{"id":14,"date":"2016-04-05T21:59:11","date_gmt":"2016-04-05T21:59:11","guid":{"rendered":"http:\/\/projects.nib.si\/snep-vims\/?page_id=14"},"modified":"2026-07-30T12:20:42","modified_gmt":"2026-07-30T11:20:42","slug":"summary","status":"publish","type":"page","link":"https:\/\/projects.nib.si\/snep-vims\/summary\/","title":{"rendered":"Project overview"},"content":{"rendered":"\n<p><strong>The project pursues the following main aims:<\/strong><\/p>\n\n\n\n<ul class=\"wp-block-list\">\n<li>Prepare a set of infectious viral clones for recently discovered plant viruses, providing a foundation for further studies of their biological properties.<\/li>\n\n\n\n<li>Ascertain the plant associations and host ranges of putative plant viruses discovered through metagenomics in environmental and archaeological samples.<\/li>\n\n\n\n<li>Gain unprecedented insight into the adaptive constraints acting on a virus recently discovered in a wild plant, as it evolves across different plant hosts.<\/li>\n\n\n\n<li>Increase understanding of the trade-offs between different components of viral fitness \u2014 such as virion stability and replication \u2014 for an environmentally stable virus discovered in a wild plant and in the environment.<\/li>\n<\/ul>\n\n\n\n<p>To deliver on these aims, the project is organised into five work packages (WPs), each building on the results of the ones before it:<\/p>\n\n\n\n<p>WP1 \u2014 Preparation of study system(s) and construction of infective viral clones<br>Selects candidate viruses from recent metagenomic discoveries, validates their genome sequences and builds infectious clones, confirming their infectivity in test plants.<\/p>\n\n\n\n<p>WP2 \u2014 Validation of metagenomic discoveries<br>Multiplies viruses discovered in environmental and archaeological samples and characterises their host range and plant associations.<\/p>\n\n\n\n<p>WP3 \u2014 Preparation of mutant libraries for a selected infectious viral clone<br>Builds deep mutational scanning (DMS) libraries for a wild-plant tobamovirus, generating the diversity of viral variants needed for the experiments in WP4.<\/p>\n\n\n\n<p>WP4 \u2014 Experimental evolution to study viral adaptive constraints and trade-offs<br>Uses the DMS libraries to test how the virus adapts across different host plants and how trade-offs between fitness components (e.g., environmental stability, virulence, replication) shape its evolution.<\/p>\n\n\n\n<p>WP5 \u2014 Dissemination and management of project data<br>Ensures FAIR data management and shares the project&#8217;s results.<\/p>\n\n\n\n<p>The diagram below summarises how the five work packages and their tasks connect across the project:<\/p>\n\n\n\n<figure class=\"wp-block-image size-full\"><img data-recalc-dims=\"1\" loading=\"lazy\" decoding=\"async\" width=\"840\" height=\"698\" data-attachment-id=\"668\" data-permalink=\"https:\/\/projects.nib.si\/snep-vims\/snep_vims_scheme-website\/\" data-orig-file=\"https:\/\/i0.wp.com\/projects.nib.si\/snep-vims\/wp-content\/uploads\/sites\/81\/2026\/07\/SNEP_VIMS_scheme-website.png?fit=1993%2C1657&amp;ssl=1\" data-orig-size=\"1993,1657\" data-comments-opened=\"1\" 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=\"SNEP_VIMS_scheme-website\" data-image-description=\"\" data-image-caption=\"\" data-large-file=\"https:\/\/i0.wp.com\/projects.nib.si\/snep-vims\/wp-content\/uploads\/sites\/81\/2026\/07\/SNEP_VIMS_scheme-website.png?fit=840%2C698&amp;ssl=1\" src=\"https:\/\/i0.wp.com\/projects.nib.si\/snep-vims\/wp-content\/uploads\/sites\/81\/2026\/07\/SNEP_VIMS_scheme-website.png?resize=840%2C698\" alt=\"\" class=\"wp-image-668\" \/><\/figure>\n\n\n\n<p>Overview of the SNEP-VIMS project structure. WP = work package; T = task. The acronyms in the lower-left corner of each work package indicate the contributing partners: NIB (National Institute of Biology), CIB-CSIC (Margarita Salas Center for Biological Research, CSIC, Madrid, Spain), I\u00b2SysBio (Institute of Integrative Systems Biology, CSIC\u2013Universitat de Val\u00e8ncia, Spain) and Fit\u00f3 (Semillas Fit\u00f3, Barcelona, Spain).