Phylogenomic Evidence of Reinfection and Persistence of SARS-CoV-2: First Report from Colombia
The continuing evolution of SARS-CoV-2 and the emergence of novel variants have raised concerns about possible reinfection events and potential changes in the coronavirus disease 2019 (COVID-19) transmission dynamics. Utilizing Oxford Nanopore technologies, we sequenced paired samples of three patie...
| Main Authors: | , , , , , , , , , , , , , |
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| Format: | Article |
| Language: | English |
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MDPI AG
2021-03-01
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| Series: | Vaccines |
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| Online Access: | https://www.mdpi.com/2076-393X/9/3/282 |
| _version_ | 1797540710429229056 |
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| author | Juan David Ramírez Marina Muñoz Nathalia Ballesteros Luz H. Patiño Sergio Castañeda Carlos A. Rincón Claudia Mendez Carolina Oliveros Julie Perez Elizabeth K. Márquez Frank de los Santos Ortiz Camilo A. Correa-Cárdenas Maria Clara Duque Alberto Paniz-Mondolfi |
| author_facet | Juan David Ramírez Marina Muñoz Nathalia Ballesteros Luz H. Patiño Sergio Castañeda Carlos A. Rincón Claudia Mendez Carolina Oliveros Julie Perez Elizabeth K. Márquez Frank de los Santos Ortiz Camilo A. Correa-Cárdenas Maria Clara Duque Alberto Paniz-Mondolfi |
| author_sort | Juan David Ramírez |
| collection | DOAJ |
| description | The continuing evolution of SARS-CoV-2 and the emergence of novel variants have raised concerns about possible reinfection events and potential changes in the coronavirus disease 2019 (COVID-19) transmission dynamics. Utilizing Oxford Nanopore technologies, we sequenced paired samples of three patients with positive RT-PCR results in a 1–2-month window period, and subsequent phylogenetics and genetic polymorphism analysis of these genomes was performed. Herein, we report, for the first time, genomic evidence of one case of reinfection in Colombia, exhibiting different SARS-CoV-2 lineage classifications between samples (B.1 and B.1.1.269). Furthermore, we report two cases of possible viral persistence, highlighting the importance of deepening our understanding on the evolutionary intra-host traits of this virus throughout different timeframes of disease progression. These results emphasize the relevance of genomic surveillance as a tool for understanding SARS-CoV-2 infection dynamics, and how this may translate effectively to future control and mitigations efforts, such as the national vaccination program. |
| first_indexed | 2024-03-10T13:04:55Z |
| format | Article |
| id | doaj.art-7c1f41d8cb1347a69d2da126e79d8516 |
| institution | Directory Open Access Journal |
| issn | 2076-393X |
| language | English |
| last_indexed | 2024-03-10T13:04:55Z |
| publishDate | 2021-03-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | Vaccines |
| spelling | doaj.art-7c1f41d8cb1347a69d2da126e79d85162023-11-21T11:10:30ZengMDPI AGVaccines2076-393X2021-03-019328210.3390/vaccines9030282Phylogenomic Evidence of Reinfection and Persistence of SARS-CoV-2: First Report from ColombiaJuan David Ramírez0Marina Muñoz1Nathalia Ballesteros2Luz H. Patiño3Sergio Castañeda4Carlos A. Rincón5Claudia Mendez6Carolina Oliveros7Julie Perez8Elizabeth K. Márquez9Frank de los Santos Ortiz10Camilo A. Correa-Cárdenas11Maria Clara Duque12Alberto Paniz-Mondolfi13Centro de Investigaciones en Microbiología y Biotecnología-UR (CIMBIUR), Facultad de Ciencias Naturales, Universidad del Rosario, 110111 Bogotá, ColombiaCentro de Investigaciones en Microbiología y Biotecnología-UR (CIMBIUR), Facultad de Ciencias Naturales, Universidad del Rosario, 110111 Bogotá, ColombiaCentro de Investigaciones en Microbiología y Biotecnología-UR (CIMBIUR), Facultad de Ciencias Naturales, Universidad del Rosario, 110111 Bogotá, ColombiaCentro de Investigaciones en Microbiología y Biotecnología-UR (CIMBIUR), Facultad de Ciencias Naturales, Universidad del Rosario, 110111 Bogotá, ColombiaCentro