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  1. Article ; Online: Secuenciación del SARS-CoV-2

    Diego A. Álvarez-Díaz / Katherine Laiton-Donato / Carlos Franco-Muñoz / Marcela Mercado-Reyes

    Biomédica: revista del Instituto Nacional de Salud, Vol 40, Iss Supl. 2, Pp 188-

    la iniciativa tecnológica para fortalecer los sistemas de alerta temprana ante emergencias de salud pública en Latinoamérica y el Caribe

    2020  Volume 197

    Abstract: La pandemia de COVID-19 causada por el SARS-CoV-2 es un problema de salud pública sin precedentes en los últimos 100 años, así como la respuesta centrada en la caracterización genómica del SARS-CoV-2 prácticamente en todas las regiones del planeta. Esta ... ...

    Abstract La pandemia de COVID-19 causada por el SARS-CoV-2 es un problema de salud pública sin precedentes en los últimos 100 años, así como la respuesta centrada en la caracterización genómica del SARS-CoV-2 prácticamente en todas las regiones del planeta. Esta pandemia surgió durante la era de la epidemiología genómica impulsada por los continuos avances en la secuenciación de próxima generación. Desde su reciente aparición, la epidemiología genómica permitió la identificación precisa de nuevos linajes o especies de agentes patógenos y la reconstrucción de su variabilidad genética en tiempo real, lo que se hizo evidente en los brotes de influenza H1N1, MERS y SARS. Sin embargo, la escala global y descontrolada de esta pandemia ha generado una situación que obligó a utilizar de forma masiva herramientas de la epidemiología genómica como la rápida identificación del SARS-CoV-2 y el registro de nuevos linajes y su vigilancia activa en todo el mundo. Antes de la pandemia de COVID-19 la disponibilidad e datos genómicos de agentes patógenos circulantes en varios países de Latinoamérica y el Caribe era escasa o nula. Con la llegada del SARS-CoV-2 dicha situación cambió significativamente, aunque la cantidad de información disponible sigue siendo escasa y, en países como Colombia, Brasil, Argentina y Chile, la información genómica del SARS-CoV-2 provino principalmente de grupos de investigación en epidemiología genómica más que como producto de una política o programa de vigilancia en salud pública.
    Keywords infecciones por coronavirus ; síndrome respiratorio agudo grave ; virus del sras ; secuenciación de nucleótidos de alto rendimiento ; vigilancia epidemiológica ; políticas en salud pública ; Medicine ; R ; Arctic medicine. Tropical medicine ; RC955-962
    Language English
    Publishing date 2020-10-01T00:00:00Z
    Publisher Instituto Nacional de Salud
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  2. Article ; Online: Discordant Clinical Outcomes in a Monozygotic Dichorionic-Diamniotic Twin Pregnancy with Probable Zika Virus Exposure. Case Report

    Marcela Mercado / Marcela Daza / Cynthia A. Moore / Diana Valencia / Angelica Rico / Diego A. Álvarez-Diaz / Aaron C. Brault / Kelly Fitzpatrick / Sarah B. Mulkey

    Tropical Medicine and Infectious Disease, Vol 5, Iss 188, p

    2020  Volume 188

    Abstract: Prenatal exposure to Zika virus (ZIKV) is associated with congenital anomalies of the brain and the eye and neurodevelopmental sequelae. The spectrum of disease outcomes may relate to timing of infection as well as genetic and environmental factors. ... ...

    Abstract Prenatal exposure to Zika virus (ZIKV) is associated with congenital anomalies of the brain and the eye and neurodevelopmental sequelae. The spectrum of disease outcomes may relate to timing of infection as well as genetic and environmental factors. Congenital infections occurring in twin pregnancies can inform the clinical spectrum of these conditions and provide unique information regarding timing of infection and in utero environment with disease pathophysiology. Herein, we report a monozygotic dichorionic-diamniotic twin pregnancy with probable prenatal ZIKV exposure identified through the Colombian ZIKV disease surveillance system. Multidisciplinary clinical evaluations were provided to the twins during their first three years of life through a national program for children with in utero ZIKV exposure. Laboratory evidence of congenital infection as well as microcephaly, brain, eye, and neurodevelopmental compromise related to prenatal ZIKV infection were identified in only one infant of the twin pregnancy. This is the first report of monozygotic twins discordant for Zika-associated birth defects. The evaluation of the pathophysiology of discordance in disease outcome for congenital infections in twin pregnancies may lead to a better understanding of potential complex environmental and genetic interactions between the mother, her offspring, and an infectious exposure.
    Keywords Zika virus ; twins ; brain anomalies ; congenital infection ; microcephaly ; pregnancy ; Medicine ; R
    Subject code 610
    Language English
    Publishing date 2020-12-01T00:00:00Z
    Publisher MDPI AG
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  3. Article ; Online: Low Neutralizing Antibody Titers against the Mu Variant of SARS-CoV-2 in 31 BNT162b2 Vaccinated Individuals in Colombia

