Changing predominant SARS‐CoV‐2 lineages drives successive COVID‐19 waves in Malaysia, February 2020 to March 2021
Malaysia has experienced three waves of coronavirus disease 2019 (COVID‐19) as of March 31, 2021. We studied the associated molecular epidemiology and SARS‐CoV‐2 seroprevalence during the third wave. We obtained 60 whole‐genome SARS‐CoV‐2 sequences between October 2020 and January 2021 in Kuala Lump...
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| Veröffentlicht in: | Journal of medical virology 2022-03, Vol.94 (3), p.1146-1153 |
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| creator | Sam, I‐Ching Chong, Yoong Min Abdullah, Azwani Fu, Jolene Yin Ling Hasan, M. Shahnaz Jamaluddin, Fadhil Hadi Kamarulzaman, Adeeba Lim, Koo Koon Mohd Nor, Mohd Afiq Pang, Yong Kek Ponnampalavanar, Sasheela Shahib, Muhammad Fadzil Syed Omar, Sharifah Faridah Chan, Jonathan Chia Jui Perera, David Chan, Yoke Fun |
| description | Malaysia has experienced three waves of coronavirus disease 2019 (COVID‐19) as of March 31, 2021. We studied the associated molecular epidemiology and SARS‐CoV‐2 seroprevalence during the third wave. We obtained 60 whole‐genome SARS‐CoV‐2 sequences between October 2020 and January 2021 in Kuala Lumpur/Selangor and analyzed 989 available Malaysian sequences. We tested 653 residual serum samples collected between December 2020 to April 2021 for anti‐SARS‐CoV‐2 total antibodies, as a proxy for population immunity. The first wave (January 2020) comprised sporadic imported cases from China of early Pango lineages A and B. The second wave (March–June 2020) was associated with lineage B.6. The ongoing third wave (from September 2020) was propagated by a state election in Sabah. It is due to lineage B.1.524 viruses containing spike mutations D614G and A701V. Lineages B.1.459, B.1.470, and B.1.466.2 were likely imported from the region and confined to Sarawak state. Direct age‐standardized seroprevalence in Kuala Lumpur/Selangor was 3.0%. The second and third waves were driven by super‐spreading events and different circulating lineages. Malaysia is highly susceptible to further waves, especially as alpha (B.1.1.7) and beta (B.1.351) variants of concern were first detected in December 2020/January 2021. Increased genomic surveillance is critical.
Highlights
As of March 2021, Malaysia has had 3 waves of COVID‐19
The 2nd wave was driven by lineage B.6 viruses
The 3rd wave was driven by lineage B.1.524 viruses
Seroprevalence in Kuala Lumpur/Selangor is only 3%
Malaysia is susceptible to further waves |
| doi_str_mv | 10.1002/jmv.27441 |
| format | Article |
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Highlights
As of March 2021, Malaysia has had 3 waves of COVID‐19
The 2nd wave was driven by lineage B.6 viruses
The 3rd wave was driven by lineage B.1.524 viruses
Seroprevalence in Kuala Lumpur/Selangor is only 3%
Malaysia is susceptible to further waves</description><identifier>ISSN: 0146-6615</identifier><identifier>EISSN: 1096-9071</identifier><identifier>DOI: 10.1002/jmv.27441</identifier><identifier>PMID: 34757638</identifier><language>eng</language><publisher>United States: Wiley Subscription Services, Inc</publisher><subject>Antibodies ; Antibodies, Viral - genetics ; Coronaviruses ; COVID-19 ; COVID-19 - epidemiology ; Elections ; Epidemiology ; Herd immunity ; Humans ; Malaysia ; Malaysia - epidemiology ; Mutation ; phylogenetic analysis ; Phylogeny ; SARS-CoV-2 - genetics ; SARS‐CoV‐2 ; Seroepidemiologic Studies ; Serology ; seroprevalence ; Severe acute respiratory syndrome ; Severe acute respiratory syndrome coronavirus 2 ; State elections ; Viral diseases ; Virology ; Viruses ; Wave propagation ; whole genome sequencing</subject><ispartof>Journal of medical virology, 2022-03, Vol.94 (3), p.1146-1153</ispartof><rights>2021 Wiley Periodicals LLC</rights><rights>2021 Wiley Periodicals LLC.