{"id":6758,"date":"2020-08-06T17:56:39","date_gmt":"2020-08-06T14:56:39","guid":{"rendered":"https:\/\/www.pasteur.mg\/?p=6758"},"modified":"2023-05-17T14:41:11","modified_gmt":"2023-05-17T11:41:11","slug":"linstitut-pasteur-de-madagascar-caracterise-les-deux-premiers-genomes-complets-de-virus-sars-cov-2-detectes-a-madagascar-en-mars-2020","status":"publish","type":"post","link":"https:\/\/www.pasteur.mg\/en\/linstitut-pasteur-de-madagascar-caracterise-les-deux-premiers-genomes-complets-de-virus-sars-cov-2-detectes-a-madagascar-en-mars-2020\/","title":{"rendered":"L\u2019Institut Pasteur de Madagascar caract\u00e9rise les deux premiers g\u00e9nomes complets de virus SARS-CoV-2 d\u00e9tect\u00e9s \u00e0 Madagascar en Mars 2020"},"content":{"rendered":"<p>Le 19 mars 2020, Madagascar notifiait le premier cas de COVID-19 chez une personne revenant d\u2019Europe. Depuis cette date plus de 12&nbsp;000 cas de COVID-19 ont \u00e9t\u00e9 d\u00e9clar\u00e9s faisant plus de 120 d\u00e9c\u00e8s \u00e0 ce jour.<\/p>\n\n\n\n<p>D\u00e8s le 29 janvier 2020, l\u2019IPM \u00e9tait parmi les premiers pays en Afrique en capacit\u00e9 d\u2019effectuer le diagnostic du COVID-19 par amplification g\u00e9nique du virus SARS-CoV-2. Ainsi le Centre National de R\u00e9f\u00e9rence pour la Grippe de l\u2019Unit\u00e9 de virologie d\u00e9clarait aux autorit\u00e9s malgaches la d\u00e9tection du virus responsable du COVID-19 \u00e0 partir d\u2019un pr\u00e9l\u00e8vement effectu\u00e9 chez un passager en isolement et de retour d\u2019Europe. Au 5 Ao\u00fbt 2020, l\u2019IPM a ainsi r\u00e9alis\u00e9 22&nbsp;494 tests et confirm\u00e9 4&nbsp;088 nouveaux cas de COVID-19.<\/p>\n\n\n\n<p>D\u00e8s le d\u00e9but de l\u2019\u00e9pid\u00e9mie, l\u2019Unit\u00e9 de virologie s\u2019est attach\u00e9e \u00e0 r\u00e9aliser le s\u00e9quen\u00e7age complet du g\u00e9nome du virus SARS-CoV-2 qui est constitu\u00e9 d&rsquo;<a href=\"https:\/\/fr.wikipedia.org\/wiki\/Acide_ribonucl%C3%A9ique\">acide ribonucl\u00e9ique<\/a>&nbsp;(ARN).<\/p>\n\n\n\n<p>Le g\u00e9nome d\u2019un virus ou s\u00e9quence, contient toutes les informations n\u00e9cessaires \u00e0 la survie et la multiplication du virus. Il est constitu\u00e9 de la succession de 4 bases (Ad\u00e9nine, Thymidine, Guanine et Cytosine) selon un ordre particulier qui caract\u00e9rise chaque virus.<\/p>\n\n\n\n<p>Sa taille se mesure en nombre de&nbsp;<a href=\"https:\/\/fr.wikipedia.org\/wiki\/Nucl%C3%A9otide\">nucl\u00e9otides<\/a>. Selon le virus, la taille de son g\u00e9nome est tr\u00e8s variable. Dans le cas du SARS-CoV-2 responsable du Covid-19, elle se compose d\u2019environ 30 000 nucl\u00e9otides.<\/p>\n\n\n\n<p>Le s\u00e9quen\u00e7age d&rsquo;un g\u00e9nome consiste en la d\u00e9termination de la s\u00e9quence nucl\u00e9otidique totale du virus. Ce type de s\u00e9quen\u00e7age permet d\u2019obtenir des informations pr\u00e9cises sur l\u2019origine du virus, de suivre son \u00e9volution au cours d\u2019une \u00e9pid\u00e9mie, de mieux diagnostiquer une infection et de trouver \u00e9ventuellement des traitements ou des cibles th\u00e9rapeutiques.