{"id":28,"date":"2015-10-21T11:11:17","date_gmt":"2015-10-21T10:11:17","guid":{"rendered":"http:\/\/blog.u-bourgogne.fr\/list-maps\/?page_id=28"},"modified":"2016-06-13T10:29:23","modified_gmt":"2016-06-13T09:29:23","slug":"research","status":"publish","type":"page","link":"https:\/\/blog.ube.fr\/list-maps\/project\/research\/","title":{"rendered":"Research"},"content":{"rendered":"<p class=\"titre2\" style=\"text-align: center;font-family: streetvertising;color: #000000;font-size: 18px\"><strong style=\"color: #483d8b\">\u00a0OVERVIEW OF LIST_MAPS RESEARCH PROGRAMME<br \/>\n<\/strong><\/p>\n<p>&nbsp;<\/p>\n<p style=\"font-family: calibri;color: #000000;padding-left: 60px;padding-right: 60px;font-size: 16px;text-align: justify\">The mechanisms by which <em style=\"color: #000000\">Listeria monocytogenes<\/em> adapts to a diverse range of environments remain largely unexplored but there is no doubt that the success of <em style=\"color: #000000\">Listeria monocytogenes<\/em> as a human foodborne pathogen relies on its overall ability to develop unique and sophisticated adaptation strategies which raises food safety issues.<\/p>\n<p><a href=\"http:\/\/blog.ube.fr\/list-maps\/wp-content\/uploads\/sites\/34\/2015\/10\/contamination-cycle.png\" rel=\"attachment wp-att-1092\"><img loading=\"lazy\" decoding=\"async\" class=\"aligncenter wp-image-1092 size-full\" src=\"http:\/\/blog.ube.fr\/list-maps\/wp-content\/uploads\/sites\/34\/2015\/10\/contamination-cycle.png\" alt=\"L.monocytogenes\" width=\"354\" height=\"252\" srcset=\"https:\/\/blog.ube.fr\/list-maps\/wp-content\/uploads\/sites\/34\/2015\/10\/contamination-cycle.png 354w, https:\/\/blog.ube.fr\/list-maps\/wp-content\/uploads\/sites\/34\/2015\/10\/contamination-cycle-300x214.png 300w, https:\/\/blog.ube.fr\/list-maps\/wp-content\/uploads\/sites\/34\/2015\/10\/contamination-cycle-211x150.png 211w\" sizes=\"auto, (max-width: 354px) 100vw, 354px\" \/><\/a><\/p>\n<p style=\"font-family: calibri;color: #000000;padding-left: 60px;padding-right: 60px;font-size: 16px;text-align: justify\">The overall core of the List_MAPS research programme is to develop a systems biology approach to undersand how the conditions of the environment affect the capacity of <em style=\"color: #000000\">Listeria monocytogenes<\/em> to generate infection.<\/p>\n<p class=\"titre2\" style=\"font-family: calibri;font-size: 16px;text-align: justify;color: #000000;padding-left: 60px;padding-right: 60px\"><strong style=\"color: #483d8b\">Four complex experimental sets-ups are used:<\/strong><\/p>\n<ol class=\"titre2\" style=\"font-family: calibri;text-align: justify;color: #000000;padding-left: 90px;padding-right: 90px;font-size: 16px;line-height: 30px\">\n<li style=\"color: #000000;line-height: 30px;font-size: 16px\">soil (to follow listerial colonisation during growth of the plants)<\/li>\n<li style=\"color: #000000;line-height: 30px;font-size: 16px\">food-processing biofilms;<\/li>\n<li style=\"color: #000000;line-height: 30px;font-size: 16px\">food and food processing stress response (assess the effect of food composition on the response of <em style=\"color: #000000\">Listeria monocytogenes<\/em>)<\/li>\n<li style=\"color: #000000;line-height: 30px;font-size: 16px\">and humanised murine model<\/li>\n<\/ol>\n<p class=\"titre2\" style=\"font-family: calibri;font-size: 16px;text-align: justify;color: #483d8b;padding-left: 60px;padding-right: 60px\"><strong style=\"color: #483d8b\">Different points are addressed:<\/strong><\/p>\n<ul class=\"titre2\" style=\"font-family: calibri;text-align: justify;color: #000000;padding-left: 90px;padding-right: 90px;font-size: 16px;line-height: 