de Investigaciones en Microbiología y Biotecnología-UR (CIMBIUR), Facultad de Ciencias Naturales, Universidad del Rosario, 110111 Bogotá, ColombiaGrupo de Investigación en Enfermedades Tropicales del Ejército (GINETEJ), Laboratorio de Referencia e Investigación, Dirección de Sanidad Ejército, 110111 Bogotá, ColombiaGrupo de Investigación en Enfermedades Tropicales del Ejército (GINETEJ), Laboratorio de Referencia e Investigación, Dirección de Sanidad Ejército, 110111 Bogotá, ColombiaGrupo de Investigación en Enfermedades Tropicales del Ejército (GINETEJ), Laboratorio de Referencia e Investigación, Dirección de Sanidad Ejército, 110111 Bogotá, ColombiaGrupo de Investigación en Enfermedades Tropicales del Ejército (GINETEJ), Laboratorio de Referencia e Investigación, Dirección de Sanidad Ejército, 110111 Bogotá, ColombiaGrupo de Investigación en Enfermedades Tropicales del Ejército (GINETEJ), Laboratorio de Referencia e Investigación, Dirección de Sanidad Ejército, 110111 Bogotá, ColombiaGrupo de Investigación en Enfermedades Tropicales del Ejército (GINETEJ), Laboratorio de Referencia e Investigación, Dirección de Sanidad Ejército, 110111 Bogotá, ColombiaGrupo de Investigación en Enfermedades Tropicales del Ejército (GINETEJ), Laboratorio de Referencia e Investigación, Dirección de Sanidad Ejército, 110111 Bogotá, ColombiaGrupo de Investigación en Enfermedades Tropicales del Ejército (GINETEJ), Laboratorio de Referencia e Investigación, Dirección de Sanidad Ejército, 110111 Bogotá, ColombiaIcahn School of Medicine at Mount Sinai, New York, NY 10001, USAThe continuing evolution of SARS-CoV-2 and the emergence of novel variants have raised concerns about possible reinfection events and potential changes in the coronavirus disease 2019 (COVID-19) transmission dynamics. Utilizing Oxford Nanopore technologies, we sequenced paired samples of three patients with positive RT-PCR results in a 1–2-month window period, and subsequent phylogenetics and genetic polymorphism analysis of these genomes was performed. Herein, we report, for the first time, genomic evidence of one case of reinfection in Colombia, exhibiting different SARS-CoV-2 lineage classifications between samples (B.1 and B.1.1.269). Furthermore, we report two cases of possible viral persistence, highlighting the importance of deepening our understanding on the evolutionary intra-host traits of this virus throughout different timeframes of disease progression. These results emphasize the relevance of genomic surveillance as a tool for understanding SARS-CoV-2 infection dynamics, and how this may translate effectively to future control and mitigations efforts, such as the national vaccination program.https://www.mdpi.com/2076-393X/9/3/282SARS-CoV-2reinfectionsgenomic surveillanceColombia |
| spellingShingle | Juan David Ramírez Marina Muñoz Nathalia Ballesteros Luz H. Patiño Sergio Castañeda Carlos A. Rincón Claudia Mendez Carolina Oliveros Julie Perez Elizabeth K. Márquez Frank de los Santos Ortiz Camilo A. Correa-Cárdenas Maria Clara Duque Alberto Paniz-Mondolfi Phylogenomic Evidence of Reinfection and Persistence of SARS-CoV-2: First Report from Colombia Vaccines SARS-CoV-2 reinfections genomic surveillance Colombia |
| title | Phylogenomic Evidence of Reinfection and Persistence of SARS-CoV-2: First Report from Colombia |
| title_full | Phylogenomic Evidence of Reinfection and Persistence of SARS-CoV-2: First Report from Colombia |
| title_fullStr | Phylogenomic Evidence of Reinfection and Persistence of SARS-CoV-2: First Report from Colombia |
| title_full_unstemmed | Phylogenomic Evidence of Reinfection and Persistence of SARS-CoV-2: First Report from Colombia |
| title_short | Phylogenomic Evidence of Reinfection and Persistence of SARS-CoV-2: First Report from Colombia |
| title_sort | phylogenomic evidence of reinfection and persistence of sars cov 2 first report from colombia |
| topic | SARS-CoV-2 reinfections genomic surveillance Colombia |
| url | https://www.mdpi.com/2076-393X/9/3/282 |
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