Tracking the genetic diversity of SARS-CoV-2 variants in Nicaragua throughout the COVID-19 pandemic
Abstract The global circulation of SARS-CoV-2 has been extensively documented; however, the dynamics within Central America, particularly Nicaragua, remain underexplored. This study characterizes the genomic diversity of SARS-CoV-2 in Nicaragua from March 2020 through December 2022, utilizing 1064 g...
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| Format: | Article |
| Language: | English |
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Nature Portfolio
2025-02-01
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| Series: | Scientific Reports |
| Online Access: | https://doi.org/10.1038/s41598-024-84113-9 |
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| author | Gerald Vásquez Alemán Cristhiam Cerpas Jose G. Juarez Hanny Moreira Sonia Arguello Josefina Coloma Eva Harris Aubree Gordon Shannon N. Bennett Ángel Balmaseda |
| author_facet | Gerald Vásquez Alemán Cristhiam Cerpas Jose G. Juarez Hanny Moreira Sonia Arguello Josefina Coloma Eva Harris Aubree Gordon Shannon N. Bennett Ángel Balmaseda |
| author_sort | Gerald Vásquez Alemán |
| collection | DOAJ |
| description | Abstract The global circulation of SARS-CoV-2 has been extensively documented; however, the dynamics within Central America, particularly Nicaragua, remain underexplored. This study characterizes the genomic diversity of SARS-CoV-2 in Nicaragua from March 2020 through December 2022, utilizing 1064 genomes obtained via next-generation sequencing. These sequences were selected nationwide and analyzed for variant classification, lineage predominance, and phylogenetic diversity. We employed both Illumina and Oxford Nanopore Technologies for all sequencing procedures. Results indicated a temporal and spatial shift in dominant lineages, initially from B.1 and A.2 in early 2020 to various Omicron subvariants toward the study’s end. Significant lineage shifts correlated with changes in COVID-19 positivity rates, underscoring the epidemiological impact of variant dissemination. Comparative analysis with regional data underscored the low diversity of circulating lineages in Nicaragua and their delayed introduction compared to other countries in the Central American region. The study also linked specific viral mutations with hospitalization rates, emphasizing the clinical relevance of genomic surveillance. This research advances the understanding of SARS-CoV-2 evolution in Nicaragua and provides valuable information regarding its genetic diversity for public health officials in Central America. We highlight the critical role of ongoing genomic surveillance in identifying emergent lineages and informing public health strategies. |
| format | Article |
| id | doaj-art-34fd6b0879f34873b598d0832d0d69df |
| institution | Kabale University |
| issn | 2045-2322 |
| language | English |
| publishDate | 2025-02-01 |
| publisher | Nature Portfolio |
| record_format | Article |
| series | Scientific Reports |
| spelling | doaj-art-34fd6b0879f34873b598d0832d0d69df2025-02-09T12:29:23ZengNature PortfolioScientific Reports2045-23222025-02-0115111210.1038/s41598-024-84113-9Tracking the genetic diversity of SARS-CoV-2 variants in Nicaragua throughout the COVID-19 pandemicGerald Vásquez Alemán0Cristhiam Cerpas1Jose G. Juarez2Hanny Moreira3Sonia Arguello4Josefina Coloma5Eva Harris6Aubree Gordon7Shannon N. Bennett8Ángel Balmaseda9Sustainable Sciences InstituteSustainable Sciences InstituteSustainable Sciences InstituteSustainable Sciences InstituteSustainable Sciences InstituteDivision of Infectious Diseases and Vaccinology, School of Public Health, University of California, BerkeleyDivision of Infectious Diseases and Vaccinology, School of Public Health, University of California, BerkeleyDepartment of Epidemiology, School of Public Health, University of MichiganCalifornia Academy of SciencesSustainable Sciences InstituteAbstract The global circulation of SARS-CoV-2 has been extensively documented; however, the dynamics within Central America, particularly Nicaragua, remain underexplored. This study characterizes the genomic diversity of SARS-CoV-2 in Nicaragua from March 2020 through December 2022, utilizing 1064 genomes obtained via next-generation sequencing. These sequences were selected nationwide and analyzed for variant classification, lineage predominance, and phylogenetic diversity. We employed both Illumina and Oxford Nanopore Technologies for all sequencing procedures. Results indicated a temporal and spatial shift in dominant lineages, initially from B.1 and A.2 in early 2020 to various Omicron subvariants toward the study’s end. Significant lineage shifts correlated with changes in COVID-19 positivity rates, underscoring the epidemiological impact of variant dissemination. Comparative analysis with regional data underscored the low diversity of circulating lineages in Nicaragua and their delayed introduction compared to other countries in the Central American region. The study also linked specific viral mutations with hospitalization rates, emphasizing the clinical relevance of genomic surveillance. This research advances the understanding of SARS-CoV-2 evolution in Nicaragua and provides valuable information regarding its genetic diversity for public health officials in Central America. We highlight the critical role of ongoing genomic surveillance in identifying emergent lineages and informing public health strategies.https://doi.org/10.1038/s41598-024-84113-9 |
| spellingShingle | Gerald Vásquez Alemán Cristhiam Cerpas Jose G. Juarez Hanny Moreira Sonia Arguello Josefina Coloma Eva Harris Aubree Gordon Shannon N. Bennett Ángel Balmaseda Tracking the genetic diversity of SARS-CoV-2 variants in Nicaragua throughout the COVID-19 pandemic Scientific Reports |
| title | Tracking the genetic diversity of SARS-CoV-2 variants in Nicaragua throughout the COVID-19 pandemic |
| title_full | Tracking the genetic diversity of SARS-CoV-2 variants in Nicaragua throughout the COVID-19 pandemic |
| title_fullStr | Tracking the genetic diversity of SARS-CoV-2 variants in Nicaragua throughout the COVID-19 pandemic |
| title_full_unstemmed | Tracking the genetic diversity of SARS-CoV-2 variants in Nicaragua throughout the COVID-19 pandemic |
| title_short | Tracking the genetic diversity of SARS-CoV-2 variants in Nicaragua throughout the COVID-19 pandemic |
| title_sort | tracking the genetic diversity of sars cov 2 variants in nicaragua throughout the covid 19 pandemic |
| url | https://doi.org/10.1038/s41598-024-84113-9 |
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