30px\">\n<li style=\"color: #000000;line-height: 30px;font-size: 16px\">Deciphering transcriptomes and proteomes in complex environments;<\/li>\n<li style=\"color: #000000;line-height: 30px;font-size: 16px\">exploring adaptative mechanisms by reverse genetics;<\/li>\n<li style=\"color: #000000;line-height: 30px;font-size: 16px\">investigating interconnections between stress response, communication and RNome;<\/li>\n<li style=\"color: #000000;line-height: 30px;font-size: 16px\">Understanding the response to resident microorgarnisms;<\/li>\n<li style=\"color: #000000;line-height: 30px;font-size: 16px\">understanding how food matrix composition and environmental cues may affect the capacity of the pathogen to generate infection;<\/li>\n<li style=\"color: #000000;line-height: 30px;font-size: 16px\">Developing a transcriptome-based rapid tool, surrogate to animal models, to investigate the capacity of large collections of isolates to generate infection, in relation to environmental conditions: linking diversity and virulence;<\/li>\n<li style=\"color: #000000;line-height: 30px;font-size: 16px\">A commercial device will be adapted to develop a high throughput biofilm assay;<\/li>\n<li style=\"color: #000000;line-height: 30px;font-size: 16px\">Assessing light as disinfection treatment of foodstuff<\/li>\n<\/ul>\n<p>&nbsp;<\/p>\n<p class=\"titre2\" style=\"text-align: center;font-family: streetvertising;color: #483d8b;font-size: 18px\"><strong style=\"color: #483d8b\">IMPLEMENTATION<br \/>\n<\/strong><\/p>\n<p>&nbsp;<\/p>\n<p style=\"font-family: calibri;color: #000000;padding-left: 60px;padding-right: 60px;font-size: 16px;text-align: justify\">List_MAPS research programme is implemented in four Work packages that combine global analyses (transcriptome and proteome), classical molecular biology and physiological studies in controlled environments:<\/p>\n<p class=\"titre2\" style=\"font-family: calibri;font-size: 16px;text-align: justify;color: #483d8b;padding-left: 90px;padding-right: 90px\"><strong style=\"color: #483d8b\">WP1: Data collection and integration in the specific environments<\/strong><\/p>\n<p style=\"font-family: calibri;color: #000000;padding-left: 90px;padding-right: 90px;font-size: 16px;text-align: justify\"><strong><em style=\"color: #000000\">Objectives:<\/em> <\/strong>Production of RNA and protein extraction in the various environments (task 1) database construction including TSS identification, RNA-seq and MACE analyses (task 2) and integration of transcriptomic and proteomic data (task 3).<\/p>\n<p style=\"font-family: calibri;color: #000000;padding-left: 90px;padding-right: 90px;font-size: 16px;text-align: justify\"><strong><em style=\"color: #000000\">Lead participant:<\/em><\/strong> GenXPro<\/p>\n<p class=\"titre2\" style=\"font-family: calibri;font-size: 16px;text-align: justify;color: #483d8b;padding-left: 90px;padding-right: 90px\"><strong style=\"color: #483d8b\">WP2: Linking environmental cues and expression of virulence<\/strong><\/p>\n<p style=\"font-family: calibri;color: #000000;padding-left: 90px;padding-right: 90px;font-size: 16px;text-align: justify\"><strong><em style=\"color: #000000\">Objectives:<\/em><\/strong> Virulence assays in relation to food constituents and chitin (task 1), exploitation of transcriptome data to analyse virulon expression in relation to environmental conditions (task 2), virulence assays of delection mutants (task 3).