    Diego A. Álvarez-Díaz / Ana Luisa Muñoz / Pilar Tavera-Rodríguez / María T. Herrera-Sepúlveda / Hector Alejandro Ruiz-Moreno / Katherine Laiton-Donato / Carlos Franco-Muñoz / Dioselina Pelaez-Carvajal / Diego Cuellar / Alejandra M. Muñoz-Suarez / Marisol Galindo / Edgar J. Arias-Ramírez / Marcela Mercado-Reyes

    Vaccines, Vol 10, Iss 180, p

    2022  Volume 180

    Abstract: Global surveillance programs for severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) are showing the emergence of variants with mutations in the spike protein. Genomic and laboratory surveillance are important to determine if these variants may ... ...

    Abstract Global surveillance programs for severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) are showing the emergence of variants with mutations in the spike protein. Genomic and laboratory surveillance are important to determine if these variants may be more infectious or less susceptible to antiviral treatments and vaccine-induced antibodies. Three of the most predominant SARS-CoV-2 variants in Colombia during the epidemiological peaks of 2021 were isolated: Mu, a variant of interest; Gamma, a variant of concern; B.1.111, which lacks genetic markers associated with greater virulence. Microneutralization assays were performed by incubating 120 mean tissue culture infectious doses (TCID50) of each SARS-CoV-2 isolate with five two-fold serial dilutions of sera from 31 BNT162b2-vaccinated volunteers. The mean neutralization titer (MN50) was calculated by the Reed–Muench method. At the end of August, Mu represented 49% of coronavirus disease 2019 (COVID-19) cases in Colombia, followed by 25% of Gamma. In contrast, B.1.111 became almost undetectable. The evaluation of neutralizing antibodies suggests that patients vaccinated with BNT162b2 generate neutralizing antibody titers against the Mu variant at significantly lower concentrations relative to B.1.111 and Gamma. This study shows the importance of continuing surveillance programs of emerging variants, as well as the need to evaluate the neutralizing antibody response induced by other vaccines.
    Keywords COVID-19 ; spike protein ; SARS-CoV-2 variants ; neutralizing antibodies ; Mu (B.1.621) variant ; gamma (P.1) variant ; Medicine ; R
    Subject code 572
    Language English
    Publishing date 2022-01-01T00:00:00Z
    Publisher MDPI AG
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  4. Article ; Online: Absence of knockdown mutations in pyrethroid and DDT resistant populations of the main malaria vectors in Colombia

    Lorena I. Orjuela / Diego A. Álvarez-Diaz / Juliana A. Morales / Nelson Grisales / Martha L. Ahumada / Juan Venegas H / Martha L. Quiñones / María F. Yasnot

    Malaria Journal, Vol 18, Iss 1, Pp 1-

    2019  Volume 9

    Abstract: Abstract Background Knockdown resistance (kdr) is a well-characterized target-site insecticide resistance mechanism that is associated with DDT and pyrethroid resistance. Even though insecticide resistance to pyrethroids and DDT have been reported in ... ...

    Abstract Abstract Background Knockdown resistance (kdr) is a well-characterized target-site insecticide resistance mechanism that is associated with DDT and pyrethroid resistance. Even though insecticide resistance to pyrethroids and DDT have been reported in Anopheles albimanus, Anopheles benarrochi sensu lato (s.l.), Anopheles darlingi, Anopheles nuneztovari s.l., and Anopheles pseudopunctipennis s.l. malaria vectors in Latin America, there is a knowledge gap on the role that kdr resistance mechanisms play in this resistance. The aim of this study was to establish the role that kdr mechanisms play in pyrethroid and DDT resistance in the main malaria vectors in Colombia, in addition to previously reported metabolic resistance mechanisms, such as mixed function oxidases (MFO) and nonspecific esterases (NSE) enzyme families. Methods Surviving (n = 62) and dead (n = 67) An. nuneztovari s.l., An. darlingi and An. albimanus mosquitoes exposed to diagnostic concentrations of DDT and pyrethroid insecticides were used to amplify and sequence a ~ 225 bp fragment of the voltage-gated sodium channels (VGSC) gene. This fragment spanning codons 1010, 1013 and 1014 at the S6 segment of domain II to identify point mutations, which have been associated with insecticide resistance in different species of Anopheles malaria vectors. Results No kdr mutations were detected in the coding sequence of this fragment in 129 samples, 62 surviving mosquitoes and 67 dead mosquitoes, of An. darlingi, An. nuneztovari s.l. and An. albimanus. Conclusion Mutations in the VGSC gene, most frequently reported in other species of the genus Anopheles resistant to pyrethroid and DDT, are not associated with the low-intensity resistance detected to these insecticides in some populations of the main malaria vectors in Colombia. These results suggest that metabolic resistance mechanisms previously reported in these populations might be responsible for the resistance observed.
    Keywords Anopheles albimanus ; An. darlingi ; An. nuneztovari s.l ; kdr ; Insecticide resistance ; Arctic medicine. Tropical medicine ; RC955-962 ; Infectious and parasitic diseases ; RC109-216
    Subject code 616
    Language English
    Publishing date 2019-12-01T00:00:00Z
    Publisher BMC
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  5. Article ; Online: Novel Highly Divergent SARS-CoV-2 Lineage With the Spike Substitutions L249S and E484K

