning in 20 infecting over 1 million individuals. Sep 07, 20 a presentation on dengue virus structure, how the virus attacks and spreads in the body, role of heterocyclic drugs in inhibiting the virus and our experiments slideshare uses cookies to improve functionality and performance, and to provide you with relevant advertising. Genome sequence analysis of dengue virus 1 isolated.
The overall fit of the 90 tbev e dimer structures to the cryoem map of dengue virus gives a satisfying, closepacking arrangement figures 3b and 3d. Twenty fragments amplified by reverse transcriptasepcr were. Oribose methylation by the dengue virus nonstructural protein 5 ns5 yongqian zhaoa,b,1, tingjin sherryl sohc,d,1, siew pheng limd, ka yan chungc,d, kunchithapadam swaminathanb,2. The table lists the assigned serial number, genbank accession number, strain name, genotype, country, collection date and the subpopulationlineage. These sets associate to form a herringbone configuration on the viral surface. Whole genome sequencing and genetic variations in several. These results indicated that denv1 from the dengue epidemic 2017 in northern vietnam originated from the virus that caused the dengue outbreak during the 2007 to 2008 period in vietnam. Diagnostic detection of wuhan coronavirus 2019 by realtime. The virus collected from the human cases was verified as denv serotype 1 denv1 and one isolate was provided for sequence analysis. Dengue virus affects hundreds of millions of people each year around the world, causing a tremendous social and economic impact on affected countries.
Orf1ab encodes replicase polyproteins required for viral rna replication and. All assays can use sarscov genomic rna as positive control. Pdf genomics, proteomics and evolution of dengue virus. Antigen detection by sandwich elisa was evaluated to predict rtpcr detection of dengue viral genome in infected culture fluid of aedes albopictus clone c636 cells. This months genome watch highlights how deep sequencing has provided insights into dengue virus evolution under different selection pressures. In particular, the negative strand ssrna viral genomes are generally multipartite. Mature viral protein products resulting from protease and selfcleavage of the polyprotein are displayed according to their location in the genome and the polyprotein.
Molecular characterization and phylogenetic analysis of. Properties and functions of the dengue virus capsid. Later, a researcher found that the samples did not respond to dengue 4 diagnostic tests. Fulllength genome and molecular characterization of. The dataset of complete genome sequences from 990 strains of dengue virus serotype 2 used in this study. The detection rate of denv genome in urine was 25%. Denv is a single stranded rna positivestrand virus of the family flaviviridae, genus flavivirus. Indian journal of biotechnology vol, july 2014, pp. Viral hepatitis is a systemic disease with primary inflammation of the liver by any one of a heterogeneous group of hepatotropic viruses. Insights into dengue virus genomea replication request pdf. Pdf nextgeneration whole genome sequencing of dengue virus.
The researchers tagged dengue virus and cell membranes with fluorescent probes that glow when the virus and membranes fuse. Complete genome sequence analysis of an imported dengue. The capsid is made up of glycoproteins arranged in geometric patterns with two, three, and fivefold symmetry. Chernomordik at nihs eunice kennedy shriver national institute of child health and human development nichd set out to investigate how the dengue virus fuses with its target membranes. A retrospective study found no evidence that yellow fever vaccination in dengue endemic areas increases risk for severe dengue fever. Primers for dengue virus strains based on their sequence. Analysis of genotype diversity and evolution of dengue virus. Here, we report the first complete genome sequence and molecular characterization of the imported dengue virus serotype 1 strain ynpe1. Pervasive tertiary structure in the dengue virus rna genome. Dna viruses form compartmentalized structures within the host cell referred to as viral replication factories or compart ments vrcs where they carry out viral. The denv genome was detected by realtime reverse transcriptase pcr rtpcr in urine and serum of dengue patients.
We present the global characteristics of the rna genome of zika virus zikv, an emerging pathogen within the flavivirus genus. Dengue viruses are spread to people through the bite of an infected aedes species ae. By najib ullah khan mphil institute of biotechnology and genetic engineering kpk agricultural university peshawar, pakistan. Characterization and complete genome sequence of a novel. Most viruses have a number of spikes and projections on their surface, and these are used by the virus to interact with host cells, kuhn says. The fda announced approval of dengvaxia vaccine for prevention of dengue disease caused by all dengue serotypes in people ages 916 who have laboratoryconfirmed prior infection and live in endemic areas. The genome of influenza viruses is a linear, segmented and formed by ssrna. New york genomeweb gene variants with different prevalence among world populations affect susceptibility to classic dengue fever or dengue shock syndrome, a new study has found.
