Genetic diversity of MERS-CoV spike protein gene in Saudi Arabia
Identifieur interne : 000298 ( Pmc/Checkpoint ); précédent : 000297; suivant : 000299Genetic diversity of MERS-CoV spike protein gene in Saudi Arabia
Auteurs : Sayed S. Sohrab [Arabie saoudite] ; Esam I. Azhar [Arabie saoudite]Source :
- Journal of Infection and Public Health [ 1876-0341 ] ; 2019.
Abstract
Middle East respiratory syndrome coronavirus (MERS-CoV) was primarily detected in 2012 and still causing disease in human and camel. Camel and bats have been identified as a potential source of virus for disease spread to human. Although, significant information related to MERS-CoV disease, spread, infection, epidemiology, clinical features have been published, A little information is available on the sequence diversity of Spike protein gene. The Spike protein gene plays a significant role in virus attachment to host cells. Recently, the information about recombinant MERS-CoV has been published. So, this work was designed to identify the emergence of any another recombinant virus in Jeddah, Saudi Arabia.
In this study samples were collected from both human and camels and the Spike protein gene was amplified and sequenced. The nucleotide and amino acid sequences of MERS-CoV Spike protein gene were used to analyze the recombination, genetic diversity and phylogenetic relationship with selected sequences from Saudi Arabia.
The nucleotide sequence identity ranged from 65.7% to 99.8% among all the samples collected from human and camels from various locations in the Kingdom. The lowest similarity (65.7%) was observed in samples from Madinah and Dammam. The phylogenetic relationship formed different clusters with multiple isolates from various locations. The sample collected from human in Jeddah hospital formed a closed cluster with human samples collected from Buraydah, while camel sample formed a closed cluster with Hufuf isolates. The phylogenetic tree by using Aminoacid sequences formed closed cluster with Dammam, Makkah and Duba isolates. The amino acid sequences variations were observed in 28/35 samples and two unique amino acid sequences variations were observed in all samples analyzed while total 19 nucleotides sequences variations were observed in the Spike protein gene. The minor recombination events were identified in eight different sequences at various hotspots in both human and camel samples using recombination detection programme.
The generated information from this study is very valuable and it will be used to design and develop therapeutic compounds and vaccine to control the MERS-CoV disease spread in not only in the Kingdom but also globally.
Url:
DOI: 10.1016/j.jiph.2019.11.007
PubMed: 31831395
PubMed Central: 7102590
Affiliations:
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PMC:7102590Le document en format XML
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<sourceDesc><biblStruct><analytic><title xml:lang="en" level="a" type="main">Genetic diversity of MERS-CoV spike protein gene in Saudi Arabia</title>
<author><name sortKey="Sohrab, Sayed S" sort="Sohrab, Sayed S" uniqKey="Sohrab S" first="Sayed S." last="Sohrab">Sayed S. Sohrab</name>
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<author><name sortKey="Azhar, Esam I" sort="Azhar, Esam I" uniqKey="Azhar E" first="Esam I." last="Azhar">Esam I. Azhar</name>
<affiliation wicri:level="1"><nlm:aff id="aff0005">Special Infectious Agents Unit, King Fahd Medical Research Center, King Abdulaziz University, Jeddah, 21589, Saudi Arabia</nlm:aff>
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<series><title level="j">Journal of Infection and Public Health</title>
<idno type="ISSN">1876-0341</idno>
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<front><div type="abstract" xml:lang="en"><sec><title>Background</title>
<p>Middle East respiratory syndrome coronavirus (MERS-CoV) was primarily detected in 2012 and still causing disease in human and camel. Camel and bats have been identified as a potential source of virus for disease spread to human. Although, significant information related to MERS-CoV disease, spread, infection, epidemiology, clinical features have been published, A little information is available on the sequence diversity of Spike protein gene. The Spike protein gene plays a significant role in virus attachment to host cells. Recently, the information about recombinant MERS-CoV has been published. So, this work was designed to identify the emergence of any another recombinant virus in Jeddah, Saudi Arabia.</p>