<\/p>\n<p style=\"font-family: calibri;color: #000000;padding-left: 90px;padding-right: 90px;font-size: 16px;text-align: justify\"><strong><em style=\"color: #000000\">Lead participant:<\/em> <\/strong>University College Cork<\/p>\n<p class=\"titre2\" style=\"font-family: calibri;font-size: 16px;text-align: justify;color: #483d8b;padding-left: 90px;padding-right: 90px\"><strong style=\"color: #483d8b\">WP3: Tools for evaluation of intra-specific phenotypic diversity<\/strong><\/p>\n<p style=\"font-family: calibri;color: #000000;padding-left: 90px;padding-right: 90px;font-size: 16px;text-align: justify\"><strong><em style=\"color: #000000\">Objectives:<\/em> <\/strong>Development and validation of an in silico assay surrogate to animal testing (task 1), development of a high throughput biofilm assay (task 2), analysis of the strain collection (task 3).<\/p>\n<p style=\"font-family: calibri;color: #000000;padding-left: 90px;padding-right: 90px;font-size: 16px;text-align: justify\"><strong><em style=\"color: #000000\">Lead participant:<\/em><\/strong> BioFilm Control<\/p>\n<p class=\"titre2\" style=\"font-family: calibri;font-size: 16px;text-align: justify;color: #483d8b;padding-left: 90px;padding-right: 90px\"><strong style=\"color: #483d8b\">WP4: Systems biology approach<\/strong><\/p>\n<p style=\"font-family: calibri;color: #000000;padding-left: 90px;padding-right: 90px;font-size: 16px;text-align: justify\"><strong><em style=\"color: #000000\">Objectives:<\/em><\/strong> Model construction (task 1), identification of target genes and reverse genetics approach (task 2), back and forth optimisation and dialog between the model and the bench (task 3).<\/p>\n<p style=\"font-family: calibri;color: #000000;padding-left: 90px;padding-right: 90px;font-size: 16px;text-align: justify\"><strong><em style=\"color: #000000\">Lead participant:<\/em> <\/strong>INRA<\/p>\n<p>&nbsp;<\/p>\n<p class=\"titre2\" style=\"text-align: center;font-family: streetvertising;color: #483d8b;font-size: 18px\"><strong style=\"color: #483d8b\">INDIVIDUAL RESEARCH PROJECTS<br \/>\n<\/strong><\/p>\n<p>&nbsp;<\/p>\n<p style=\"font-family: calibri;color: #000000;padding-left: 60px;padding-right: 60px;font-size: 16px;text-align: justify\">The individual projects of the ESRs contribute to the overall research programme. Each sub-project contribute to the generation of data required for the regulatory network reconstruction and each individual project is designed to focus on one specific habitat and\/or regulatory component. Through cooperation, individual contributions is magnified and as a consequence each individual project deepens its findings.<\/p>\n<p>&nbsp;<\/p>\n<table style=\"height: 411px;border-color: #ffffff;background-color: #ffffff\" width=\"852\" cellspacing=\"0\" cellpadding=\"0\" align=\"center\">\n<tbody>\n<tr>\n<td style=\"font-family: calibri;color: #ffffff;background-color: #483d8b\"><strong style=\"color: #ffffff\">Organisation<\/strong><\/td>\n<td style=\"font-family: calibri;color: #ffffff;background-color: #483d8b\"><strong style=\"color: #ffffff\">Title of the project<\/strong><\/td>\n<\/tr>\n<tr>\n<td style=\"font-family: calibri;color: #000000;background-color: #ffffff\">University of Burgundy (ESR 1)<\/td>\n<td style=\"font-family: calibri;color: #000000;background-color: #ffffff\"><a style=\"text-decoration: none;color: #483d8b\" href=\"http:\/\/blog.ube.fr\/list-maps\/early-stage-researchers\/angela-rocio-ortiz-camargo\/\"><strong style=\"color: #483d8b\">Investigation of the adaptative strategies of <em style=\"color: #483d8b\">L. monocytogenes<\/em> in soil\/plants mesocosms<\/strong><\/a><\/td>\n<\/tr>\n<tr>\n<td style=\"font-family: calibri;color: #000000;background-color: #ffffff\">University College Cork (ESR 2)<\/td>\n<td style=\"font-family: calibri;background-color: #ffffff\"><a style=\"text-decoration: none;color: #483d8b\" href=\"http:\/\/blog.ube.fr\/list-maps\/early-stage-researchers\/vanessa-las-heras\/\"><strong style=\"color: #483d8b\">Stress pre-adaptation and virulence potential of <em style=\"color: #483d8b\">L. monocytogenes<\/em> in the food matrix<\/strong><\/a><\/td>\n<\/tr>\n<tr>\n<td style=\"font-family: calibri;color: #000000;background-color: #ffffff\">University of Copenhagen (ESR 3)<\/td>\n<td style=\"font-family: calibri;background-color: #ffffff\"><a style=\"text-decoration: none;color: #483d8b\" href=\"http:\/\/blog.ube.fr\/list-maps\/early-stage-researchers\/miguel-villoria-recio\/\"><strong style=\"color: #483d8b\">Regulation of the virulon of <em style=\"color: #483d8b\">L. monocytogenes<\/em> by carbohydrates<\/strong><\/a><\/td>\n<\/tr>\n<tr>\n<td style=\"font-family: calibri;color: #000000;background-color: #ffffff\">NUI-Galway (ESR 4)<\/td>\n<td style=\"font-family: calibri;color: #000000;background-color: #ffffff\"><a style=\"text-decoration: none;color: #483d8b\" href=\"http:\/\/blog.ube.fr\/list-maps\/early-stage-researchers\/amber-dorey\/\"><strong style=\"color: #483d8b\">Role of \u03c3B regulon of <em style=\"color: #483d8b\">L. monotogenes<\/em> in environmental stress resistance<\/strong><\/a><\/td>\n<\/tr>\n<tr>\n<td style=\"font-family: calibri;color: #000000;background-color: #ffffff\">INRA-UR454 (ESR 5)<\/td>\n<td style=\"font-family: calibri;color: #000000;background-color: #ffffff\"><a style=\"text-decoration: none;color: #483d8b\" href=\"http:\/\/blog.ube.fr\/list-maps\/early-stage-researchers\/tiago-santos\/\"><strong style=\"color: #483d8b\">Role of protein secretion in adaptation of <em style=\"color: #483d8b\">L. monocytogenes<\/em><\/strong><\/a><\/td>\n<\/tr>\n<tr>\n<td style=\"font-family: calibri;color: #000000;background-color: #ffffff\">Wageningen University (ESR 6)<\/td>\n<td style=\"font-family: calibri;color: #000000;background-color: #ffffff\"><a style=\"text-decoration: none;color: #483d8b\" href=\"http:\/\/blog.ube.fr\/list-maps\/early-stage-researchers\/natalia-crespo-tapia\/\"><strong style=\"color: #483d8b\">Biodiversity and transmission of<em style=\"color: #483d8b\"> L. monocytogenes<\/em> in the food chain<\/strong><\/a><\/td>\n<\/tr>\n<tr>\n<td style=\"font-family: calibri;color: #000000;background-color: #ffffff\">University of Southern Denmark (ESR 7)<\/td>\n<td style=\"font-family: calibri;color: #000000;background-color: #ffffff\"><a style=\"text-decoration: none;color: #483d8b\" href=\"http:\/\/blog.ube.fr\/list-maps\/early-stage-researchers\/patricia-dos-santos\/\"><strong style=\"color: #483d8b\">Role of non-coding sRNAs in the transmission of <em style=\"color: #483d8b\">L. monocytogenes<\/em> between environments<\/strong><\/a><\/td>\n<\/tr>\n<tr>\n<td style=\"font-family: calibri;color: #000000;background-color: #ffffff\">University of Burgundy and NUI-Galway (ESR 8)<\/td>\n<td style=\"font-family: calibri;color: #000000;background-color: #ffffff\"><a style=\"text-decoration: none;color: #483d8b\" href=\"http:\/\/blog.ube.fr\/list-maps\/early-stage-researchers\/catarina-andreia-moreira-marinho\/\"><strong style=\"color: #483d8b\">Investigation of interconnections between AgrA and \u03c3B regulons<\/strong><\/a><\/td>\n<\/tr>\n<tr>\n<td style=\"font-family: calibri;color: #000000;background-color: #ffffff\">INRA-MaIAGE (ESR 9)<\/td>\n<td style=\"font-family: calibri;color: #000000;background-color: #ffffff\"><a style=\"text-decoration: none;color: #483d8b\" href=\"http:\/\/blog.ube.fr\/list-maps\/early-stage-researchers\/islam-ibrahim-sultan\/\"><strong style=\"color: #483d8b\">Transcription regulatory network construction<\/strong><\/a><\/td>\n<\/tr>\n<tr>\n<td