<\/p>\n\n\n\n<p>Malgr\u00e9 la pr\u00e9sence d\u2019un s\u00e9quenceur de nouvelle g\u00e9n\u00e9ration (Illumina iSeq100) au sein de l\u2019unit\u00e9, les chercheurs ont \u00e9t\u00e9 retard\u00e9s dans leurs travaux du fait des difficult\u00e9s d\u2019approvisionnement en r\u00e9actifs sp\u00e9cifiques et du retard de livraison d\u2019un second \u00e9quipement important pour mesurer la qualit\u00e9 du mat\u00e9riel g\u00e9n\u00e9tique n\u00e9cessaire au s\u00e9quen\u00e7age (Agillent 4150 TapeStation System).<\/p>\n\n\n\n<p>Gr\u00e2ce \u00e0 l\u2019appui technique du Dr Cara Brook de l\u2019Universit\u00e9 de Californie Berkeley et de l\u2019\u00e9quipe du laboratoire Chan Zuckerberg Biohub, ainsi qu\u2019au soutien de partenaires tels que la Gates Fondation (programme Grant Challenge Exp\u00e9rience), l\u2019Universit\u00e9 de Californie Berkeley et le Chan Zuckerberg Biohub, l\u2019IPM a pu recevoir les r\u00e9actifs et l\u2019\u00e9quipement n\u00e9cessaires au s\u00e9quen\u00e7age complet de virus au mois de juillet.<\/p>\n\n\n\n<p>Les deux premiers coronavirus SARS-CoV-2 d\u00e9tect\u00e9s \u00e0 Madagascar chez des personnes revenant de France ont pu \u00eatre s\u00e9quenc\u00e9s compl\u00e8tement gr\u00e2ce \u00e0 l\u2019important travail de l\u2019\u00e9quipe de l\u2019unit\u00e9 de virologie et notamment du Dr Christian RANAIVOSON sous la supervision du Dr Jean-Michel HERAUD, chef de l\u2019Unit\u00e9 de Virologie de l\u2019IPM. L\u2019ensemble du processus de s\u00e9quen\u00e7age jusqu\u2019\u00e0 la reconstruction compl\u00e8te du virus aura pris 5 jours ce qui est une performance compte-tenu de la nouveaut\u00e9 de cette technique au sein de l\u2019unit\u00e9 de virologie. Ce s\u00e9quen\u00e7age de g\u00e9nome complet d\u2019un virus \u00e9tait en effet le premier essai r\u00e9alis\u00e9 par les chercheurs de l\u2019unit\u00e9.<\/p>\n\n\n\n<p>Les deux premi\u00e8res s\u00e9quences compl\u00e8tes du SARS-CoV-2 ont \u00e9t\u00e9 mises \u00e0 la disposition de la communaut\u00e9 internationale par leur d\u00e9p\u00f4t sur la plateforme GISAID (GISAID.org). Madagascar rejoint ainsi la liste grandissante des pays Africains ayant s\u00e9quenc\u00e9 et partag\u00e9 des s\u00e9quences compl\u00e8tes du SARS-CoV-2 (Figure 1).<\/p>\n\n\n\n<p>La comparaison des s\u00e9quences des premiers virus d\u00e9tect\u00e9s \u00e0 Madagascar avec le virus de r\u00e9f\u00e9rence isol\u00e9 \u00e0 Wuhan (hCoV-19\/Wuhan\/WIV04\/2019) ne montre aucune mutation au niveau de la prot\u00e9ine S (prot\u00e9ine Spike) impliqu\u00e9e dans la fixation du virus sur le r\u00e9cepteur cellulaire humain ACE2.