<\/p>\n\n\n\n<p><\/p>\n\n\n\n<p><\/p>\n","protected":false},"excerpt":{"rendered":"<p>The project pursues the following main aims: To deliver on these aims, the project is organised into five work packages (WPs), each building on the results of the ones before it: WP1 \u2014 Preparation of study system(s) and construction of infective viral clonesSelects candidate viruses from recent metagenomic discoveries, validates their genome sequences and builds &hellip; <a href=\"https:\/\/projects.nib.si\/snep-vims\/summary\/\" class=\"more-link\">Continue reading<span class=\"screen-reader-text\"> &#8220;Project overview&#8221;<\/span><\/a><\/p>\n","protected":false},"author":3,"featured_media":0,"parent":0,"menu_order":2,"comment_status":"closed","ping_status":"closed","template":"page-fullwidth.php","meta":{"footnotes":""},"class_list":["post-14","page","type-page","status-publish","hentry"],"jetpack_sharing_enabled":true,"jetpack_shortlink":"https:\/\/wp.me\/Ph8EDR-e","jetpack-related-posts":[{"id":30,"url":"https:\/\/projects.nib.si\/snep-vims\/references\/","url_meta":{"origin":14,"position":0},"title":"Publications and conference contributions","author":"ablejec","date":"05\/04\/2016","format":false,"excerpt":"ARMENTEROS, Elisa, TSENG, Xuan-An, KUTNJAK, Denis, PASIN, Fabio,\u00a02nd International SynBYSS Conference, June 8\u201311, 2026, Universitat Pompeu Fabra, Barcelona. The pLX and SynViP synthetic biology framework for accelerated plant virus prototyping and engineering. IN:\u00a02nd International SynBYSS Conference : June 8\u201311, 2026, Universitat Pompeu Fabra : abstracts, poster & oral presentations, 125\u2026","rel":"","context":"Similar post","block_context":{"text":"Similar post","link":""},"img":{"alt_text":"","src":"","width":0,"height":0},"classes":[]},{"id":40,"url":"https:\/\/projects.nib.si\/snep-vims\/","url_meta":{"origin":14,"position":1},"title":"Short description","author":"ablejec","date":"05\/04\/2016","format":false,"excerpt":"Recent advances in high\u2011throughput sequencing have revealed an enormous diversity of previously unknown plant viruses, especially in wild plants and environmental samples. However, their biological properties, host range, and potential to emerge as agricultural pathogens remain largely unexplored. The SNEP\u2011VIMS project addresses this gap by combining synthetic virology, deep mutational\u2026","rel":"","context":"Similar post","block_context":{"text":"Similar post","link":""},"img":{"alt_text":"","src":"https:\/\/i0.wp.com\/projects.nib.si\/snep-vims\/wp-content\/uploads\/sites\/81\/2026\/05\/ARIS-logo.png?resize=350%2C200&ssl=1","width":350,"height":200,"srcset":"https:\/\/i0.wp.com\/projects.nib.si\/snep-vims\/wp-content\/uploads\/sites\/81\/2026\/05\/ARIS-logo.png?resize=350%2C200&ssl=1 1x, https:\/\/i0.wp.com\/projects.nib.si\/snep-vims\/wp-content\/uploads\/sites\/81\/2026\/05\/ARIS-logo.png?resize=525%2C300&ssl=1 1.5x, https:\/\/i0.wp.com\/projects.nib.si\/snep-vims\/wp-content\/uploads\/sites\/81\/2026\/05\/ARIS-logo.png?resize=700%2C400&ssl=1 2x, https:\/\/i0.wp.com\/projects.nib.si\/snep-vims\/wp-content\/uploads\/sites\/81\/2026\/05\/ARIS-logo.png?resize=1050%2C600&ssl=1 3x, https:\/\/i0.wp.com\/projects.nib.si\/snep-vims\/wp-content\/uploads\/sites\/81\/2026\/05\/ARIS-logo.png?resize=1400%2C800&ssl=1 4x"},"classes":[]}],"_links":{"self":[{"href":"https:\/\/projects.nib.si\/snep-vims\/wp-json\/wp\/v2\/pages\/14","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/projects.nib.si\/snep-vims\/wp-json\/wp\/v2\/pages"}],"about":[{"href":"https:\/\/projects.nib.si\/snep-vims\/wp-json\/wp\/v2\/types\/page"}],"author":[{"embeddable":true,"href":"https:\/\/projects.nib.si\/snep-vims\/wp-json\/wp\/v2\/users\/3"}],"replies":[{"embeddable":true,"href":"https:\/\/projects.nib.si\/snep-vims\/wp-json\/wp\/v2\/comments?post=14"}],"version-history":[{"count":47,"href":"https:\/\/projects.nib.si\/snep-vims\/wp-json\/wp\/v2\/pages\/14\/revisions"}],"predecessor-version":[{"id":678,"href":"https:\/\/projects.nib.si\/snep-vims\/wp-json\/wp\/v2\/pages\/14\/revisions\/678"}],"wp:attachment":[{"href":"https:\/\/projects.nib.si\/snep-vims\/wp-json\/wp\/v2\/media?parent=14"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}