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Genomic analysis reveals local transmission of SARS-CoV-2 in early pandemic phase in Peru

Carlos Padilla-Rojas, Karolyn Vega-Chozo, Marco Galarza-Perez, Henri Bailon Calderon, Priscila Lope-Pari, Johanna Balbuena-Torres, David Garcia Neyra, Maribel Huaringa-Nuñez, Nancy Rojas-Serrano, Omar A. Caceres-Rey
doi: https://doi.org/10.1101/2020.09.05.284604
Carlos Padilla-Rojas
1Laboratorio de Referencia Nacional de Biotecnología y Biología Molecular. Instituto Nacional de Salud. Lima. Peru
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  • For correspondence: cpadilla7@gmail.com
Karolyn Vega-Chozo
1Laboratorio de Referencia Nacional de Biotecnología y Biología Molecular. Instituto Nacional de Salud. Lima. Peru
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Marco Galarza-Perez
1Laboratorio de Referencia Nacional de Biotecnología y Biología Molecular. Instituto Nacional de Salud. Lima. Peru
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Henri Bailon Calderon
1Laboratorio de Referencia Nacional de Biotecnología y Biología Molecular. Instituto Nacional de Salud. Lima. Peru
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Priscila Lope-Pari
2Laboratorio de Referencia Nacional de Virus Respiratorio. Instituto Nacional de Salud. Lima. Peru
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Johanna Balbuena-Torres
2Laboratorio de Referencia Nacional de Virus Respiratorio. Instituto Nacional de Salud. Lima. Peru
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David Garcia Neyra
1Laboratorio de Referencia Nacional de Biotecnología y Biología Molecular. Instituto Nacional de Salud. Lima. Peru
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Maribel Huaringa-Nuñez
2Laboratorio de Referencia Nacional de Virus Respiratorio. Instituto Nacional de Salud. Lima. Peru
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Nancy Rojas-Serrano
2Laboratorio de Referencia Nacional de Virus Respiratorio. Instituto Nacional de Salud. Lima. Peru
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Omar A. Caceres-Rey
1Laboratorio de Referencia Nacional de Biotecnología y Biología Molecular. Instituto Nacional de Salud. Lima. Peru
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ABSTRACT

The dissemination of cases of the new SAR-COV-2 coronavirus represents a serious public health problem for Latin America and Peru. For this reason, it is important to characterize the genome of the isolates that circulate in Latin America. To characterize the complete genome of first samples of the virus circulating in Peru, we amplified seven overlapping segments of the viral genome by RT-PCR and sequenced using Miseq platform. The results indicate that the genomes of the Peruvian SARS-COV-2 samples belong to the genetic groups G and S. Likewise, a phylogenetic and MST analysis of the isolates confirm the introduction of multiple isolates from Europe and Asia that, after border closing, were transmitted locally in the capital and same regions of the country. These Peruvian samples (56%) grouped into two clusters inside G clade and share B.1.1.1 lineage. The characterization of these isolates must be considered for the use and design of diagnostic tools, and effective treatment and vaccine formulations.

Competing Interest Statement

The authors have declared no competing interest.

Footnotes

  • https://www.gisaid.org/

  • https://nextstrain.org/sars-cov-2/

Copyright 
The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. All rights reserved. No reuse allowed without permission.
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Posted September 06, 2020.
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Genomic analysis reveals local transmission of SARS-CoV-2 in early pandemic phase in Peru
Carlos Padilla-Rojas, Karolyn Vega-Chozo, Marco Galarza-Perez, Henri Bailon Calderon, Priscila Lope-Pari, Johanna Balbuena-Torres, David Garcia Neyra, Maribel Huaringa-Nuñez, Nancy Rojas-Serrano, Omar A. Caceres-Rey
bioRxiv 2020.09.05.284604; doi: https://doi.org/10.1101/2020.09.05.284604
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Genomic analysis reveals local transmission of SARS-CoV-2 in early pandemic phase in Peru
Carlos Padilla-Rojas, Karolyn Vega-Chozo, Marco Galarza-Perez, Henri Bailon Calderon, Priscila Lope-Pari, Johanna Balbuena-Torres, David Garcia Neyra, Maribel Huaringa-Nuñez, Nancy Rojas-Serrano, Omar A. Caceres-Rey
bioRxiv 2020.09.05.284604; doi: https://doi.org/10.1101/2020.09.05.284604

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