scholarly journals Emergence of the East-Central-South-African genotype of Chikungunya virus in Brazil and the city of Rio de Janeiro may have occurred years before surveillance detection

2018 ◽  
Author(s):  
Thiago Moreno L. Souza ◽  
Yasmine Rangel Vieira ◽  
Edson Delatorre ◽  
Giselle Barbosa-Lima ◽  
Raul Leal Faria Luiz ◽  
...  
Keyword(s):  
South African ◽  
Rio De Janeiro ◽  
Credible Interval ◽  
Surveillance Program ◽  
East Central ◽  
Bayesian Credible Interval ◽  
Arbovirus Infection ◽  
Viral Surveillance ◽  
The City ◽  
Central South

AbstractBrazil, which is hyperendemic for dengue virus (DENV), has had recentZika(ZIKV) and (CHIKV)Chikungunyavirus outbreaks. Since March 2016, CHIKV is the arbovirus infection most frequently diagnosed in Rio de Janeiro. In the analysis of 1835 syndromic patients, screened by real time RT-PCR, 56.4% of the cases were attributed to CHIKV, 29.6% to ZIKV, and 14.1% to DENV-4. Sequence analyses of CHIKV from sixteen samples revealed that the East-Central-South-African(ECSA) genotype of CHIKV has been circulating in Brazil since 2013 [95% bayesian credible interval (BCI): 03/2012-10/2013], almost a year before it was detected by arbovirus surveillance program. Brazilian cases are related to Central African Republic sequences from 1980’s. To the best of our knowledge, given the available sequence published here and elsewhere, the ECSA genotype was likely introduced to Rio de Janeiro early on 2014 (02/2014; BCI: 07/2013-08/2014) through a single event, after primary circulation in the Bahia state at the Northestern Brazil in the previous year. The observation that the ECSA genotype of CHIKV was circulating undetected underscores the need for improvements in molecular methods for viral surveillance.

scholarly journals Emergence of the East-Central-South-African genotype of Chikungunya virus in Brazil and the city of Rio de Janeiro may have occurred years before surveillance detection

2019 ◽  
Vol 9 (1) ◽  
Author(s):  
Thiago Moreno L. Souza ◽  
Yasmine Rangel Vieira ◽  
Edson Delatorre ◽  
Giselle Barbosa-Lima ◽  
Raul Leal Faria Luiz ◽  
...  
Keyword(s):  
South African ◽  
Rio De Janeiro ◽  
Chikungunya Virus ◽  
East Central ◽  
The City ◽  
Central South

scholarly journals First report of the East-Central South African Genotype of Chikungunya Virus in Rio de Janeiro, Brazil

2016 ◽  
Author(s):  
Thiara Manuele Alves de Souza ◽  
Elzinandes Leal de Azeredo ◽  
Jéssica Badolato Corrêa da Silva ◽  
Paulo Vieira Damasco ◽  
Carla Cunha Santos ◽  
...  
Keyword(s):  
Phylogenetic Analysis ◽  
South African ◽  
Molecular Characterization ◽  
Rio De Janeiro ◽  
Chikungunya Virus ◽  
Febrile Illness ◽  
East Central ◽  
The North ◽  
Igm Elisa ◽  
Central South

