{"id":31643,"date":"2024-04-02T16:07:00","date_gmt":"2024-04-02T14:07:00","guid":{"rendered":"https:\/\/fhi.nl\/nieuws\/infectiediagnostiek-onder-de-loep-met-metagenomics\/"},"modified":"2025-02-26T15:22:15","modified_gmt":"2025-02-26T14:22:15","slug":"infectiediagnostiek-onder-de-loep-met-metagenomics","status":"publish","type":"news","link":"https:\/\/fhi.nl\/en\/news\/infectiediagnostiek-onder-de-loep-met-metagenomics\/","title":{"rendered":"Infection diagnosis under the microscope with metagenomics"},"content":{"rendered":"<header id=\"header\" class=\"header header--high header--branch\">\n\n\t\t\t\t\t\t\t\t\t\t<div class=\"header__background header__background--high\">\n\t\t\t\t\t<img decoding=\"async\" class=\"header__background-image\" src=\"https:\/\/fhi.nl\/app\/uploads\/2024\/04\/Afbeelding-infectiediagnostiek-1920x1080.png\" alt=\"\">\n\t\t\t\t<\/div>\n\t\t\t\t\t\t\n\t\n\t<div class=\"container\">\n\t\t<div class=\"header__content\">\n\t\t\t<div class=\"header__first\">\n\n\t\t\t\t\n\t\t\t\t\n\t\t\t\t\t\t\t\t\t<h6 class=\"header__subtitle\">By: Eline te Velde<\/h6>\n\t\t\t\t\n\t\t\t\t<h1 class=\"header__title\" >\n\t\t\t\t\tInfection diagnostics under the microscope with metagenomics\t\t\t\t<\/h1>\n\n\t\t\t\t<div class=\"header__dots-line\">\n\t\t\t\t\t<svg width=\"431\" height=\"9\" viewbox=\"0 0 431 9\" fill=\"none\" xmlns=\"http:\/\/www.w3.org\/2000\/svg\"><path d=\"M430.799 4.192a1.136 1.136 0 1 1-2.272-.001 1.136 1.136 0 0 1 2.272 0Zm-27.272 0a1.135 1.135 0 1 1-2.27 0 1.135 1.135 0 0 1 2.27 0Zm-27.27 0a1.136 1.136 0 1 1-2.272-.001 1.136 1.136 0 0 1 2.272 0Zm-27.272 0a1.39 1.39 0 1 1-2.78 0 1.39 1.39 0 0 1 2.78 0Zm-27.78 0a1.645 1.645 0 1 1-3.29 0 1.645 1.645 0 0 1 3.29 0Zm-28.29 0a1.9 1.9 0 1 1-3.799 0 1.9 1.9 0 0 1 3.799 0Zm-28.799 0a2.154 2.154 0 1 1-4.308 0 2.154 2.154 0 0 1 4.308 0Zm-29.308 0a2.41 2.41 0 1 1-4.819 0 2.41 2.41 0 0 1 4.819 0Zm-29.819 0a2.663 2.663 0 1 1-5.326.001 2.663 2.663 0 0 1 5.326-.001Zm-30.327 0a2.919 2.919 0 1 1-5.837 0 2.919 2.919 0 0 1 5.837 0Zm-30.837 0a3.173 3.173 0 1 1-6.345.001 3.173 3.173 0 0 1 6.345 0Zm-31.346 0a3.428 3.428 0 1 1-6.856 0 3.428 3.428 0 0 1 6.856 0Zm-31.856 0a3.683 3.683 0 1 1-7.365 0 3.683 3.683 0 0 1 7.365 0Zm-32.365 0a3.937 3.937 0 1 1-7.875 0 3.937 3.937 0 0 1 7.875 0Zm-32.874 0a4.192 4.192 0 1 1-8.384 0 4.192 4.192 0 0 1 8.384 0Z\" fill=\"#FFF960\"\/><\/svg>\t\t\t\t<\/div>\n\n\t\t\t\t\n\t\t\t\t\n\t\t\t<\/div>\n\n\t\t\t\t\t\t\t<div class=\"header__second\">\n\n\t\t\t\t\t\n\t\t\t\t\t\n\t\t\t\t\t\n\t\t\t\t\t\t\t\t\t\t\t<div class=\"header__branch-logos\">\n\t\t\t\t\t\t\t\t\t\t\t\t\t\t\t<img decoding=\"async\" src=\"https:\/\/fhi.nl\/app\/uploads\/2024\/02\/Laboratorium-technologie.svg\" class=\"header__branch-logo\" alt=\"\" \/>\t\t\t\t\t\t\t\t\t\t\t\t\t<\/div>\n\t\t\t\t\t\n\t\t\t\t\t\n\t\t\t\t\t\n\t\t\t\t<\/div>\n\t\t\t\n\t\t<\/div>\n\t<\/div>\n<\/header>\n\n\t<div class=\"header__meta\">\n\t<div class=\"container\">\n\t\t<div class=\"header__meta__category\">\n\n\t\t\t\t\t\t\t<div class=\"header__meta__detail\">\n\t\t\t\t\t<div>Branch<\/div>\n\t\t\t\t\t\t\t\t\t\t\t\t\t\t\t\t\t\t\t\t\t\t\t\t\t<a href=\"https:\/\/fhi.nl\/en\/kennishub\/?