Genomic surveillance unfolds the SARS-CoV-2 transmission and divergence dynamics in Bangladesh
The highly pathogenic virus SARS-CoV-2 has shattered the healthcare system of the world causing the COVID-19 pandemic since first detected in Wuhan, China. Therefore, scrutinizing the genome structure and tracing the transmission of the virus has gained enormous interest in designing appropriate int...
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| Format: | Article |
| Language: | English |
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Frontiers Media S.A.
2022-09-01
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| Series: | Frontiers in Genetics |
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| Online Access: | https://www.frontiersin.org/articles/10.3389/fgene.2022.966939/full |
| _version_ | 1798001333818621952 |
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| author | Tushar Ahmed Shishir Tushar Ahmed Shishir Taslimun Jannat Iftekhar Bin Naser |
| author_facet | Tushar Ahmed Shishir Tushar Ahmed Shishir Taslimun Jannat Iftekhar Bin Naser |
| author_sort | Tushar Ahmed Shishir |
| collection | DOAJ |
| description | The highly pathogenic virus SARS-CoV-2 has shattered the healthcare system of the world causing the COVID-19 pandemic since first detected in Wuhan, China. Therefore, scrutinizing the genome structure and tracing the transmission of the virus has gained enormous interest in designing appropriate intervention strategies to control the pandemic. In this report, we examined 4,622 sequences from Bangladesh and found that they belonged to thirty-five major PANGO lineages, while Delta alone accounted for 39%, and 78% were from just four primary lineages. Our research has also shown Dhaka to be the hub of viral transmission and observed the virus spreading back and forth across the country at different times by building a transmission network. The analysis resulted in 7,659 unique mutations, with an average of 24.61 missense mutations per sequence. Moreover, our analysis of genetic diversity and mutation patterns revealed that eight genes were under negative selection pressure to purify deleterious mutations, while three genes were under positive selection pressure. Together with an ongoing genomic surveillance program, these data will contribute to a better understanding of SARS-CoV-2, as well as its evolution pattern and pandemic characteristics in Bangladesh. |
| first_indexed | 2024-04-11T11:34:25Z |
| format | Article |
| id | doaj.art-4a7aea6fa062413db2a4e804b58a379d |
| institution | Directory Open Access Journal |
| issn | 1664-8021 |
| language | English |
| last_indexed | 2024-04-11T11:34:25Z |
| publishDate | 2022-09-01 |
| publisher | Frontiers Media S.A. |
| record_format | Article |
| series | Frontiers in Genetics |
| spelling | doaj.art-4a7aea6fa062413db2a4e804b58a379d2022-12-22T04:26:01ZengFrontiers Media S.A.Frontiers in Genetics1664-80212022-09-011310.3389/fgene.2022.966939966939Genomic surveillance unfolds the SARS-CoV-2 transmission and divergence dynamics in BangladeshTushar Ahmed Shishir0Tushar Ahmed Shishir1Taslimun Jannat2Iftekhar Bin Naser3Department of Mathematics and Natural Sciences, BRAC University, Dhaka, BangladeshRangamati General Hospital, Chattogram, BangladeshDepartment of Mathematics and Natural Sciences, BRAC University, Dhaka, BangladeshDepartment of Mathematics and Natural Sciences, BRAC University, Dhaka, BangladeshThe highly pathogenic virus SARS-CoV-2 has shattered the healthcare system of the world causing the COVID-19 pandemic since first detected in Wuhan, China. Therefore, scrutinizing the genome structure and tracing the transmission of the virus has gained enormous interest in designing appropriate intervention strategies to control the pandemic. In this report, we examined 4,622 sequences from Bangladesh and found that they belonged to thirty-five major PANGO lineages, while Delta alone accounted for 39%, and 78% were from just four primary lineages. Our research has also shown Dhaka to be the hub of viral transmission and observed the virus spreading back and forth across the country at different times by building a transmission network. The analysis resulted in 7,659 unique mutations, with an average of 24.61 missense mutations per sequence. Moreover, our analysis of genetic diversity and mutation patterns revealed that eight genes were under negative selection pressure to purify deleterious mutations, while three genes were under positive selection pressure. Together with an ongoing genomic surveillance program, these data will contribute to a better understanding of SARS-CoV-2, as well as its evolution pattern and pandemic characteristics in Bangladesh.https://www.frontiersin.org/articles/10.3389/fgene.2022.966939/fullSARS-CoV-2COVID-19genetic diversitymolecular surveillanceevolutionpandemic |
| spellingShingle | Tushar Ahmed Shishir Tushar Ahmed Shishir Taslimun Jannat Iftekhar Bin Naser Genomic surveillance unfolds the SARS-CoV-2 transmission and divergence dynamics in Bangladesh Frontiers in Genetics SARS-CoV-2 COVID-19 genetic diversity molecular surveillance evolution pandemic |
| title | Genomic surveillance unfolds the SARS-CoV-2 transmission and divergence dynamics in Bangladesh |
| title_full | Genomic surveillance unfolds the SARS-CoV-2 transmission and divergence dynamics in Bangladesh |
| title_fullStr | Genomic surveillance unfolds the SARS-CoV-2 transmission and divergence dynamics in Bangladesh |
| title_full_unstemmed | Genomic surveillance unfolds the SARS-CoV-2 transmission and divergence dynamics in Bangladesh |
| title_short | Genomic surveillance unfolds the SARS-CoV-2 transmission and divergence dynamics in Bangladesh |
| title_sort | genomic surveillance unfolds the sars cov 2 transmission and divergence dynamics in bangladesh |
| topic | SARS-CoV-2 COVID-19 genetic diversity molecular surveillance evolution pandemic |
| url | https://www.frontiersin.org/articles/10.3389/fgene.2022.966939/full |
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