AbstractBackgroundChikungunya virus (CHIKV) is an arbovirus that causes an acute febrile illness characterized by severe and debilitating arthralgia. In Brazil, the Asian and East-Central South African (ECSA) genotypes are circulating in the north and northeast of the country, respectively. In 2015, the first autochthonous cases in Rio de Janeiro, Brazil were reported but until now the circulating strains have not been characterized. Therefore, we aimed here to perform the molecular characterization and phylogenetic analysis of CHIKV strains circulating in the 2016 outbreak occurred in the municipality of Rio de Janeiro.MethodsThe cases analyzed in this study were collected at a private Hospital, from April 2016 to May 2016, during the chikungunya outbreak in Rio de Janeiro, Brazil. All cases were submitted to the Real Time RT-PCR for CHIKV genome detection and to anti-CHIKV IgM ELISA. Chikungunya infection was laboratorially confirmed by at least one diagnostic method and, randomly selected positive cases (n=10), were partially sequenced (CHIKV E1 gene) and analyzed.ResultsThe results showed that all the samples grouped in ECSA genotype branch and the molecular characterization of the fragment did not reveal the A226V mutation in the Rio de Janeiro strains analyzed, but a K211T amino acid substitution was observed for the first time in all samples and a V156A substitution in two of ten samples.ConclusionsPhylogenetic analysis and molecular characterization reveals the circulation of the ECSA genotype of CHIKV in the city of Rio de Janeiro, Brazil and two amino acids substitutions (K211T and V156A) exclusive to the CHIKV strains obtained during the 2016 epidemic, were reported.

scholarly journals Following in the Footsteps of the Chikungunya Virus in Brazil: The First Autochthonous Cases in Amapá in 2014 and Its Emergence in Rio de Janeiro during 2016

Viruses ◽  
2018 ◽  
Vol 10 (11) ◽  
pp. 623 ◽  
Author(s):  
Thiara de Souza ◽  
Edcelha Ribeiro ◽  
Valmir Corrêa ◽  
Paulo Damasco ◽  
Carla Santos ◽  
...  
Keyword(s):  
South African ◽  
Rio De Janeiro ◽  
Clinical Symptoms ◽  
Conjunctival Hyperemia ◽  
East Central ◽  
Lower Back ◽  
Two Samples ◽  
First Time ◽  
Central South ◽  
A226v Mutation

Currently, Brazil lives a triple arboviruses epidemic (DENV, ZIKV and CHIKV) making the differential diagnosis difficult for health professionals. Here, we aimed to investigate chikungunya cases and the possible occurrence of co-infections during the epidemic in Amapá (AP) that started in 2014 when the first autochthonous cases were reported and in Rio de Janeiro (RJ) in 2016. We further performed molecular characterization and genotyping of representative strains. In AP, 51.4% of the suspected cases were confirmed for CHIKV, 71.0% (76/107). Of those, 24 co-infections by CHIKV/DENV, two by CHIKV/DENV-1, and two by CHIKV/DENV-4 were observed. In RJ, 76.9% of the suspected cases were confirmed for CHIKV and co-infections by CHIKV/DENV (n = 8) and by CHIKV/ZIKV (n = 17) were observed. Overall, fever, arthralgia, myalgia, prostration, edema, exanthema, conjunctival hyperemia, lower back pain, dizziness, nausea, retroorbital pain, and anorexia were the predominating chikungunya clinical symptoms described. All strains analyzed from AP belonged to the Asian genotype and no amino acid changes were observed. In RJ, the East-Central-South-African genotype (ECSA) circulation was demonstrated and no E1-A226V mutation was observed. Despite this, an E1-V156A substitution was characterized in two samples and for the first time, the E1-K211T mutation was reported in all samples analyzed.

scholarly journals Circulation of chikungunya virus East/Central/South African lineage in Rio de Janeiro, Brazil

PLoS ONE ◽  
2019 ◽  
Vol 14 (6) ◽  
pp. e0217871 ◽  
Author(s):  
Joilson Xavier ◽  
Marta Giovanetti ◽  
Vagner Fonseca ◽  
Julien Thézé ◽  
Tiago Gräf ◽  
...  
Keyword(s):  
South African ◽  
Rio De Janeiro ◽  
Chikungunya Virus ◽  
East Central ◽  
African Lineage ◽  
Central South

scholarly journals First Report of the East-Central South African Genotype of Chikungunya Virus in Rio de Janeiro, Brazil

PLoS Currents ◽  
2017 ◽  
Author(s):  
Thiara Manuele Alves Souza ◽  
Elzinandes Leal Azeredo ◽  
Jessica Badolato-Corrêa ◽  
Paulo Vieira Damasco ◽  
Carla Santos ◽  
...  
Keyword(s):  
South African ◽  
Rio De Janeiro ◽  
Chikungunya Virus ◽  
East Central ◽  
First Report ◽  
Central South

scholarly journals Complete Coding Sequence of a Case of Chikungunya Virus Imported into Australia

