scholarly journals Nationwide Distribution of Dengue Virus Type 3 (DENV-3) Genotype I and Emergence of DENV-3 Genotype III during the 2019 Outbreak in Bangladesh

2021 ◽  
Vol 6 (2) ◽  
pp. 58
Author(s):  
Snigdha Rahman Titir ◽  
Shyamal Kumar Paul ◽  
Salma Ahmed ◽  
Nazia Haque ◽  
Syeda Anjuman Nasreen ◽  
...  
Keyword(s):  
Dengue Virus ◽  
Secondary Infection ◽  
Capital City ◽  
Endemic Region ◽  
Genotype I ◽  
Genotype Iii ◽  
Two Samples ◽  
Dengue Virus Type 3 ◽  
Type 3 ◽  
Epidemiological Characteristics

Bangladesh is an endemic region of dengue fever and experienced an unprecedented large outbreak with more than 100,000 confirmed cases in 2019. To understand the prevalence of dengue antibody in patients and molecular epidemiological characteristics of dengue virus (DENV) in this outbreak, a total of 179 blood samples were collected from patients in 10 districts (seven divisions) covering nearly the whole country from August to December 2019. DENV NS-1 was detected in 162 samples, among which DENV-specific IgM was positive in 119 samples (73.5%), including 60.5% samples also positive for DENV-specific IgG. Sequencing of the partial C-prM gene and its phylogenetic analysis revealed predominance of DENV type 3 genotype I, accounting for 93% of samples examined. DENV-3 genotype III was identified in two samples from separate districts, and only one DENV-2 cosmopolitan genotype was found in the capital city, Dhaka. These findings suggest the predominance of DENV-3 genotype I and occurrence of DENV-3 genotype III, associated with increased incidence of recent secondary infection in Bangladesh in 2019.

Evidence of diversification of dengue virus type 3 genotype III in the South American region

2009 ◽  
Vol 154 (4) ◽  
pp. 699-707 ◽  
Author(s):  
Domenica de Mora ◽  
Lucía D’ Andrea ◽  
Macarena Alvarez ◽  
Mary Regato ◽  
Alvaro Fajardo ◽  
...  
Keyword(s):  
Dengue Virus ◽  
Virus Type ◽  
South American ◽  
The South ◽  
Genotype Iii ◽  
South American Region ◽  
Dengue Virus Type 3 ◽  
Type 3 ◽  
American Region

scholarly journals Complete assembly of a dengue virus type 3 genome from a recent genotype III clade by metagenomic sequencing of serum

2019 ◽  
Vol 3 ◽  
pp. 44 ◽  
Author(s):  
Mary Dias ◽  
Chitra Pattabiraman ◽  
Shilpa Siddappa ◽  
Malali Gowda ◽  
Anita Shet ◽  
...  
Keyword(s):  
Dengue Virus ◽  
Virus Type ◽  
Tertiary Care ◽  
Febrile Illness ◽  
Severe Dengue ◽  
Metagenomic Sequencing ◽  
Tertiary Care Centre ◽  
Genotype Iii ◽  
Dengue Virus Type 3 ◽  
Type 3

Background: Mosquito-borne flaviviruses, such as dengue and Japanese encephalitis virus (JEV), cause life-threatening diseases, particularly in the tropics. Methods: Here we performed unbiased metagenomic sequencing of RNA extracted from the serum of four patients and the plasma of one patient, all hospitalized at a tertiary care centre in South India with severe or prolonged febrile illness, together with the serum from one healthy control, in 2014. Results: We identified and assembled a complete dengue virus type 3 sequence from a case of severe dengue fever. We also identified a small number of JEV sequences in the serum of two adults with febrile illness, including one with severe dengue. Phylogenetic analysis revealed that the dengue sequence belonged to genotype III. It has an estimated divergence time of 13.86 years from the most highly related Indian strains. In total, 11 amino acid substitutions were predicted for this strain in the antigenic envelope protein, when compared to the parent strain used for development of the first commercial dengue vaccine.  Conclusions: We demonstrate that both genome assembly and detection of a low number of viral sequences are possible through the unbiased sequencing of clinical material. These methods may help ascertain causal agents for febrile illnesses with no known cause.

scholarly journals Co-circulation of dengue virus type 3-genotype I and type 2-Cosmopolitan genotype in 2018 outbreak in Dhaka, Bangladesh