</rights><rights>2022 Wiley Periodicals LLC</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c4431-40395fca5e0cc5225ad3fd4b508c38763fbac139cd1716b46717686761c7add13</citedby><cites>FETCH-LOGICAL-c4431-40395fca5e0cc5225ad3fd4b508c38763fbac139cd1716b46717686761c7add13</cites><orcidid>0000-0001-7089-0510 ; 0000-0002-1296-7898 ; 0000-0001-7004-1789</orcidid></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://onlinelibrary.wiley.com/doi/pdf/10.1002%2Fjmv.27441$$EPDF$$P50$$Gwiley$$H</linktopdf><linktohtml>$$Uhttps://onlinelibrary.wiley.com/doi/full/10.1002%2Fjmv.27441$$EHTML$$P50$$Gwiley$$H</linktohtml><link.rule.ids>230,314,780,784,885,1417,27924,27925,45574,45575</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/34757638$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Sam, I‐Ching</creatorcontrib><creatorcontrib>Chong, Yoong Min</creatorcontrib><creatorcontrib>Abdullah, Azwani</creatorcontrib><creatorcontrib>Fu, Jolene Yin Ling</creatorcontrib><creatorcontrib>Hasan, M. Shahnaz</creatorcontrib><creatorcontrib>Jamaluddin, Fadhil Hadi</creatorcontrib><creatorcontrib>Kamarulzaman, Adeeba</creatorcontrib><creatorcontrib>Lim, Koo Koon</creatorcontrib><creatorcontrib>Mohd Nor, Mohd Afiq</creatorcontrib><creatorcontrib>Pang, Yong Kek</creatorcontrib><creatorcontrib>Ponnampalavanar, Sasheela</creatorcontrib><creatorcontrib>Shahib, Muhammad Fadzil</creatorcontrib><creatorcontrib>Syed Omar, Sharifah Faridah</creatorcontrib><creatorcontrib>Chan, Jonathan Chia Jui</creatorcontrib><creatorcontrib>Perera, David</creatorcontrib><creatorcontrib>Chan, Yoke Fun</creatorcontrib><title>Changing predominant SARS‐CoV‐2 lineages drives successive COVID‐19 waves in Malaysia, February 2020 to March 2021</title><title>Journal of medical virology</title><addtitle>J Med Virol</addtitle><description>Malaysia has experienced three waves of coronavirus disease 2019 (COVID‐19) as of March 31, 2021. We studied the associated molecular epidemiology and SARS‐CoV‐2 seroprevalence during the third wave. We obtained 60 whole‐genome SARS‐CoV‐2 sequences between October 2020 and January 2021 in Kuala Lumpur/Selangor and analyzed 989 available Malaysian sequences. We tested 653 residual serum samples collected between December 2020 to April 2021 for anti‐SARS‐CoV‐2 total antibodies, as a proxy for population immunity. The first wave (January 2020) comprised sporadic imported cases from China of early Pango lineages A and B. The second wave (March–June 2020) was associated with lineage B.6. The ongoing third wave (from September 2020) was propagated by a state election in Sabah. It is due to lineage B.1.524 viruses containing spike mutations D614G and A701V. Lineages B.1.459, B.1.470, and B.1.466.2 were likely imported from the region and confined to Sarawak state. Direct age‐standardized seroprevalence in Kuala Lumpur/Selangor was 3.0%. The second and third waves were driven by super‐spreading events and different circulating lineages. Malaysia is highly susceptible to further waves, especially as alpha (B.1.1.7) and beta (B.1.351) variants of concern were first detected in December 2020/January 2021. Increased genomic surveillance is critical.