2017 ◽  
Vol 5 (19) ◽  
Author(s):  
Bixing Huang ◽  
Alyssa T. Pyke ◽  
Jamie McMahon ◽  
David Warrilow
Keyword(s):  
Phylogenetic Analysis ◽  
Virus Infection ◽  
Real Time ◽  
South African ◽  
Genome Sequencing ◽  
Reverse Transcription ◽  
Chikungunya Virus ◽  
East Central ◽  
Reverse Transcription Pcr ◽  
Central South

ABSTRACT A case of chikungunya virus infection was imported from India into Australia in late 2016. Infection was diagnosed by real-time reverse transcription-PCR and confirmed by culture isolation and genome sequencing. Phylogenetic analysis of the genome sequence indicated that the virus grouped with the east/central/south African genotype.

scholarly journals Detection of East/Central/South African genotype Chikungunya virus during an outbreak in a southeastern state of Brazil

2018 ◽  
Vol 146 (16) ◽  
pp. 2056-2058 ◽  
Author(s):  
C. Lessa-Aquino ◽  
K. S. Trinta ◽  
C. P. Pestana ◽  
M. O. Ribeiro ◽  
M. V. F. Sucupira ◽  
...  
Keyword(s):  
Phylogenetic Analysis ◽  
South African ◽  
Acute Phase ◽  
Chikungunya Virus ◽  
Febrile Illness ◽  
Partial Sequence ◽  
East Central ◽  
Qrt Pcr ◽  
Central South ◽  
Sera Samples

AbstractChikungunya virus (CHIKV) is an arbovirus transmitted by Aedes mosquitoes that was first identified in Brazil in 2014. It causes a febrile illness characterised by severe arthralgia and rash. Our group investigated a suspected CHIKV outbreak in Governador Valadares, state of Minas Gerais, Brazil and from 25 acute-phase patients, 10 had qRT-PCR positive sera samples and had E1 partial sequence amplified and Sanger sequenced. Samples were identified as East/Central/South African (ECSA) genotype by phylogenetic analysis and clustered with CHIKV sequences isolated in the neighbour state of Bahia. Our findings confirm previous predictions that ECSA genotype would spread through northeast and southeast of Brazil.

Chikungunya outbreak in Karachi Pakistan 2016-2017: an analysis of viral isolates

2020 ◽  
pp. 1-11
Author(s):  
Dhani Prakoso ◽  
Kelli Barr ◽  
Kehkashan Imtiaz ◽  
Joveria Farooqi ◽  
Erum Khan ◽  
...  
Keyword(s):  
Phylogenetic Analysis ◽  
South African ◽  
Chikungunya Virus ◽  
Amino Acid Change ◽  
Nucleotide Substitution ◽  
Febrile Illness ◽  
East Central ◽  
E1 Protein ◽  
Central South ◽  
Viral Isolates

Abstract In December 2016 physicians in Karachi, Pakistan,witnessed an increase in patients presenting with febrile illness and severe polyarthralgia. Subsequently, chikungunya virus(CHIKV) was isolated from three patients. This virus was sequenced and compared with other isolates of CHIKVobtained in India and Pakistan during recent outbreaks. Phylogenetic analysis indicated that the Karachi isolates were most similar to the East Central South African CHIKV lineage and showed sequence homology to isolates obtained in other parts of Pakistan and India. More importantly, two of the CHIKV isolates had a nucleotide substitution in the E1 gene corresponding to an amino acid change at chain F portion of the E1 protein. Continuous...

scholarly journals Molecular Characterization of Chikungunya Virus Isolates From Two Localized Outbreaks During 2014-2019 in Kerala, India