style=\"font-family: calibri;color: #000000;background-color: #ffffff\">GenXPro (ESR 10)<\/td>\n<td style=\"font-family: calibri;color: #000000;background-color: #ffffff\"><a style=\"text-decoration: none;color: #483d8b\" href=\"http:\/\/blog.ube.fr\/list-maps\/early-stage-researchers\/ignasi-ferrer-lluis\/\"><strong style=\"color: #483d8b\">Development of bioinformatics tools for the analysis of MACE data<\/strong><\/a><\/td>\n<\/tr>\n<tr>\n<td style=\"font-family: calibri;color: #000000;background-color: #ffffff\">BioFilm Control and GenXPro (ESR 11)<\/td>\n<td style=\"font-family: calibri;color: #000000;background-color: #ffffff\"><a style=\"text-decoration: none;color: #483d8b\" href=\"http:\/\/blog.ube.fr\/list-maps\/early-stage-researchers\/bohyung-lee\/\"><strong style=\"color: #483d8b\">Development of innovative tools for rapid phenotypic characterisation of intraspecific diversity<\/strong><\/a><\/td>\n<\/tr>\n<\/tbody>\n<\/table>\n<p>&nbsp;<\/p>\n<p>&nbsp;<\/p>\n<p>&nbsp;<\/p>\n<p class=\"titre2\" style=\"font-family: calibri;color: #000000;font-size: 12px;text-align: center\"><a href=\"http:\/\/blog.ube.fr\/list-maps\/wp-content\/uploads\/sites\/34\/2015\/10\/eulogo.jpg\"><img loading=\"lazy\" decoding=\"async\" class=\"alignnone wp-image-557 \" src=\"http:\/\/blog.ube.fr\/list-maps\/wp-content\/uploads\/sites\/34\/2015\/10\/eulogo.jpg\" alt=\"eulogo\" width=\"79\" height=\"46\" srcset=\"https:\/\/blog.ube.fr\/list-maps\/wp-content\/uploads\/sites\/34\/2015\/10\/eulogo.jpg 600w, https:\/\/blog.ube.fr\/list-maps\/wp-content\/uploads\/sites\/34\/2015\/10\/eulogo-300x175.jpg 300w\" sizes=\"auto, (max-width: 79px) 100vw, 79px\" \/><\/a>This project has received funding from the European Union\u2019s Horizon 2020 research and innovation programme under the Marie Sklodowska Curie grant agreement n\u00b0 641984<\/p>\n","protected":false},"excerpt":{"rendered":"<p>\u00a0OVERVIEW OF LIST_MAPS RESEARCH PROGRAMME &nbsp; The mechanisms by which Listeria monocytogenes adapts to a diverse range of environments remain largely unexplored but there is no doubt that the success of Listeria monocytogenes as a human foodborne pathogen relies on its overall ability to develop unique and sophisticated adaptation strategies which raises food safety issues.&hellip;<\/p>\n<p class=\"more-link-p\"><a class=\"btn btn-primary\" href=\"https:\/\/blog.ube.fr\/list-maps\/project\/research\/\">Voir plus &rarr;<\/a><\/p>\n","protected":false},"author":99,"featured_media":0,"parent":2,"menu_order":1,"comment_status":"closed","ping_status":"closed","template":"","meta":{"footnotes":""},"class_list":["post-28","page","type-page","status-publish","hentry"],"_links":{"self":[{"href":"https:\/\/blog.ube.fr\/list-maps\/wp-json\/wp\/v2\/pages\/28","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/blog.ube.fr\/list-maps\/wp-json\/wp\/v2\/pages"}],"about":[{"href":"https:\/\/blog.ube.fr\/list-maps\/wp-json\/wp\/v2\/types\/page"}],"author":[{"embeddable":true,"href":"https:\/\/blog.ube.fr\/list-maps\/wp-json\/wp\/v2\/users\/99"}],"replies":[{"embeddable":true,"href":"https:\/\/blog.ube.fr\/list-maps\/wp-json\/wp\/v2\/comments?post=28"}],"version-history":[{"count":51,"href":"https:\/\/blog.ube.fr\/list-maps\/wp-json\/wp\/v2\/pages\/28\/revisions"}],"predecessor-version":[{"id":1421,"href":"https:\/\/blog.ube.fr\/list-maps\/wp-json\/wp\/v2\/pages\/28\/revisions\/1421"}],"up":[{"embeddable":true,"href":"https:\/\/blog.ube.fr\/list-maps\/wp-json\/wp\/v2\/pages\/2"}],"wp:attachment":[{"href":"https:\/\/blog.ube.fr\/list-maps\/wp-json\/wp\/v2\/media?parent=28"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}