El diagnostico molecular de arbovirus es indispensable para identificar agentes etiologicos, particularmente en zonas endemicas para al menos uno de ellos. Estas deben ser validadas con controles positivos, los cuales estan clasicamente representados por virus vivos, cuya obtencion puede ser riesgosa, laboriosa y costosa. El objetivo de este estudio fue producir plasmidos recombinantes para su uso como controles positivos en la validacion de la tecnica RT-PCR para el diagnostico de los virus Chikungunya (CHIKV) y Zika (ZIKV). A partir de los ARN extraidos de los virus [CHIKV (LARD809-GC) y ZIKV (MR766)] se obtuvieron por RT-PCR fragmentos parciales de ADN correspondientes a secuencias nucleotidicas de los genes E1 y NS5 de los virus Chikungunya y Zika, respectivamente, para serclonados en el plasmido comercial pGEM®-T Easy. La clonacion se confirmo mediante PCR de colonias y PCR de ADN plasmidicos extraidos a partir de las colonias recombinantes. Se logro la produccion de dos plasmidos recombinantes CHIKV-E1/ pGEM®-T Easy y ZIKV-NS5192/pGEM®-T Easy con cada una de las secuencias especificadas, para su uso en la validacion y control de las tecnicas moleculares descritas en este reporte, para el diagnostico de agentes virales CHIKV y ZIKV, evitando la manipulacion de cultivos celulares y garantizando una fuente confiable de controles positivos.

Chlamydia psittaci (Cp) es una bacteria intracelular obligada causante de la clamidiosis aviar, capaz de infectar a más de 460 especies de aves. Sin embargo, desde 2008 han sido identificadas otras especies chlamydiales en aves de vida libre y en cautiverio. El presente estudio tuvo como objetivo la identificación de un segmento del gen 16s ADNr de Cp a través de la reacción en cadena de la polimerasa anidada en dos psitácidos del género Ara ararauna y Ara chloropterus de un parque zoológico de Venezuela. Los resultados revelaron que las aves no poseían ADN compatible con Cp, pero sí para la familia Chlamydiaceae. En este sentido se aporta evidencia de la presencia de otra posible especie chlamydial en las Ara muestreadas en estado portador asintomático. Dichas aves provenían de decomisos y se desconocía su origen. Estos factores favorecen la infección por otra especie de Chlamydia. Si bien los productos de reacción en cadena de la polimerasa (PCR) obtenidos no fueron secuenciados, existen altas probabilidades de ser una Chlamydia no psittaci debido a que un elevado número de reportes a escala mundial afirman la capacidad de transmisión del resto de las especies en aves. En este sentido es necesaria la notificación de los hallazgos chlamydiales para el estudio de su capacidad patogénica en nuevos reservorios, riesgo zoonótico y la protección de la fauna silvestre y en cautiverio, principalmente la que se encuentra en riesgo de extinción.

Zika virus (ZIKV) is an emerging arbovirus belonging to the genus flavivirus that comprises other important public health viruses, such as dengue (DENV) and yellow fever (YFV). In general, ZIKV infection is a self-limiting disease, however cases of Guillain-Barré syndrome and congenital brain abnormalities in newborn infants have been reported. Diagnosing ZIKV infection remains a challenge, as viral RNA detection is only applicable until a few days after the onset of symptoms. After that, serological tests must be applied, and, as expected, high cross-reactivity between ZIKV and other flavivirus serology is observed. Plaque reduction neutralization test (PRNT) is indicated to confirm positive samples for being more specific, however it is laborious intensive and time consuming, representing a major bottleneck for patient diagnosis. To overcome this limitation, we developed a high-throughput image-based fluorescent neutralization test for ZIKV infection by serological detection. Using 226 human specimens, we showed that the new test presented higher throughput than traditional PRNT, maintaining the correlation between results. Furthermore, when tested with dengue virus samples, it showed 50.53% less cross reactivity than MAC-ELISA. This fluorescent neutralization test could be used for clinical diagnosis confirmation of ZIKV infection, as well as for vaccine clinical trials and seroprevalence studies.

Chikungunya virus emerged on Saint-Martin Island in the Caribbean in late 2013. Since then in July of 2104 Venezuela reported autochthonous cases. This study reports the first phylogenetic characterization of CHIKV autochthonous cases in Venezuela, 2014. The phylogenetic analysis showed that the CHIKV circulating in Venezuela (Aragua state) belong to the Asian genotype (Caribbean clade) and it is related to viruses that circulated in the same year in the Caribbean.

