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Fernandez-Cadena JC, Carvajal M, Muñoz E, Prado-Vivar B, Marquez S, Proaño S, Bayas R, Guadalupe JJ, Becerra-Wong M, Gutierrez B, Morey-Leon G, Trueba G, Grunauer M, Barragán V, Rojas-Silva P, Andrade-Molina D, Cárdenas P. First case of within-host co-infection of different SARS-CoV-2 variants in Ecuador. New Microbes New Infect 2022; 48:101001. [PMID: 35818397 PMCID: PMC9259011 DOI: 10.1016/j.nmni.2022.101001] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/29/2022] [Accepted: 06/24/2022] [Indexed: 11/28/2022] Open
Abstract
Background COVID-19 infection caused by severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) can cause mild symptoms to severe illness and death. Co-infections of SARS-CoV-2 with other respiratory viruses have been described. However, two SARS-CoV-2 lineage co-infection have been rarely reported. Methodology A genotyping analysis and two different types of whole genome sequencing were performed (Illumina MiniSeq and ONT MinION). When examining the phylogenetic analysis in NextClade and Pangolin webservers, and considering the genotyping findings, conflicting results were obtained. Results The raw data of the sequencing was analyzed, and nucleotide variants were identified between different reads of the virus genome. B.1 and P.1 lineages were identified within the same sample. Conclusions We concluded that this is a co-infection case with two SARS-CoV-2 lineages, the first one reported in Ecuador.
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Affiliation(s)
| | - M Carvajal
- Universidad San Francisco de Quito, COCIBA, Instituto de Microbiología, Ecuador
| | - E Muñoz
- Universidad San Francisco de Quito, COCIBA, Instituto de Microbiología, Ecuador
| | - B Prado-Vivar
- Universidad San Francisco de Quito, COCIBA, Instituto de Microbiología, Ecuador
| | - S Marquez
- Universidad San Francisco de Quito, COCIBA, Instituto de Microbiología, Ecuador
| | - S Proaño
- Universidad San Francisco de Quito, COCIBA, Instituto de Microbiología, Ecuador
| | - R Bayas
- Universidad San Francisco de Quito, COCIBA, Instituto de Microbiología, Ecuador
| | - J J Guadalupe
- Universidad San Francisco de Quito, COCIBA, Laboratorio de Biotecnología Vegetal, Ecuador
| | - M Becerra-Wong
- Universidad San Francisco de Quito, COCIBA, Instituto de Microbiología, Ecuador
| | - B Gutierrez
- Universidad San Francisco de Quito, COCIBA, Laboratorio de Biotecnología Vegetal, Ecuador.,Departament of Zoology, University of Oxford, UK
| | | | - G Trueba
- Universidad San Francisco de Quito, COCIBA, Instituto de Microbiología, Ecuador
| | - M Grunauer
- Universidad San Francisco de Quito, COCSA, Escuela de Medicina, Ecuador.,Unidad de Cuidados Intensivos, Hospital de los Valles, Quito, Ecuador
| | - V Barragán
- Universidad San Francisco de Quito, COCIBA, Instituto de Microbiología, Ecuador
| | - P Rojas-Silva
- Universidad San Francisco de Quito, COCIBA, Instituto de Microbiología, Ecuador
| | | | - P Cárdenas
- Universidad San Francisco de Quito, COCIBA, Instituto de Microbiología, Ecuador
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