</sec>
<sec><title>Methods</title>
<p>In this study samples were collected from both human and camels and the Spike protein gene was amplified and sequenced. The nucleotide and amino acid sequences of MERS-CoV Spike protein gene were used to analyze the recombination, genetic diversity and phylogenetic relationship with selected sequences from Saudi Arabia.</p>
</sec>
<sec><title>Results</title>
<p>The nucleotide sequence identity ranged from 65.7% to 99.8% among all the samples collected from human and camels from various locations in the Kingdom. The lowest similarity (65.7%) was observed in samples from Madinah and Dammam. The phylogenetic relationship formed different clusters with multiple isolates from various locations. The sample collected from human in Jeddah hospital formed a closed cluster with human samples collected from Buraydah, while camel sample formed a closed cluster with Hufuf isolates. The phylogenetic tree by using Aminoacid sequences formed closed cluster with Dammam, Makkah and Duba isolates. The amino acid sequences variations were observed in 28/35 samples and two unique amino acid sequences variations were observed in all samples analyzed while total 19 nucleotides sequences variations were observed in the Spike protein gene. The minor recombination events were identified in eight different sequences at various hotspots in both human and camel samples using recombination detection programme.</p>
</sec>
<sec><title>Conclusion</title>
<p>The generated information from this study is very valuable and it will be used to design and develop therapeutic compounds and vaccine to control the MERS-CoV disease spread in not only in the Kingdom but also globally.</p>
</sec>
</div>
</front>
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<pmc article-type="research-article"><pmc-dir>properties open_access</pmc-dir>
<front><journal-meta><journal-id journal-id-type="nlm-ta">J Infect Public Health</journal-id>
<journal-id journal-id-type="iso-abbrev">J Infect Public Health</journal-id>
<journal-title-group><journal-title>Journal of Infection and Public Health</journal-title>
</journal-title-group>
<issn pub-type="ppub">1876-0341</issn>
<issn pub-type="epub">1876-035X</issn>
<publisher><publisher-name>The Authors. Published by Elsevier Ltd on behalf of King Saud Bin Abdulaziz University for Health Sciences.</publisher-name>
</publisher>
</journal-meta>
<article-meta><article-id pub-id-type="pmid">31831395</article-id>
<article-id pub-id-type="pmc">7102590</article-id>
<article-id pub-id-type="publisher-id">S1876-0341(19)30345-4</article-id>
<article-id pub-id-type="doi">10.1016/j.jiph.2019.11.007</article-id>
<article-categories><subj-group subj-group-type="heading"><subject>Article</subject>
</subj-group>
</article-categories>
<title-group><article-title>Genetic diversity of MERS-CoV spike protein gene in Saudi Arabia</article-title>
</title-group>
<contrib-group><contrib contrib-type="author" id="aut0005"><name><surname>Sohrab</surname>
<given-names>Sayed S.</given-names>
</name>
<email>ssohrab@kau.edu.sa</email>
<xref rid="aff0005" ref-type="aff">a</xref>
<xref rid="aff0010" ref-type="aff">b</xref>
<xref rid="cor0005" ref-type="corresp">⁎</xref>
</contrib>
<contrib contrib-type="author" id="aut0010"><name><surname>Azhar</surname>
<given-names>Esam I.</given-names>
</name>
<xref rid="aff0005" ref-type="aff">a</xref>
<xref rid="aff0010" ref-type="aff">b</xref>
</contrib>
</contrib-group>
<aff id="aff0005"><label>a</label>
Special Infectious Agents Unit, King Fahd Medical Research Center, King Abdulaziz University, Jeddah, 21589, Saudi Arabia</aff>
<aff id="aff0010"><label>b</label>
Medical Laboratory Technology Department, Faculty of Applied Medical Sciences, King Abdulaziz University, Jeddah, 21589, Saudi Arabia</aff>
<author-notes><corresp id="cor0005"><label>⁎</label>
Corresponding author at: Special Infectious Agents Unit, King Fahd Medical Research Center, King Abdulaziz University, Post Box No: 80216, Jeddah, 21589, Saudi Arabia. <email>ssohrab@kau.edu.sa</email>
</corresp>
</author-notes>
<pub-date pub-type="pmc-release"><day>9</day>
<month>12</month>
<year>2019</year>
</pub-date>
<pmc-comment> PMC Release delay is 0 months and 0 days and was based on .</pmc-comment>
<pub-date pub-type="epub"><day>9</day>
<month>12</month>
<year>2019</year>
</pub-date>
<elocation-id></elocation-id>
<history><date date-type="received"><day>10</day>
<month>9</month>
<year>2019</year>
</date>
<date date-type="rev-recd"><day>2</day>