Highlights
As of March 2021, Malaysia has had 3 waves of COVID‐19
The 2nd wave was driven by lineage B.6 viruses
The 3rd wave was driven by lineage B.1.524 viruses
Seroprevalence in Kuala Lumpur/Selangor is only 3%
Malaysia is susceptible to further waves</description><subject>Antibodies</subject><subject>Antibodies, Viral - genetics</subject><subject>Coronaviruses</subject><subject>COVID-19</subject><subject>COVID-19 - epidemiology</subject><subject>Elections</subject><subject>Epidemiology</subject><subject>Herd immunity</subject><subject>Humans</subject><subject>Malaysia</subject><subject>Malaysia - epidemiology</subject><subject>Mutation</subject><subject>phylogenetic analysis</subject><subject>Phylogeny</subject><subject>SARS-CoV-2 - genetics</subject><subject>SARS‐CoV‐2</subject><subject>Seroepidemiologic Studies</subject><subject>Serology</subject><subject>seroprevalence</subject><subject>Severe acute respiratory syndrome</subject><subject>Severe acute respiratory syndrome coronavirus 2</subject><subject>State elections</subject><subject>Viral diseases</subject><subject>Virology</subject><subject>Viruses</subject><subject>Wave propagation</subject><subject>whole genome sequencing</subject><issn>0146-6615</issn><issn>1096-9071</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2022</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><recordid>eNp1kdFu0zAYhS0EYqVwwQsgS9yARDb_jmMnN0hTYLBp0yQGvbUcx2ldJXaxm47e8Qh7xj0J7jomQOLGv63z6ej8Pgi9BHIIhNCj5bA5pIIxeIQmQCqeVUTAYzQhwHjGORQH6FmMS0JIWVH6FB3kTBSC5-UE_agXys2tm-NVMK0frFNuja-Ov1zd_ryp_SydFPfWGTU3EbfBbtKIo9YmxnTH9eXs9EOCoMLXaqdZhy9Ur7bRqnf4xDRhVGGLKaEEr32Sgl7sXvAcPelUH82L-zlF304-fq0_Z-eXn07r4_NMM5ZDxkheFZ1WhSFaF5QWqs27ljUFKXVeph26RmnIK92CAN4wLkDwkgsOWqi2hXyK3u99V2MzmFYbtw6ql6tghxRMemXl34qzCzn3G1mmjxN5mQze3BsE_300cS0HG7Xpe-WMH6OkRcUJpSxlmaLX_6BLPwaX1pOUUyBUEKgS9XZP6eBjDKZ7CANE7vqUqU9512diX_2Z_oH8XWACjvbAte3N9v9O8uxitrf8BceJqsA</recordid><startdate>202203</startdate><enddate>202203</enddate><creator>Sam, I‐Ching</creator><creator>Chong, Yoong Min</creator><creator>Abdullah, Azwani</creator><creator>Fu, Jolene Yin Ling</creator><creator>Hasan, M. Shahnaz</creator><creator>Jamaluddin, Fadhil Hadi</creator><creator>Kamarulzaman, Adeeba</creator><creator>Lim, Koo Koon</creator><creator>Mohd Nor, Mohd Afiq</creator><creator>Pang, Yong Kek</creator><creator>Ponnampalavanar, Sasheela</creator><creator>Shahib, Muhammad Fadzil</creator><creator>Syed Omar, Sharifah Faridah</creator><creator>Chan, Jonathan Chia Jui</creator><creator>Perera, David</creator><creator>Chan, Yoke Fun</creator><general>Wiley Subscription Services, Inc</general><general>John Wiley and Sons Inc</general><scope>CGR</scope><scope>CUY</scope><scope>CVF</scope><scope>ECM</scope><scope>EIF</scope><scope>NPM</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>7QL</scope><scope>7TK</scope><scope>7U9</scope><scope>8FD</scope><scope>C1K</scope><scope>FR3</scope><scope>H94</scope><scope>K9.</scope><scope>M7N</scope><scope>P64</scope><scope>RC3</scope><scope>7X8</scope><scope>5PM</scope><orcidid>https://orcid.org/0000-0001-7089-0510</orcidid><orcidid>https://orcid.org/0000-0002-1296-7898</orcidid><orcidid>https://orcid.org/0000-0001-7004-1789</orcidid></search><sort><creationdate>202203</creationdate><title>Changing predominant SARS‐CoV‐2 lineages drives successive COVID‐19 waves in Malaysia, February 2020 to March 2021</title><author>Sam, I‐Ching ; Chong, Yoong Min ; Abdullah, Azwani ; Fu, Jolene Yin Ling ; Hasan, M. Shahnaz ; Jamaluddin, Fadhil Hadi ; Kamarulzaman, Adeeba ; Lim, Koo Koon ; Mohd Nor, Mohd Afiq ; Pang, Yong Kek ; Ponnampalavanar, Sasheela ; Shahib, Muhammad Fadzil ; Syed Omar, Sharifah Faridah ; Chan, Jonathan Chia Jui ; Perera, David ; Chan, Yoke Fun</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c4431-40395fca5e0cc5225ad3fd4b508c38763fbac139cd1716b46717686761c7add13</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2022</creationdate><topic>Antibodies</topic><topic>Antibodies, Viral - genetics</topic><topic>Coronaviruses</topic><topic>COVID-19</topic><topic>COVID-19 - epidemiology</topic><topic>Elections</topic><topic>Epidemiology</topic><topic>Herd immunity</topic><topic>Humans</topic><topic>Malaysia</topic><topic>Malaysia - epidemiology</topic><topic>Mutation</topic><topic>phylogenetic analysis</topic><topic>Phylogeny</topic><topic>SARS-CoV-2 - genetics</topic><topic>SARS‐CoV‐2</topic><topic>Seroepidemiologic Studies</topic><topic>Serology</topic><topic>seroprevalence</topic><topic>Severe acute respiratory syndrome</topic><topic>Severe acute respiratory syndrome coronavirus 2</topic><topic>State elections</topic><topic>Viral diseases</topic><topic>Virology</topic><topic>Viruses</topic><topic>Wave propagation</topic><topic>whole genome sequencing</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Sam, I‐Ching</creatorcontrib><creatorcontrib>Chong, Yoong Min</creatorcontrib><creatorcontrib>Abdullah, Azwani</creatorcontrib><creatorcontrib>Fu, Jolene Yin Ling</creatorcontrib><creatorcontrib>Hasan, M. Shahnaz</creatorcontrib><creatorcontrib>Jamaluddin, Fadhil Hadi</creatorcontrib><creatorcontrib>Kamarulzaman, Adeeba</creatorcontrib><creatorcontrib>Lim, Koo Koon</creatorcontrib><creatorcontrib>Mohd Nor, Mohd Afiq</creatorcontrib><creatorcontrib>Pang, Yong Kek</creatorcontrib><creatorcontrib>Ponnampalavanar, Sasheela</creatorcontrib><creatorcontrib>Shahib, Muhammad Fadzil</creatorcontrib><creatorcontrib>Syed Omar, Sharifah Faridah</creatorcontrib><creatorcontrib>Chan, Jonathan Chia Jui</creatorcontrib><creatorcontrib>Perera, David</creatorcontrib><creatorcontrib>Chan, Yoke Fun</creatorcontrib><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</collection><collection>PubMed</collection><collection>CrossRef</collection><collection>Bacteriology Abstracts (Microbiology B)</collection><collection>Neurosciences Abstracts</collection><collection>Virology and AIDS Abstracts</collection><collection>Technology Research Database</collection><collection>Environmental Sciences and Pollution Management</collection><collection>Engineering Research Database</collection><collection>AIDS and Cancer Research Abstracts</collection><collection>ProQuest Health & Medical Complete (Alumni)</collection><collection>Algology Mycology and Protozoology Abstracts (Microbiology C)</collection><collection>Biotechnology and BioEngineering Abstracts</collection><collection>Genetics Abstracts</collection><collection>MEDLINE - Academic</collection><collection>PubMed Central (Full Participant titles)</collection><jtitle>Journal of medical virology</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Sam, I‐Ching</au><au>Chong, Yoong Min</au><au>Abdullah, Azwani</au><au>Fu, Jolene Yin Ling</au><au>Hasan, M. Shahnaz</au><au>Jamaluddin, Fadhil Hadi</au><au>Kamarulzaman, Adeeba</au><au>Lim, Koo Koon</au><au>Mohd Nor, Mohd Afiq</au><au>Pang, Yong Kek</au><au>Ponnampalavanar, Sasheela</au><au>Shahib, Muhammad Fadzil</au><au>Syed Omar, Sharifah