2021 ◽  
Author(s):  
Anukumar Balakrishnan ◽  
Asia Devi Thounaojam ◽  
Aishwarya Babu ◽  
Jijo Koshy ◽  
Nikhil T L ◽  
...  
Keyword(s):  
South African ◽  
Chikungunya Virus ◽  
Novel Mutation ◽  
Indian Subcontinent ◽  
Virus Transmission ◽  
Amino Acid Position ◽  
East Central ◽  
Sequencing Studies ◽  
Central South

Abstract After the 2005-2009 chikungunya epidemic, intermittent outbreaks were reported in many parts of India. The outbreaks were caused by either locally circulating strains or imported viruses. Virus transmission route can be traced by complete genome sequencing studies. We investigated two outbreaks in the year 2014 and 2019 in Kerala, India. The chikungunya virus (CHIKV) was isolated from the samples and whole genome was sequenced for a 2014 isolate and a 2019 isolate. The phylogenetic tree revealed that the isolates formed a separate group with 2019 isolate from Pune, Maharashtra and belonged to the East/ Central/ South African (ECSA) genotype, Indian subcontinent sub lineage of Indian Ocean Lineage (IOL). A novel mutation at amino acid position 76 of E2 gene was observed in the group. The phylogenetic results suggest that the outbreaks might have caused by a virus, which has been circulating in India since 2014. Furthermore a detailed study is necessary to find out the evolution of CHIKV in India.

scholarly journals Spread, circulation and predominance of chikungunya virus East/Central/South African genotype in Northeast and Southeast Brazil

2018 ◽  
Author(s):  
André R R Freitas ◽  
Robert Paulino-Ramírez ◽  
Rodrigo N Angerami ◽  
Pedro Mª Alarcón-Elbal
Keyword(s):  
South African ◽  
Chikungunya Virus ◽  
Vector Competence ◽  
Temperate Climate ◽  
Southeastern Brazil ◽  
East Central ◽  
Diapausing Eggs ◽  
Cold Tolerant ◽  
Asian Lineage ◽  
Central South

Two recent researches described the spread of East/Central/South African (ECSA) lineage of chikungunya virus (CHIKV) in the Northeastern and Southeastern Brazil (Charlys da Costa et al. 2017, Cunha et al. 2017) . Initial studies in Northern Brazil, as observed in Caribbean, identified the Asian as the circulating lineage of the chikungunya. However, da Charlys da Costa et al. and Cunha et al. reported the exclusive occurrence of ECSA in two different Brazilian regions: Northeast as well as in Rio de Janeiro State (Charlys da Costa et al. 2017, Cunha et al. 2017) , suggesting that the ECSA is the predominant lineage in highly populated Brazilian areas. Despite the well-described vector competence of Aedes mosquitoes for CHIKV transmission, Aedes(Stegomyia)albopictus seems to have a greater competence for transmission of ECSA lineage compared to the Asian lineage (Vega-Rúa et al. 2015) , particularly when variable temperatures mimicking daily fluctuations of temperate climate (Vega-Rúa et al. 2015) . This statement is consistent with the fact that A albopictus has not been denounced as a vector of large outbreaks of chikungunya caused by the Asian genotype. This invasive species have capability of cold-tolerant diapausing eggs, it is paramount to establishment in temperate areas (Mitchell 1995) and new regions are invaded each year (Kraemer et al. 2015) . The predominance of the ECSA lineage in Brazil represents a potential risk of CHIKV dispersion to areas where Ae. albopictus has a broader distribution, particularly in temperate climates, including United States and Europe (Kraemer et al. 2015) , territories with intense commercial and touristic relationship with Brazil. Furthermore, the predominance of ECSA in Brazil can contributes to a better comprehension of the current distinct epidemiological scenarios between Caribbean - where explosive epidemics occurred with Aedes(Stegomyia) aegypti and Asian lineage predominated - and Brazil - with an apparent slower dispersion of CHIKV, where Ae.aegypti predominate but ECSA was prevalent linage. Both studies highlighted the importance of virological surveillance for analysis of current epidemiological scenarios and prediction of potential patterns of spreading of arboviral diseases, locally and worldwide.

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