2020 ◽  
Vol 33 ◽  
pp. 100629 ◽  
Author(s):  
F.U. Ahmad ◽  
S.K. Paul ◽  
M.S. Aung ◽  
R. Mazid ◽  
M. Alam ◽  
...  
Keyword(s):  
Dengue Virus ◽  
Virus Type ◽  
Genotype I ◽  
Dengue Virus Type 3 ◽  
Type 3

scholarly journals Evolution of Dengue Virus Type 3 Genotype III in Venezuela: Diversification, Rates and Population Dynamics

2010 ◽  
Vol 7 (1) ◽  
pp. 329 ◽  
Author(s):  
Alvaro Ramírez ◽  
Alvaro Fajardo ◽  
Zoila Moros ◽  
Marlene Gerder ◽  
Gerson Caraballo ◽  
...  
Keyword(s):  
Population Dynamics ◽  
Dengue Virus ◽  
Virus Type ◽  
Diversification Rates ◽  
Genotype Iii ◽  
Dengue Virus Type 3 ◽  
Type 3

scholarly journals Complete assembly of a dengue virus type 3 genome from a recent genotype III clade by metagenomic sequencing of serum

2017 ◽  
Author(s):  
Chitra Pattabiraman ◽  
Mary Dias ◽  
Shilpa Siddappa ◽  
Malali Gowda ◽  
Anita Shet ◽  
...  
Keyword(s):  
Dengue Virus ◽  
Virus Type ◽  
Japanese Encephalitis ◽  
Febrile Illness ◽  
Severe Dengue ◽  
Sequence Information ◽  
Metagenomic Sequencing ◽  
Genotype Iii ◽  
Dengue Virus Type 3 ◽  
Type 3

ABSTRACTBackgroundMosquito-borne flaviviruses causing diseases such as dengue and Japanese encephalitis are devastating, particularly in the tropics. Although, multiple flaviviruses are known to co-circulate in India, when a patient presents with febrile illness, testing is usually limited to specific pathogens. Unbiased metagenomic sequencing of febrile cases can reveal the presence of multiple pathogens and provide complete genome information. Sequence information, a cornerstone for tracing virus evolution, is relevant for the design of vaccines and therapeutics. In order to assess the usefulness of unbiased metagenomic sequencing for the identification of viruses associated with febrile illness, we sequenced serum from four individuals and plasma from one individual, all hospitalized at a tertiary care centre in South India with severe or prolonged febrile illnesses, together with one healthy control in 2014.ResultsWe identified and assembled a complete dengue virus type 3 (DENV3) sequence from the serum of a case classified as severe dengue. We also found a small number of Japanese encephalitis virus (JEV) sequences in the serum of two adults with febrile illness, including the one who had dengue. Phylogenetic analysis of the dengue sequence indicates that it belongs to a predominantly Asian, DENV3, genotype III clade. It had an estimated divergence time of 13.86 years (95% Highest Posterior Densities 12.94 - 14.83 years) with the closest Indian strain. Amino acid substitutions were present throughout the sequenced genome, including 11 substitutions in the antigenic envelope protein compared to the strain used for the development of the first commercial dengue vaccine. Of these one substitution (E361D) was unique and six were in critical antigenic sites.ConclusionsWe demonstrate that both genome assembly and detection of a low number of viral sequences are possible by unbiased sequencing of clinical material. Complete dengue virus sequence analysis places the sequenced genome in a recent, predominantly Asian clade within genotype III of DENV3. The detection of JEV, an agent not routinely tested in febrile illness in India, warrants further analysis and highlights the need to study co-circulating flaviviruses in parallel.

scholarly journals Autochthonous spread of DENV-3 genotype III in Malaysia mitigated by pre-existing homotypic and heterotypic immunity

2018 ◽  
Vol 146 (13) ◽  
pp. 1635-1641 ◽  
Author(s):  
K. K. Tan ◽  
S. Nellis ◽  
N. I. Zulkifle ◽  
S. Sulaiman ◽  
S. AbuBakar
Keyword(s):  
Dengue Virus ◽  
Virus Type ◽  
Antibody Responses ◽  
Spatiotemporal Distribution ◽  
Distribution Study ◽  
Genotype Iii ◽  
Dengue Virus Type 3 ◽  
Major Outbreak ◽  
Klang Valley ◽  
Type 3