Faridah</au><au>Chan, Jonathan Chia Jui</au><au>Perera, David</au><au>Chan, Yoke Fun</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Changing predominant SARS‐CoV‐2 lineages drives successive COVID‐19 waves in Malaysia, February 2020 to March 2021</atitle><jtitle>Journal of medical virology</jtitle><addtitle>J Med Virol</addtitle><date>2022-03</date><risdate>2022</risdate><volume>94</volume><issue>3</issue><spage>1146</spage><epage>1153</epage><pages>1146-1153</pages><issn>0146-6615</issn><eissn>1096-9071</eissn><abstract>Malaysia has experienced three waves of coronavirus disease 2019 (COVID‐19) as of March 31, 2021. We studied the associated molecular epidemiology and SARS‐CoV‐2 seroprevalence during the third wave. We obtained 60 whole‐genome SARS‐CoV‐2 sequences between October 2020 and January 2021 in Kuala Lumpur/Selangor and analyzed 989 available Malaysian sequences. We tested 653 residual serum samples collected between December 2020 to April 2021 for anti‐SARS‐CoV‐2 total antibodies, as a proxy for population immunity. The first wave (January 2020) comprised sporadic imported cases from China of early Pango lineages A and B. The second wave (March–June 2020) was associated with lineage B.6. The ongoing third wave (from September 2020) was propagated by a state election in Sabah. It is due to lineage B.1.524 viruses containing spike mutations D614G and A701V. Lineages B.1.459, B.1.470, and B.1.466.2 were likely imported from the region and confined to Sarawak state. Direct age‐standardized seroprevalence in Kuala Lumpur/Selangor was 3.0%. The second and third waves were driven by super‐spreading events and different circulating lineages. Malaysia is highly susceptible to further waves, especially as alpha (B.1.1.7) and beta (B.1.351) variants of concern were first detected in December 2020/January 2021. Increased genomic surveillance is critical.
Highlights
As of March 2021, Malaysia has had 3 waves of COVID‐19
The 2nd wave was driven by lineage B.6 viruses
The 3rd wave was driven by lineage B.1.524 viruses
Seroprevalence in Kuala Lumpur/Selangor is only 3%
Malaysia is susceptible to further waves</abstract><cop>United States</cop><pub>Wiley Subscription Services, Inc</pub><pmid>34757638</pmid><doi>10.1002/jmv.27441</doi><tpages>8</tpages><orcidid>https://orcid.org/0000-0001-7089-0510</orcidid><orcidid>https://orcid.org/0000-0002-1296-7898</orcidid><orcidid>https://orcid.org/0000-0001-7004-1789</orcidid><oa>free_for_read</oa></addata></record> |
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| identifier | ISSN: 0146-6615 |
| ispartof | Journal of medical virology, 2022-03, Vol.94 (3), p.1146-1153 |
| issn | 0146-6615 1096-9071 |
| language | eng |
| recordid | cdi_pubmedcentral_primary_oai_pubmedcentral_nih_gov_8661738 |
| source | MEDLINE; Wiley Online Library All Journals |
| subjects | Antibodies Antibodies, Viral - genetics Coronaviruses COVID-19 COVID-19 - epidemiology Elections Epidemiology Herd immunity Humans Malaysia Malaysia - epidemiology Mutation phylogenetic analysis Phylogeny SARS-CoV-2 - genetics SARS‐CoV‐2 Seroepidemiologic Studies Serology seroprevalence Severe acute respiratory syndrome Severe acute respiratory syndrome coronavirus 2 State elections Viral diseases Virology Viruses Wave propagation whole genome sequencing |
| title | Changing predominant SARS‐CoV‐2 lineages drives successive COVID‐19 waves in Malaysia, February 2020 to March 2021 |
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