Beyond surveillance: leveraging the potential of next generation sequencing in clinical virology

Autor: Paula C. Aulicino, Jason T. Kimata

Publikováno v: Frontiers in Tropical Diseases, Vol 5 (2024)

The COVID-19 pandemic demonstrated the strength of massive sequencing or next generation sequencing (NGS) techniques in viral genomic characterization. Millions of complete SARS-CoV-2 genomes were sequenced in almost real time. Laboratories around th

Externí odkaz: https://doaj.org/article/d741723662164e60b6ea11c62f3553b6

HIV-1 subtype F integrase polymorphisms external to the catalytic core domain contribute to severe loss of replication capacity in context of the integrase inhibitor resistance mutation Q148H

Autor: Paula C Aulicino, Zoha Momin, Mijael Rozenszajn, Arturo Monzon, Solange Arazi-Caillaud, Rosa Bologna, Andrea Mangano, Jason T Kimata

Publikováno v: J Antimicrob Chemother

Background In prior studies, HIV-1 BF recombinants with subtype F integrases failed to develop resistance to raltegravir through the Q148H mutational pathway. We aimed to determine the role of subtype-specific polymorphisms in integrase on drug susce

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::f76ce83f85a458c5d49d84941f4e356c
https://doi.org/10.1093/jac/dkac238

Impact of genotypic diversity on selection of subtype-specific drug resistance profiles during raltegravir-based therapy in individuals infected with B and BF recombinant HIV-1 strains

Autor: Daniela Verónica Sanchez, Paula C. Aulicino, Andrea Mangano, Rosa Bologna, Silvina Fernández Giuliano, Solange Arazi Caillaud, Inés Zapiola

Publikováno v: Journal of Antimicrobial Chemotherapy. 75:1567-1574

BackgroundCurrent knowledge on HIV-1 resistance to integrase inhibitors (INIs) is based mostly on subtype B strains. This contrasts with the increasing use of INIs in low- and middle-income countries, where non-B subtypes predominate.Materials and me

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::789e395bafd73127343b63e92ecea510
https://doi.org/10.1093/jac/dkaa042

Surveillance of SARS-CoV-2 variants in Argentina: detection of Alpha, Gamma, Lambda, Epsilon and Zeta in locally transmitted and imported cases

Autor: Ignacio Bourlot, Clara Theaux, Mariana Viegas, Carolina Cristina, Maria Colmeiro, Ailen Fernandez, Natalia Labarta, Sofia Di Bella, Manuel Arca, Laura Noelia Mojsiejczuk, Andrea Falaschi, Maria E Jofre, Stephanie Goya, María Florencia Eberhardt, Erica Luczak, Alejandro Castello, Marilina Rahhal, Franco Daniel Fernandez, Ariel Suarez, Dolores Acuna, Martin Zubieta, Andrés Ignacio Cordero, Jorgelina Suarez, Guido Alberto König, Monica Natale, Cecilia Camussone, Alejandra Musto, Andrea F. Puebla, Alicia Mistchenko, Silvina Lusso, Marcia Pozzati, Claudia Rechimont, Jonathan Zaiat, Andrea Gatelli, Belen Monaco, Rocio Larreche, Paula Sujanski, Gabriela Barbas, Regina Ercole, Sofia Alexay, Guillermo Thomas, Carla Medina, Marianne Munoz, Marcelo Mandile, Maria B Zaffanella, Estefania Tittarelli, Matias Irazoqui, Maria Elina Acevedo, Jose Jaramillo, Luciana Montoto, Ariel Fernando Amadio, Mercedes Soledad Nabaes Jodar, Melina Mazzeo, Yesica Espasandin, Viviana Leiva, Maria Laura Alvarez, Facundo Fernandez Moll, Maria A Lacaze, Sebastian Zunino, Osvaldo Cesar Uez, Leticia Siri, Carlos Espul, Darío Fernández Do Porto, Cecilia Ziehm, Cintia Streitenberger, Julieta Spina, Laura Valinotto, Sandra Goni, Humberto Julio Debat, Viviana Mugna, Marco Cacciahue, Gonzalo Castro, Agustina Bonnet, Maria Ines Gismondi, Cristina López, Sofia Bengoa, Carolina Ceriani, Viviana Ré, Luis Pianciola, María José Dus Santos, Paula C. Aulicino, Federico Remes Lenicov, Gustavo Levin, Andres Angelletti, Patricia Angeleri, Vanesa Seery, Carlos Cimino, Nathalie Marquez, Juan M Talia, Marina Ticeira, Rosana Toro, Gabriela Rompato, Ana Bertone, Belén Pisano, Guillermo Ojeda, Carla Massone, Ezequiel Sosa, Carolina Pintos, Carolina Torres, Julian Cipelli

Molecular surveillance of SARS-CoV-2 variants was performed on a total of 2,406 samples from the capital city and nine provinces of Argentina, during 30 epidemiological weeks (EW) that covered the end of the first wave and the beginning of the ongoin

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_________::e90d2cad9a0b87df0dbaf9111fe38c2a
https://doi.org/10.1101/2021.07.19.21260779

Identification of novel molecular determinants of co-receptor usage in HIV-1 subtype F V3 envelope sequences

Autor: Marcelo A. Martí, Maximiliano Distefano, María Florencia Fernández, Andrea Mangano, Esteban Omar Lanzarotti, Paula C. Aulicino

Publikováno v: Scientific Reports
Scientific Reports, Vol 10, Iss 1, Pp 1-9 (2020)

HIV-1 determinants of coreceptor usage within the gp120 V3 loop have been broadly studied over the past years. This information has led to the development of state-of the-art bioinformatic tools that are useful to predict co-receptor usage based on t

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::b8b882b5b6feff385f7a049ec78cd8ba
https://pubmed.ncbi.nlm.nih.gov/32724045