La determinación de Chlamydia psittaci (Cp) en aves psitácidas en parques zoológicos de Venezuela representa una estrategia de conservación y preservación para este grupo de aves, donde múltiples especies se encuentran amenazadas de extinción y otras han perdido su capacidad de reincorporación a su hábitat natural. A través de la reacción en cadena de la polimerasa anidada (PCR) fue amplificada la subunidad 16S del ADNr de Cp en 50 muestras de hisopado cloacal de aves psitácidas, reportando una frecuencia de 62 %. El trabajo fue realizado en el Parque Zoológico Las Delicias (PZD) 8 % y el Aquarium de Valencia (AV) 54 %. La elevada frecuencia fue asociada a un genotipo de baja concentración y virulencia debido a la ausencia de signos clínicos de clamidiosis aviar. Estos resultados demuestran la necesidad de promover la detección de Cp, principalmente para el AV que actúa como centro de recepción de ejemplares de decomiso, y, al igual que el PZD, poseen otras especies vulnerables a la extinción con riesgo de infección a Cp.

The purpose of the study was to obtain a positive control to validate molecular techniques (reverse transcription- polymerase chain reaction [RT-PCR]) used in the diagnosis and research of viral infections. From strains of Chikungunya virus (CHIKV), Zika virus, and Dengue virus (DENV-1, DENV-2, DENV- 3, and DENV-4) viral RNAs were extracted to obtain complementary DNA using RT-PCR from the nsP4 (CHIKV), NS5 (Zika virus), C/prM-M, and 5'UTR-C (DENV-1, DENV-2, DENV-3, DENV-4) sequences, which were cloned into pGEM®-T Easy. Cloning was confirmed through colony PCR, from which plasmid DNA was extracted for fragment cloning verification. Cloning of cDNA corresponding to nsP4, NS5, C/prM-M, and 5'UTR-C of the different viral agents was achieved. In conclusion, recombinant plasmids were obtained with each of the sequences specified for further assessment as positive controls in molecular techniques in an effort to avoid the use of cell cultures, which can be costly, time-consuming, and potentially dangerous.

Flavivirus and alphavirus affect the health of humans. In Venezuela and particularly in Aragua, the communities have been affected by some members of these genus, such as dengue (DENV), and Chikungunya (CHIKV). DENV circulating in Aragua since 1989 generating outbreaks of clinical importance, while CHIKV made its appearance in 2014. In Aragua state, the diagnosis had been directed toward the detection of DENV, however the situation with CHIKV generates the need to expand the diagnosis spectrum to other viral agents. In the LARDIDEV we adapted two methodology of RT-PCR's previously de scribed to detect members of these genus using flavivirus (DENV y Zika) and alphavirus (CHIKV) control strains. Both techniques were modified in the concentration of some reactants (MgCl2, dNTP's, and primers) in the second reaction of PCR. The other conditions are kept equal to those originally described. Both techniques allowed amplified up to 1 fg of RNA of viral strains (Zika and CHIKV virus), but it could to amplify smaller amounts. In all cases, sharp bands according to the expected sizes using previously identified strains of DENV, CHIKV and Zika virus were obtained. The implementation of these methodologies will strengthen the timely diagnosis of members of this genus within the system of epidemiological surveillance of viral diseases.

SUMMARY Dengue is a mosquito-borne disease caused by four closely related dengue virus (genus Flavivirus) serotypes (DENV-1–4). The clinical outcomes vary from mild febrile illness to life-threatening haemorrhagic manifestations. DENVs are endemic in the tropics and subtropics globally and currently no specific treatment or vaccines are available. In Venezuela, the American-Asian genotype of DENV-2 is the most prevalent and has been associated with severe disease outcomes. We aimed to follow-up the molecular epidemiology of DENV-2 in Venezuela to investigate if the evolution of the virus has remained the same throughout time or if the same dynamics documented in Brazil (hyperendemic co-circulation) also occurred. The results show that whereas the epidemiology of DENV in several endemic areas is characterized by serotype replacements through time, in Venezuela the American-Asian genotype DENV-2 has evolved into several genetic lineages and has remained in hyperendemic co-circulation with the other serotypes.