Jan 18, 2016 dengue is currently one of the most important arthropod borne human viral diseases caused by a flavivirus named as dengue virus. Although several aspects in dengue virus replication are known, many others are yet to be understood. Initially, research conducted on dengue virus denv was the actual starting and inspiration point for hcv research, when it became known 3. The genetic analysis suggested that the viruses were most closely related to the causative virus of the dengue outbreak in vietnam and cambodia from 2006 to 2008. Author summary dengue denv, chikungunya chikv and zika zikv are considered major public health challenges. Five serotypes of the virus have been found, all of which can cause the full spectrum of disease. Dengue virus denv is an arthropodborne flavivirus and a major cause of worldwide morbidity and mortality. There have also been reports that the virus has spread through blood transfusions. Selecting the appropriate nodes in the taxonomy browser flavivirus, dengue virus, hepacivirus, hepatitis c virus will add metadata search panels and enable you to include these criteria.
Anti dengue virus denv igm and igg were identified in plasma samples on days 7, 14 and 25 after the onset of symptoms. In the study, we analysed the origin of the 23 new dengue strains and reported the complete genome sequence of a denv1 strain gz02 isolated from the 2014 outbreak. Rna element promotes dengue virus rna synthesis on a circular. As a result of their unique mechanism of viral replication. Rna viruses are ubiquitous and are among the most efficient and compact carriers of biological information in nature.
The dataset consisting of 990 complete genome sequences of strains of dengue virus serotype 2 denv2 was compiled from the dengue virus variation resource at national center for biotechnology information resch et al. Structure of influenza viruses, connected with influenza life. Sporadic dengue virus serotype 2 denv2 imported cases from myanmar have been documented almost every year in yunnan province of china since 2005. This virus has an rna genome surrounded by a capsid, or protein shell, with icosahedral 20sided symmetry. Chikungunya fever is contracted via a humanmosquitohuman pathway where the mosquito obtains the virus from biting an infected human and transmits the virus by biting a noninfected human. Detection of dengue virus genome in urine by realtime. Phylogenetically based establishment of a dengue virus. Till 2001, eight genome segments influenza a and b, and ten proteins, encoded by them, were descri bed.
Circulation of dengue virus type 3 genotype iii in africa. In addition to the epidemic caused by denv, which has been described in many tropical countries, the introduction of chikv and zikv in these countries is a major public health concern. Dengue is common in more than 100 countries around the world. Complete genome sequencing and phylogenetic analysis of. Department of biochemistry, faculty of medicine, university of malaya, kuala lumpur, malayasia. Quantitative genetics of aedes aegypti vector competence for dengue viruses.
Antiviral research and development against dengue virus. The flavivirus genome consists of approximately rna 11,000 base pairs bp, which translate into three structural and seven nonstructural proteins see chimeric virus vaccines. Genome search virus pathogen database and analysis. The viral genomes resource is a collection of viral genomic sequences that is a part of the entrez genomes, which provides curated sequence data and annotations of complete genomes to the scientific community. Amongst the denv proteins, nonstructural protein 1 ns1 is one of the most enigmatic, being required for rna replication, but also secreted from infected cells to. Confirmation of dengue virus infection by detection of. The primary role of capsid is to package the viral genome. Dengue viruses are spread by mosquitos and can cause a deadly hemorrhagic fever or a milder illness.
Dengue is a disease caused by infection with one of the four dengue virus serotypes denv1, 2, 3, and 4. Rna viruses account for many serious ongoing and emerging threats, including hiv and the ebola, influenza, dengue denv, and zika viruses. Ns3 protease from flavivirus as a target for designing antiviral inhibitors against dengue virus. The viral genomes resource is a collection of viral genomic sequences that is a part of the entrez genomes, which provides curated sequence data and annotations of complete genomes to. Pdf molecular aspects of the dengue virus infection process.