AbstractDengue virus type 3 genotype III (DENV-3/III) is widely distributed in most dengue-endemic regions. It emerged in Malaysia in 2008 and autochthonously spread in the midst of endemic DENV-3/I circulation. The spread, however, was limited and the virus did not cause any major outbreak. Spatiotemporal distribution study of DENV-3 over the period between 2005 and 2011 revealed that dengue cases involving DENV-3/III occurred mostly in areas without pre-existing circulating DENV-3. Neutralisation assays performed using sera of patients with the respective infection showed that the DENV-3/III viruses can be effectively neutralised by sera of patients with DENV-3 infection (50% foci reduction neutralisation titres (FRNT50) > 1300). Sera of patients with DENV-1 infection (FRNT50 ⩾ 190), but not sera of patients with DENV-2 infection (FRNT50 ⩽ 50), were also able to neutralise the virus. These findings highlight the possibility that the pre-existing homotypic DENV-3 and the cross-reacting heterotypic DENV-1 antibody responses could play a role in mitigating a major outbreak involving DENV-3/III in the Klang Valley, Malaysia.

scholarly journals Emergence of genotype Cosmopolitan of dengue virus type 2 and genotype III of dengue virus type 3 in Thailand

PLoS ONE ◽  
2018 ◽  
Vol 13 (11) ◽  
pp. e0207220 ◽  
Author(s):  
Juthamas Phadungsombat ◽  
Marco Yung-Cheng Lin ◽  
Narinee Srimark ◽  
Atsushi Yamanaka ◽  
Emi E. Nakayama ◽  
...  
Keyword(s):  
Dengue Virus ◽  
Virus Type ◽  
Genotype Iii ◽  
Dengue Virus Type 3 ◽  
Type 3 ◽  
Dengue Virus Type 2

scholarly journals Complete assembly of a dengue virus type 3 genome from a recent genotype III clade by metagenomic sequencing of serum

2018 ◽  
Vol 3 ◽  
pp. 44 ◽  
Author(s):  
Mary Dias ◽  
Chitra Pattabiraman ◽  
Shilpa Siddappa ◽  
Malali Gowda ◽  
Anita Shet ◽  
...  
Keyword(s):  
Dengue Virus ◽  
Virus Type ◽  
Tertiary Care ◽  
Febrile Illness ◽  
Severe Dengue ◽  
Metagenomic Sequencing ◽  
Tertiary Care Centre ◽  
Genotype Iii ◽  
Dengue Virus Type 3 ◽  
Type 3

Background: Mosquito-borne flaviviruses, such as dengue and Japanese encephalitis virus (JEV), cause life-threatening diseases, particularly in the tropics. Methods: Here we performed unbiased metagenomic sequencing of RNA extracted from the serum of four patients and the plasma of one patient, all hospitalized at a tertiary care centre in South India with severe or prolonged febrile illness, together with the serum from one healthy control, in 2014. Results: We identified and assembled a complete dengue virus type 3 sequence from a case of severe dengue fever. We also identified a small number of JEV sequences in the serum of two adults with febrile illness, including one with severe dengue. Phylogenetic analysis revealed that the dengue sequence belonged to genotype III. It has an estimated divergence time of 13.86 years from the most highly related Indian strains. In total, 11 amino acid substitutions were predicted for this strain in the antigenic envelope protein, when compared to the parent strain used for development of the first commercial dengue vaccine.  Conclusions: We demonstrate that both genome assembly and detection of a low number of viral sequences are possible through the unbiased sequencing of clinical material. These methods may help ascertain causal agents for febrile illnesses with no known cause.

scholarly journals Emergence of the Asian lineage dengue virus type 3 genotype III in Malaysia

2018 ◽  
Vol 18 (1) ◽  
Author(s):  
Kim-Kee Tan ◽  
Nurul-Izzani Zulkifle ◽  
Syuhaida Sulaiman ◽  
Sui-Ping Pang ◽  
NurAsyura NorAmdan ◽  
...  
Keyword(s):  
Dengue Virus ◽  
Virus Type ◽  
Genotype Iii ◽  
Dengue Virus Type 3 ◽  
Asian Lineage ◽  
Type 3
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