BACKGROUND: Dengue virus (DENV) infection can range in severity from mild dengue fever (DF) to severe dengue hemorrhagic fever (DHF) or dengue shock syndrome (DSS). Changes in host gene expression, temporally through the progression of DENV infection, especially during the early days, remains poorly characterized. Early diagnostic markers for DHF are also lacking. METHODOLOGY/PRINCIPAL FINDINGS: In this study, we investigated host gene expression in a cohort of DENV-infected subjects clinically diagnosed as DF (n = 51) and DHF (n = 13) from Maracay, Venezuela. Blood specimens were collected daily from these subjects from enrollment to early defervescence and at one convalescent time-point. Using convalescent expression levels as baseline, two distinct groups of genes were identified: the "early" group, which included genes associated with innate immunity, type I interferon, cytokine-mediated signaling, chemotaxis, and complement activity peaked at day 0-1 and declined on day 3-4; the second "late" group, comprised of genes associated with cell cycle, emerged from day 4 and peaked at day 5-6. The up-regulation of innate immune response genes coincided with the down-regulation of genes associated with viral replication during day 0-3. Furthermore, DHF patients had lower expression of genes associated with antigen processing and presentation, MHC class II receptor, NK and T cell activities, compared to that of DF patients. These results suggested that the innate and adaptive immunity during the early days of the disease are vital in suppressing DENV replication and in affecting outcome of disease severity. Gene signatures of DHF were identified as early as day 1. CONCLUSIONS/SIGNIFICANCE: Our study reveals a broad and dynamic picture of host responses in DENV infected subjects. Host response to DENV infection can now be understood as two distinct phases with unique transcriptional markers. The DHF signatures identified during day 1-3 may have applications in developing early molecular diagnostics for DHF.

BACKGROUND:Limited information exists on the epidemiology of acute febrile respiratory illnesses in tropical South American countries such as Venezuela. The objective of the present study was to examine the epidemiology of influenza-like illness (ILI) in two hospitals in Maracay, Venezuela.METHODOLOGY/PRINCIPAL FINDINGS:We performed a prospective surveillance study of persons with ILI who presented for care at two hospitals in Maracay, Venezuela, from October 2006 to December 2010. A respiratory specimen and clinical information were obtained from each participant. Viral isolation and identification with immunofluorescent antibodies and molecular methods were employed to detect respiratory viruses such as adenovirus, influenza A and B, parainfluenza, and respiratory sincytial virus, among others. There were 916 participants in the study (median age: 17 years; range: 1 month--86 years). Viruses were identified in 143 (15.6%) subjects, and one participant was found to have a co-infection with more than one virus. Influenza viruses, including pandemic H1N1 2009, were the most frequently detected pathogens, accounting for 67.4% (97/144) of the viruses detected. Adenovirus (15/144), parainfluenza virus (13/144), and respiratory syncytial virus (11/144) were also important causes of ILI in this study. Pandemic H1N1 2009 virus became the most commonly isolated influenza virus during its initial appearance in 2009. Two waves of the pandemic were observed: the first which peaked in August 2009 and the second--higher than the preceding - that peaked in October 2009. In 2010, influenza A/H3N2 re-emerged as the most predominant respiratory virus detected.CONCLUSIONS/SIGNIFICANCE:Influenza viruses were the most commonly detected viral organisms among patients with acute febrile respiratory illnesses presenting at two hospitals in Maracay, Venezuela. Pandemic H1N1 2009 influenza virus did not completely replace other circulating influenza viruses during its initial appearance in 2009. Seasonal influenza A/H3N2 was the most common influenza virus in the post-pandemic phase.

Amplification of the 5´UTR-C region of the genome of the four serotypes of Dengue virus Dengue virus infections (DENV) are the most important viral disease in terms of morbidity and mortality. The DENV genome is a single-stranded RNA with two untranslated regions (UTR) at the ends (5’ UTR and 3’ UTR) flanking an open reading frame (ORF). The 5’ UTR and 3’ UTR are important in the mechanisms of viral replication and protein synthesis, making them potential targets for regulation or inhibition of such processes by antiviral molecules. The objective of this work was to amplify the 5’UTR-C (Untranslated Region-Capsid) of the genome of the four DENV serotypes after optimizing the Reverse Transcription coupled to Polymerase Chain Reaction (RT-PCR), which could be used to assess viral translation processes in eukaryotic systems in vitro and its inhibition by potential antiviral molecules. Strains of different serotypes (DENV-1, DENV-2, DENV-3 and DENV-4) were used and assays were performed with different concentrations of the primers and Taq polymerase and reverse transcriptase enzymes. The results indicated that the best response was obtained with primer concentrations of 0.5 µM (DENV-1 and DENV-3), 1 µM (DENV-2) and 0.75 µM (DENV-4). The enzymes used showed high efficiency at the lowest quantity tested (1.25 U). According to the specified conditions, products were obtained from the 5’UTR-C with RT-PCR robust and reliable for amplification of these products.

