Genomic surveillance of SARS-CoV-2 in US military compounds in Afghanistan reveals multiple introductions and outbreaks of Alpha and Delta variants
Abstract Background With the emergence and spread of SARS-CoV-2 variants, genomic epidemiology and surveillance have proven invaluable tools for variant tracking. Here, we analyzed SARS-CoV-2 samples collected from personnel located at the US/NATO bases across Afghanistan. Results Sequencing and phy...
| Main Authors: | , , , , , , , , , , , |
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| Format: | Article |
| Language: | English |
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BMC
2022-07-01
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| Series: | BMC Genomics |
| Subjects: | |
| Online Access: | https://doi.org/10.1186/s12864-022-08757-5 |
| _version_ | 1818510706182455296 |
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| author | Irina Maljkovic Berry Jun Hang Christian Fung Yu Yang Marcus Chibucos Adam Pollio Jay Gandhi Tao Li Matthew A. Conte Grace M. Lidl Jay A. Johannigman Heather Friberg |
| author_facet | Irina Maljkovic Berry Jun Hang Christian Fung Yu Yang Marcus Chibucos Adam Pollio Jay Gandhi Tao Li Matthew A. Conte Grace M. Lidl Jay A. Johannigman Heather Friberg |
| author_sort | Irina Maljkovic Berry |
| collection | DOAJ |
| description | Abstract Background With the emergence and spread of SARS-CoV-2 variants, genomic epidemiology and surveillance have proven invaluable tools for variant tracking. Here, we analyzed SARS-CoV-2 samples collected from personnel located at the US/NATO bases across Afghanistan. Results Sequencing and phylogenetic analyses revealed at least 16 independent introductions of SARS-CoV-2 into four of these relatively isolated compounds during April and May 2021, including multiple introductions of Alpha and Delta variants. Four of the introductions resulted in sustained spread of the virus within, and in two cases between, the compounds. Three of these outbreaks, one Delta and two Alpha, occurred simultaneously. Conclusions Even in rigorously controlled and segregated environments, SARS-CoV-2 introduction and spread may occur frequently. |
| first_indexed | 2024-12-10T23:23:39Z |
| format | Article |
| id | doaj.art-03df28613a1747f2b00372bffdd5fc30 |
| institution | Directory Open Access Journal |
| issn | 1471-2164 |
| language | English |
| last_indexed | 2024-12-10T23:23:39Z |
| publishDate | 2022-07-01 |
| publisher | BMC |
| record_format | Article |
| series | BMC Genomics |
| spelling | doaj.art-03df28613a1747f2b00372bffdd5fc302022-12-22T01:29:39ZengBMCBMC Genomics1471-21642022-07-012311910.1186/s12864-022-08757-5Genomic surveillance of SARS-CoV-2 in US military compounds in Afghanistan reveals multiple introductions and outbreaks of Alpha and Delta variantsIrina Maljkovic Berry0Jun Hang1Christian Fung2Yu Yang3Marcus Chibucos4Adam Pollio5Jay Gandhi6Tao Li7Matthew A. Conte8Grace M. Lidl9Jay A. Johannigman10Heather Friberg11Viral Diseases Branch, Walter Reed Army Institute of ResearchViral Diseases Branch, Walter Reed Army Institute of ResearchViral Diseases Branch, Walter Reed Army Institute of ResearchViral Diseases Branch, Walter Reed Army Institute of ResearchViral Diseases Branch, Walter Reed Army Institute of ResearchViral Diseases Branch, Walter Reed Army Institute of ResearchViral Diseases Branch, Walter Reed Army Institute of ResearchViral Diseases Branch, Walter Reed Army Institute of ResearchViral Diseases Branch, Walter Reed Army Institute of ResearchViral Diseases Branch, Walter Reed Army Institute of ResearchUniformed Services University of the Health SciencesViral Diseases Branch, Walter Reed Army Institute of ResearchAbstract Background With the emergence and spread of SARS-CoV-2 variants, genomic epidemiology and surveillance have proven invaluable tools for variant tracking. Here, we analyzed SARS-CoV-2 samples collected from personnel located at the US/NATO bases across Afghanistan. Results Sequencing and phylogenetic analyses revealed at least 16 independent introductions of SARS-CoV-2 into four of these relatively isolated compounds during April and May 2021, including multiple introductions of Alpha and Delta variants. Four of the introductions resulted in sustained spread of the virus within, and in two cases between, the compounds. Three of these outbreaks, one Delta and two Alpha, occurred simultaneously. Conclusions Even in rigorously controlled and segregated environments, SARS-CoV-2 introduction and spread may occur frequently.https://doi.org/10.1186/s12864-022-08757-5SARS-CoV-2OutbreaksAfghanistanMilitary |
| spellingShingle | Irina Maljkovic Berry Jun Hang Christian Fung Yu Yang Marcus Chibucos Adam Pollio Jay Gandhi Tao Li Matthew A. Conte Grace M. Lidl Jay A. Johannigman Heather Friberg Genomic surveillance of SARS-CoV-2 in US military compounds in Afghanistan reveals multiple introductions and outbreaks of Alpha and Delta variants BMC Genomics SARS-CoV-2 Outbreaks Afghanistan Military |
| title | Genomic surveillance of SARS-CoV-2 in US military compounds in Afghanistan reveals multiple introductions and outbreaks of Alpha and Delta variants |
| title_full | Genomic surveillance of SARS-CoV-2 in US military compounds in Afghanistan reveals multiple introductions and outbreaks of Alpha and Delta variants |
| title_fullStr | Genomic surveillance of SARS-CoV-2 in US military compounds in Afghanistan reveals multiple introductions and outbreaks of Alpha and Delta variants |
| title_full_unstemmed | Genomic surveillance of SARS-CoV-2 in US military compounds in Afghanistan reveals multiple introductions and outbreaks of Alpha and Delta variants |
| title_short | Genomic surveillance of SARS-CoV-2 in US military compounds in Afghanistan reveals multiple introductions and outbreaks of Alpha and Delta variants |
| title_sort | genomic surveillance of sars cov 2 in us military compounds in afghanistan reveals multiple introductions and outbreaks of alpha and delta variants |
| topic | SARS-CoV-2 Outbreaks Afghanistan Military |
| url | https://doi.org/10.1186/s12864-022-08757-5 |
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