<month>11</month>
<year>2019</year>
</date>
<date date-type="accepted"><day>17</day>
<month>11</month>
<year>2019</year>
</date>
</history>
<permissions><copyright-statement>© 2019 The Authors</copyright-statement>
<copyright-year>2019</copyright-year>
<license><license-p>Since January 2020 Elsevier has created a COVID-19 resource centre with free information in English and Mandarin on the novel coronavirus COVID-19. The COVID-19 resource centre is hosted on Elsevier Connect, the company's public news and information website. Elsevier hereby grants permission to make all its COVID-19-related research that is available on the COVID-19 resource centre - including this research content - immediately available in PubMed Central and other publicly funded repositories, such as the WHO COVID database with rights for unrestricted research re-use and analyses in any form or by any means with acknowledgement of the original source. These permissions are granted for free by Elsevier for as long as the COVID-19 resource centre remains active.</license-p>
</license>
</permissions>
<abstract id="abs0005"><sec><title>Background</title>
<p>Middle East respiratory syndrome coronavirus (MERS-CoV) was primarily detected in 2012 and still causing disease in human and camel. Camel and bats have been identified as a potential source of virus for disease spread to human. Although, significant information related to MERS-CoV disease, spread, infection, epidemiology, clinical features have been published, A little information is available on the sequence diversity of Spike protein gene. The Spike protein gene plays a significant role in virus attachment to host cells. Recently, the information about recombinant MERS-CoV has been published. So, this work was designed to identify the emergence of any another recombinant virus in Jeddah, Saudi Arabia.</p>
</sec>
<sec><title>Methods</title>
<p>In this study samples were collected from both human and camels and the Spike protein gene was amplified and sequenced. The nucleotide and amino acid sequences of MERS-CoV Spike protein gene were used to analyze the recombination, genetic diversity and phylogenetic relationship with selected sequences from Saudi Arabia.</p>
</sec>
<sec><title>Results</title>
<p>The nucleotide sequence identity ranged from 65.7% to 99.8% among all the samples collected from human and camels from various locations in the Kingdom. The lowest similarity (65.7%) was observed in samples from Madinah and Dammam. The phylogenetic relationship formed different clusters with multiple isolates from various locations. The sample collected from human in Jeddah hospital formed a closed cluster with human samples collected from Buraydah, while camel sample formed a closed cluster with Hufuf isolates. The phylogenetic tree by using Aminoacid sequences formed closed cluster with Dammam, Makkah and Duba isolates. The amino acid sequences variations were observed in 28/35 samples and two unique amino acid sequences variations were observed in all samples analyzed while total 19 nucleotides sequences variations were observed in the Spike protein gene. The minor recombination events were identified in eight different sequences at various hotspots in both human and camel samples using recombination detection programme.</p>
</sec>
<sec><title>Conclusion</title>
<p>The generated information from this study is very valuable and it will be used to design and develop therapeutic compounds and vaccine to control the MERS-CoV disease spread in not only in the Kingdom but also globally.</p>
</sec>
</abstract>
<kwd-group id="kwd0005"><title>Keywords</title>
<kwd>Genetic diversity</kwd>
<kwd>MERS-CoV</kwd>
<kwd>Human</kwd>
<kwd>Camel</kwd>
<kwd>Saudi Arabia</kwd>
</kwd-group>
</article-meta>
</front>
</pmc>
<affiliations><list><country><li>Arabie saoudite</li>
</country>
</list>
<tree><country name="Arabie saoudite"><noRegion><name sortKey="Sohrab, Sayed S" sort="Sohrab, Sayed S" uniqKey="Sohrab S" first="Sayed S." last="Sohrab">Sayed S. Sohrab</name>
</noRegion>
<name sortKey="Azhar, Esam I" sort="Azhar, Esam I" uniqKey="Azhar E" first="Esam I." last="Azhar">Esam I. Azhar</name>
<name sortKey="Azhar, Esam I" sort="Azhar, Esam I" uniqKey="Azhar E" first="Esam I." last="Azhar">Esam I. Azhar</name>
<name sortKey="Sohrab, Sayed S" sort="Sohrab, Sayed S" uniqKey="Sohrab S" first="Sayed S." last="Sohrab">Sayed S. Sohrab</name>
</country>
</tree>
</affiliations>
</record>
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