Dengue is the most important viral disease transmitted by mosquitoes to humans in tropical and subtropical regions of the world. This is the result of its high morbidity and mortality, the spread potential of the vector Aedes aegypti, the lack of effective vaccines and specific antiviral drugs, the gradual increase in secondary infections and hyperendemicity differences in distinct countries. There are four serotypes of dengue virus which are phylogenetically grouped in genotypes and subdivided in lineages or clades. Molecular epidemiology combines phylogenetic analysis of DENV detected in particular geographic areas within a defined time with the available clinical and epidemiologic information. The objective of these studies is to look for relationships between genotypes or lineages, viral origin, geographical spreading and routes of viral transmission, disease severity, population groups affected, and the intensity, speed and extent of outbreaks. Also, molecular epidemiology has generated relevant information such as the Asian genotype DENV etiology in cases of the severe dengue epidemic in Venezuela in 1989, and the identification of specific nucleotide changes in the viral genome associated with its fundamental biological properties. However, analysis of the complete viral genome, together with bioinformatic, biological, clinical and epidemiological analysis corresponding to the four serotypes circulating in endemic countries should be performed. Molecular surveillance for the identification of genotypes ( or strains) circulating should be implemented in the laboratories responsible for the epidemiological surveillance of dengue, which would improve the effective control of DENV.

Dengue virus currently causes 50–100 million infections annually. Comprehensive knowledge about the evolution of Dengue in response to selection pressure is currently unavailable, but would greatly enhance vaccine design efforts. In the current study, we sequenced 187 new dengue virus serotype 3 (DENV-3) genotype III whole genomes isolated from Asia and the Americas. We analyzed them together with previously-sequenced isolates to gain a more detailed understanding of the evolutionary adaptations existing in this prevalent American serotype. In order to analyze the phylogenetic dynamics of DENV-3 during outbreak periods; we incorporated datasets of 48 and 11 sequences spanning two major outbreaks in Venezuela during 2001 and 2007–2008, respectively. Our phylogenetic analysis of newly sequenced viruses shows that subsets of genomes cluster primarily by geographic location, and secondarily by time of virus isolation. DENV-3 genotype III sequences from Asia are significantly divergent from those from the Americas due to their geographical separation and subsequent speciation. We measured amino acid variation for the E protein by calculating the Shannon entropy at each position between Asian and American genomes. We found a cluster of seven amino acid substitutions having high variability within E protein domain III, which has previously been implicated in serotype-specific neutralization escape mutants. No novel mutations were found in the E protein of sequences isolated during either Venezuelan outbreak. Shannon entropy analysis of the NS5 polymerase mature protein revealed that a G374E mutation, in a region that contributes to interferon resistance in other flaviviruses by interfering with JAK-STAT signaling was present in both the Asian and American sequences from the 2007–2008 Venezuelan outbreak, but was absent in the sequences from the 2001 Venezuelan outbreak. In addition to E, several NS5 amino acid changes were unique to the 2007–2008 epidemic in Venezuela and may give additional insight into the adaptive response of DENV-3 at the population level.

The incidence rates of symptomatic and asymptomatic dengue virus (DENV) infections in four "barrios" of Maracay, Venezuela, during one-year (October 2006-September 2007) were estimated. A prospective study consisting of house visits three-times a week to detect dengue cases, and semiannual serological surveys to determine probable asymptomatic dengue virus (DENV) infections was conducted. The study subjects belonged to a cohort of 2,663 people >= 5 year-old. Confirmatory diagnosis of DENV infections was carried out by reverse-transcriptase polymerase chain reaction (RT-PCR). Serological surveys were performed by anti-dengue IgM-capture immunoassay (MAC-ELISA). The results showed that the incidence rates for symptomatic and asymptomatic infections were determined to be 5.7 and 18.6 per 100,000 persons/day (p/d), respectively. The incidence rate of symptomatic infections was significantly higher in persons <15 year-old than that found in subjects >= 15 years (15.8 versus 2.9 per 100,000 p/d). On the other hand, the incidence rates of asymptomatic infections in both age groups were similar (17.3 and 18.9 per 100,000 p/d, respectively). All four DENV serotypes were detected in three of the four "barrios" studied. Finally, age and hyperendemicity were probably the contributing factors to the incidence of dengue in the four "barrios" investigated. Surely, the asymptomatic infections contributed to increase the viral transmission in the study area.