Dengue fever wikipedia complete genome sequences of dengue virus type 2 strains from. Until now, few complete sequences of this virus and none of the strains currently circulating in south and central america were available, said dominique rousset, one of the coauthors. Each year, an estimated 390 million people are infected. Analysis of genotype diversity and evolution of dengue. At the same time, significant advances in genomics approaches have provided insights into hostpathogen. Identifying host factors associated with dna replicated during. A read is counted each time someone views a publication summary such as the title, abstract, and list of authors, clicks on a figure, or views or downloads the fulltext. Molecular basis for specific viral rna recognition and o. Dengue virus denv, a mosquitoborne flavivirus, is the causative agent of dengue fever, currently one of the most significant emerging disease challenges to global public health. Dengue virus type 3 denv3 genotype iii circulated across east africa between 1984 and 1993, but no additional case was detected until the return of a european traveler from cameroon in 2006. Dna viruses tend to be larger in size than rna viruses table 1.
Research paper glycosphingolipid gm3 is indispensable for. The viral rna is not a passive template during this process. Denv genome was not detected in plasma or peripheral blood mononuclear cells pbmc samples on day 7, 14 or 21. Replication for many rna viruses occurs in cellular compartments mainly originated from the production and reorganization of virus induced membranes. Complete genome sequences of three pakistani dengue virus serotype 2. At the present time, dengue is one of the most important arboviruses affecting man. The reemergence of dengue virus denv infection has created a requirement for improved laboratory diagnostic procedures. Introduction dengue the most important mosquitotransmitted viral disease in terms of morbidity and mortality dengue fever is a acute febrile syndrome occurring in tropical regions the virus causes increased vascular permeability that leads to a bleeding diathesis or disseminated intravascular coagulation dic known as dengue hemorrhagic fever dhf. A computational method for the identification of dengue.
A risk to anyone traveling to a tropical or subtropical region of the world where dengue virus is found. Cho 1,2 1 department of agricultural biotechnology, college of agriculture and life sciences, seoul national university, seoul, republic of korea. Dengue virus is the most common mosquitoborne viral disease and infects about 390 million people each year. Quantitative genetics of aedes aegypti vector competence for.
Presently and conversely, knowledge and strategies gained. Jun 15, 2016 genome sequence of dengue virus 3 from the pythium insidiosum transcriptomes yeonhwa jo 1, hoseong choi 1 and won k. Dengue virus nonstructural protein 1 modulates infectious. We hypothesized that local circulation of the virus in guangdong or the introduction of the virus from southeast asian countries may have led to the outbreak in guangdong in 2014. Dengue virus denv dengue is caused by dengue virus denv, a mosquitoborne flavivirus. The dengue virus structure has sets of three, nearly parallel dimers. All four denv serotypes are prevalent in the sub tropical regions of the world and infect 50100 million individuals. First complete genome sequences of dengue virus serotype 2. Structure mapping of dengue and zika viruses reveals. Nextgeneration whole genome sequencing of dengue virus article pdf available in methods in molecular biology clifton, n. Genomics, proteomics and evolution of dengue virus oxford.
Dengue virus has singlestranded positivesense rna genome of about 11 kbp long, surrounded by a nucleocapsid and covered by a lipid envelope that contains the viral glycoproteins. In november 2010, a dengue outbreak was reported in monroe county in southern florida fl, including greater than 20 confirmed human cases. It has been determined that recent dengue virus epidemics in yunnan, china, originated from southeast asian strains. Decoration options let you color tree leaves by metadata. This was readily justified by the convergence of stable values for angles defining particle orientations, acceptable correlation coefficients, and the good agreement between reconstructions of two independent data sets to at least 24 a resolution.