    Katherine Laiton-Donato / Jose A. Usme-Ciro / Carlos Franco-Muñoz / Diego A. Álvarez-Díaz / Hector Alejandro Ruiz-Moreno / Jhonnatan Reales-González / Diego Andrés Prada / Sheryll Corchuelo / Maria T. Herrera-Sepúlveda / Julian Naizaque / Gerardo Santamaría / Magdalena Wiesner / Diana Marcela Walteros / Martha Lucia Ospina Martínez / Marcela Mercado-Reyes

    Frontiers in Medicine, Vol

    2021  Volume 8

    Abstract: COVID-19 pandemics has led to genetic diversification of SARS-CoV-2 and the appearance of variants with potential impact in transmissibility and viral escape from acquired immunity. We report a new and highly divergent lineage containing 21 distinctive ... ...

    Abstract COVID-19 pandemics has led to genetic diversification of SARS-CoV-2 and the appearance of variants with potential impact in transmissibility and viral escape from acquired immunity. We report a new and highly divergent lineage containing 21 distinctive mutations (10 non-synonymous, eight synonymous, and three substitutions in non-coding regions). The amino acid changes L249S and E484K located at the CTD and RBD of the Spike protein could be of special interest due to their potential biological role in the virus-host relationship. Further studies are required for monitoring the epidemiologic impact of this new lineage.
    Keywords SARS-CoV-2 ; lineage ; COVID-19 ; spike ; variant of interest ; Medicine (General) ; R5-920
    Language English
    Publishing date 2021-06-01T00:00:00Z
    Publisher Frontiers Media S.A.
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  6. Article ; Online: Genomic Epidemiology of Severe Acute Respiratory Syndrome Coronavirus 2, Colombia

    Katherine Laiton-Donato / Christian Julián Villabona-Arenas / José A. Usme-Ciro / Carlos Franco-Muñoz / Diego A. Álvarez-Díaz / Liz Stephany Villabona-Arenas / Susy Echeverría-Londoño / Zulma M. Cucunubá / Nicolás D. Franco-Sierra / Astrid C. Flórez / Carolina Ferro / Nadim J. Ajami / Diana Marcela Walteros / Franklin Prieto / Carlos Andrés Durán / Martha Lucia Ospina-Martínez / Marcela Mercado-Reyes

    Emerging Infectious Diseases, Vol 26, Iss 12, Pp 2854-

    2020  Volume 2862

    Abstract: Coronavirus disease (COVID-19) in Colombia was first diagnosed in a traveler arriving from Italy on February 26, 2020. However, limited data are available on the origins and number of introductions of COVID-19 into the country. We sequenced the causative ...

    Abstract Coronavirus disease (COVID-19) in Colombia was first diagnosed in a traveler arriving from Italy on February 26, 2020. However, limited data are available on the origins and number of introductions of COVID-19 into the country. We sequenced the causative agent of COVID-19, severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), from 43 clinical samples we collected, along with another 79 genome sequences available from Colombia. We investigated the emergence and importation routes for SARS-CoV-2 into Colombia by using epidemiologic, historical air travel, and phylogenetic observations. Our study provides evidence of multiple introductions, mostly from Europe, and documents >12 lineages. Phylogenetic findings validate the lineage diversity, support multiple importation events, and demonstrate the evolutionary relationship of epidemiologically linked transmission chains. Our results reconstruct the early evolutionary history of SARS-CoV-2 in Colombia and highlight the advantages of genome sequencing to complement COVID-19 outbreak investigations.
    Keywords respiratory infections ; severe acute respiratory syndrome coronavirus 2 ; SARS-CoV-2 ; SARS ; COVID-19 ; coronavirus disease ; Medicine ; R ; Infectious and parasitic diseases ; RC109-216
    Subject code 572
    Language English
    Publishing date 2020-12-01T00:00:00Z
    Publisher Centers for Disease Control and Prevention
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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