<\/p>\n\n\n\n<div class=\"wp-block-image\"><figure class=\"aligncenter size-large is-resized\"><img data-recalc-dims=\"1\" loading=\"lazy\" decoding=\"async\" data-attachment-id=\"6761\" data-permalink=\"https:\/\/www.pasteur.mg\/en\/linstitut-pasteur-de-madagascar-caracterise-les-deux-premiers-genomes-complets-de-virus-sars-cov-2-detectes-a-madagascar-en-mars-2020\/sequence-1-1\/\" data-orig-file=\"https:\/\/i0.wp.com\/www.pasteur.mg\/wp-content\/uploads\/2020\/08\/S%C3%A9quence-1-1.png?fit=1003%2C755&amp;ssl=1\" data-orig-size=\"1003,755\" data-comments-opened=\"0\" data-image-meta=\"{&quot;aperture&quot;:&quot;0&quot;,&quot;credit&quot;:&quot;&quot;,&quot;camera&quot;:&quot;&quot;,&quot;caption&quot;:&quot;&quot;,&quot;created_timestamp&quot;:&quot;0&quot;,&quot;copyright&quot;:&quot;&quot;,&quot;focal_length&quot;:&quot;0&quot;,&quot;iso&quot;:&quot;0&quot;,&quot;shutter_speed&quot;:&quot;0&quot;,&quot;title&quot;:&quot;&quot;,&quot;orientation&quot;:&quot;0&quot;}\" data-image-title=\"S\u00e9quence-1-1\" data-image-description=\"\" data-image-caption=\"\" data-large-file=\"https:\/\/i0.wp.com\/www.pasteur.mg\/wp-content\/uploads\/2020\/08\/S%C3%A9quence-1-1.png?fit=1003%2C755&amp;ssl=1\" src=\"https:\/\/i0.wp.com\/www.pasteur.mg\/wp-content\/uploads\/2020\/08\/S%C3%A9quence-1-1.png?resize=459%2C345&#038;ssl=1\" alt=\"\" class=\"wp-image-6761\" width=\"459\" height=\"345\" srcset=\"https:\/\/i0.wp.com\/www.pasteur.mg\/wp-content\/uploads\/2020\/08\/S%C3%A9quence-1-1.png?w=1003&amp;ssl=1 1003w, https:\/\/i0.wp.com\/www.pasteur.mg\/wp-content\/uploads\/2020\/08\/S%C3%A9quence-1-1.png?resize=300%2C226&amp;ssl=1 300w, https:\/\/i0.wp.com\/www.pasteur.mg\/wp-content\/uploads\/2020\/08\/S%C3%A9quence-1-1.png?resize=768%2C578&amp;ssl=1 768w, https:\/\/i0.wp.com\/www.pasteur.mg\/wp-content\/uploads\/2020\/08\/S%C3%A9quence-1-1.png?resize=704%2C530&amp;ssl=1 704w\" sizes=\"(max-width: 459px) 100vw, 459px\" \/><figcaption><strong>Figure 1<\/strong> : S\u00e9quences de virus SARS-CoV-2 d\u00e9tect\u00e9 \u00e0 Madagascar, partag\u00e9es sur la plateforme GISAID.org<\/figcaption><\/figure><\/div>\n\n\n\n<div class=\"wp-block-image\"><figure class=\"aligncenter size-large is-resized\"><img data-recalc-dims=\"1\" loading=\"lazy\" decoding=\"async\" data-attachment-id=\"6762\" data-permalink=\"https:\/\/www.pasteur.mg\/en\/linstitut-pasteur-de-madagascar-caracterise-les-deux-premiers-genomes-complets-de-virus-sars-cov-2-detectes-a-madagascar-en-mars-2020\/sequence-2-1\/\" data-orig-file=\"https:\/\/i0.wp.com\/www.pasteur.mg\/wp-content\/uploads\/2020\/08\/S%C3%A9quence-2-1.jpg?fit=1009%2C672&amp;ssl=1\" data-orig-size=\"1009,672\" data-comments-opened=\"0\" data-image-meta=\"{&quot;aperture&quot;:&quot;0&quot;,&quot;credit&quot;:&quot;&quot;,&quot;camera&quot;:&quot;&quot;,&quot;caption&quot;:&quot;&quot;,&quot;created_timestamp&quot;:&quot;0&quot;,&quot;copyright&quot;:&quot;&quot;,&quot;focal_length&quot;:&quot;0&quot;,&quot;iso&quot;:&quot;0&quot;,&quot;shutter_speed&quot;:&quot;0&quot;,&quot;title&quot;:&quot;&quot;,&quot;orientation&quot;:&quot;0&quot;}\" data-image-title=\"S\u00e9quence-2-1\" data-image-description=\"\" data-image-caption=\"\" data-large-file=\"https:\/\/i0.wp.com\/www.pasteur.mg\/wp-content\/uploads\/2020\/08\/S%C3%A9quence-2-1.jpg?fit=1009%2C672&amp;ssl=1\" src=\"https:\/\/i0.wp.com\/www.pasteur.mg\/wp-content\/uploads\/2020\/08\/S%C3%A9quence-2-1.jpg?resize=452%2C301&#038;ssl=1\" alt=\"\" class=\"wp-image-6762\" width=\"452\" height=\"301\" srcset=\"https:\/\/i0.wp.com\/www.pasteur.mg\/wp-content\/uploads\/2020\/08\/S%C3%A9quence-2-1.jpg?w=1009&amp;ssl=1 1009w, https:\/\/i0.wp.com\/www.pasteur.mg\/wp-content\/uploads\/2020\/08\/S%C3%A9quence-2-1.jpg?resize=300%2C200&amp;ssl=1 300w, https:\/\/i0.wp.com\/www.pasteur.mg\/wp-content\/uploads\/2020\/08\/S%C3%A9quence-2-1.jpg?resize=768%2C511&amp;ssl=1 768w, https:\/\/i0.wp.com\/www.pasteur.mg\/wp-content\/uploads\/2020\/08\/S%C3%A9quence-2-1.jpg?resize=704%2C469&amp;ssl=1 704w\" sizes=\"(max-width: 452px) 100vw, 452px\" \/><figcaption><strong>Figure 2<\/strong> : S\u00e9quen\u00e7age de virus SARS-CoV-2<\/figcaption><\/figure><\/div>","protected":false},"excerpt":{"rendered":"<p>Le 19 mars 2020, Madagascar notifiait le premier cas de COVID-19 chez une personne revenant d\u2019Europe. Depuis cette date plus de 12&nbsp;000 cas de COVID-19 ont \u00e9t\u00e9 d\u00e9clar\u00e9s faisant plus de 120 d\u00e9c\u00e8s \u00e0 ce jour. D\u00e8s le 29 janvier 2020, l\u2019IPM \u00e9tait parmi les premiers pays en Afrique en capacit\u00e9 d\u2019effectuer le diagnostic du [&hellip;]<\/p>","protected":false},"author":11,"featured_media":6762,"comment_status":"closed","ping_status":"closed","sticky":false,"template":"","format":"standard","meta":{"_acf_changed":false,"_et_pb_use_builder":"","_et_pb_old_content":"","_et_gb_content_width":"","jetpack_post_was_ever_published":false,"_jetpack_newsletter_access":"","_jetpack_dont_email_post_to_subs":false,"_jetpack_newsletter_tier_id":0,"_jetpack_memberships_contains_paywalled_content":false,"_jetpack_memberships_contains_paid_content":false,"footnotes":""},"categories":[616],"tags":[485],"class_list":["post-6758","post","type-post","status-publish","format-standard","has-post-thumbnail","hentry","category-controle-des-maladies-infectieuses","tag-sequencage"],"acf":[],"yoast_head":"<!-- This site is optimized with the Yoast SEO plugin v27.4 - https:\/\/yoast.com\/product\/yoast-seo-wordpress\/ -->\n<title>L\u2019Institut Pasteur de Madagascar caract\u00e9rise les deux premiers g\u00e9nomes complets de virus SARS-CoV-2 d\u00e9tect\u00e9s \u00e0 Madagascar en Mars 2020 - Institut Pasteur de Madagascar<\/title>\n<meta name=\"description\" content=\"Le 19 mars 2020, Madagascar notifiait le premier cas de COVID-19 chez une personne revenant d\u2019Europe. 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