The four serotypes denv 1, 2, 3, and 4 of denvs are transmitted in tropical countries. Dengue virus, which causes the infectious disease dengue fever, is an rna virus that infects immune system cells. Climate change, rapid urbanization and increased global travel have facilitated the spread of both efficient mosquito vectors and the four dengue virus serotypes between population centers. Dengue is the most common mosquitoborne infection worldwide and a serious threat to global public health. Here, we describe the first complete genome sequences of denv2 strains from vanuatu and the solomon islands. Since many antiviral drugs are designed to interfere with viral genome replication, understanding this step in the viral replicative cycle has gained importance in recent years. Complete nucleotide sequence analysis of a brazilian dengue. Zika virus genome sequence published by the institut pasteur. Ns3 protease from flavivirus as a target for designing. Molecular epidemiology of dengue viruses from complete genome sequences inauguraldissertation zur. Wholegenome sequencing analysis from the chikungunya virus.
Pdf antigen sandwich elisa predicts rtpcr detection of. There have been outbreaks of zika virus in the united states, africa, southeast asia. A pregnant mother can pass it to her baby during pregnancy or around the time of birth. Complete genome analysis of dengue virus type 3 isolated from.
Dengue virus denv is transmitted to humans through the bite of mosquitoes. Viral contigs were connected using sanger sequencing to obtain the fulllength genomes, with the terminal regions determined by rapid. Dengue virus denv 14 represents a major emerging arthropodborne pathogen. Matthew henn1, irene bosch2, and eva harris3 in collaboration with the genomic resources in dengue consortium grid 1broad institute. Isolates of dengue virus serotype 2 denv2 were recovered from a female resident of the solomon islands in 2016 and another female patient who had traveled from vanuatu to australia in 2017. The denv2 serotype is divided into six known genotypes such as asian i ai, asian ii aii, american am. The incidence and geographic range of dengue have increased dramatically in recent decades. Jci dengue virus elicited tryptase induces endothelial. Jan 12, 2016 now the institut pasteur in french guiana has sequenced the complete genome of the zika virus, and has published it in the lancet. Dengue virus, full genome, phylogenetic analysis, diversity, jeddah, saudi arabia background dengue virus denv is a positive sense singlestranded rna virus belonging to the flaviviridae family. Viral defective interfering particles dips with more than 90% of the genomic rna grna.
Molecular epidemiology of dengue viruses from complete genome. Louis lambrechts department of virology, institut pasteur, 25 rue du docteur roux, 75724 paris cedex 15, france. How dengue virus infects cells national institutes of. Pdf complete assembly of a dengue virus type 3 genome. Pdf o58 presence of dengue virus genome in the bone.
Serum specimens collected from dengue patients within 5 days from onset of fever in. It is a mosquitoborne, single positivestranded rna virus of the family flaviviridae. Mutagenesisofthedenguevirustype2ns5 methyltransferasedomain s. The 24 a resolution cryoem reconstruction of dengue virus particles assumed icosahedral symmetry. Isolation and complete genome analysis of neurotropic dengue virus serotype 3 from the cerebrospinal fluid of an encephalitis patient. Genome searches for dengue virus or hepatitis c virus can be augmented with clinical metadata criteria. As shown in the animation, the virus binds to receptors on the host cells surface, which triggers the cell into taking in the virus.
Complete genome sequencing and comparative analysis of three. In order to analyze the complete genome sequence of a den2 brazilian strain br6402298, we designed primers to amplify contiguous segments of approximately 500 base pairs across the entire sequence of the viral genome. The virus surface also is unusually smooth, he says, noting that the dengue virus resembles a golf ball, with small indentations stamped upon the shell where the protein structures come together. Introduction of ns5 mutations into genome length denv cdnamutations encoding changes in ns3 and ns5 amino acids were introduced into the genomic length denv2 strain new guinea c ngc cdna clone pdvws601, which yields the virus v601 32, 33. Since the dengue virus was first isolated in 1943, studies to understand the pathogenesis of dengue has long been hindered by the lack of suitable experimental models. Virus pathogen database and analysis resource vipr. Molecular basis for specific viral rna recognition and 2. Dengue virus denv genome amplification is a process that involves the viral rna, cellular and viral proteins, and a complex architecture of cellular membranes. Pdf the genome of a pathogenic organism possesses a specific order of nucleotides that contains not only information about the synthesis. Zika is a virus that is spread mostly by mosquitoes. It is now endemic in pakistan since many dengue fever outbreaks have been observed in pakistan during the last three decades. In this study, denv genome detection in urine was evaluated as a diagnostic method.
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