_branches_kennishub=laboratorium-technologie\" class=\"header__meta__detail--branch\">\n\t\t\t\t\t\t\t\tLaboratory Technology\t\t\t\t\t\t\t<\/a>\n\t\t\t\t\t\t\t\t\t\t\t\t\t\t\t<\/div>\n\t\t\t\n\t\t\t\n\t\t<\/div>\n\t<\/div>\n<\/div>\n\n\n\n<div class=\"text bg--offwhite\">\n\t<div class=\"container\">\n\t\t\t\t\t\t<div class=\"text__content text__content--1-col\">\n\t\t\t<p><strong>Genomics technologies have gained momentum in recent years. Research into the DNA in organisms provides a wealth of information and has a major impact on diagnostics. Professor John Rossen is special professor of personalized molecular microbiology at Isala Zwolle and the UMCG. Using an example, he explains how these technologies can be used in infection diagnostics.<\/strong><\/p>\n<p>\u201cA boy in Salt Lake City was hospitalized with symptoms of pneumonia. He was given antibiotics and the sample collected was sent to the lab for a PCR test.\u201d The test turned out to be positive for a season of coronavirus, but that did not explain the serious symptoms. \u201cThe boy recovered and was sent home. Three days later he returned with worsening symptoms. Pleural fluid was then collected and that sample ended up in our lab for analysis <em>metagenomic analysis<\/em>.\u201d<\/p>\n<p>In the IDbyDNA lab, Rossen was able to map all microorganisms in the sample using clinical metagenomics. There they found <em>Prevotella pleuritidis, <\/em>a fairly rare bacterium. \u201cWe had not thought about that in advance,\u201d says Rossen. \u201cIt has not been known for very long that this bacterium can cause serious respiratory symptoms. The antibiotics the boy had already received were not suitable for this anaerobic bacteria and after the correct antibiotics were prescribed he recovered.\u201d<\/p>\n<h4>Non judgmental<\/h4>\n<p>When diagnosing an infectious disease, the clinical picture is used to screen for microorganisms that match that picture. It becomes more complicated when you are dealing with an unknown disease or a complicated clinical picture. In that case you don&#039;t know what you are looking for. Metagenomics allows us to analyze the entire genetic material in a sample. Rossen: \u201cWith metagenomics you look at a clinical sample in an unbiased way. By analyzing a sample in this way, in some cases you find something that you had not thought of beforehand and probably had not looked for.\u201d<\/p>\n<blockquote>\n<h6 style=\"text-align: center;\"><em>Rossen notes that culture is in principle also an unbiased way of looking at a sample, but that this has a number of major disadvantages compared to metagenomics. It takes a long time to culture a bacteria or virus and a diagnosis can take days or sometimes even weeks. Some bacterial species are also not easy to grow, such as the anaerobic bacteria in the example above.<\/em><\/h6>\n<\/blockquote>\n<h4>Metatranscriptomics<\/h4>\n<p>Metatranscriptomics goes one step further and allows researchers to not only determine the presence of a bacterium or virus, but also say something about its behavior. \u201cWe use metatranscriptomics to look at what exactly happens. For example, you may determine that a certain bacteria is present, but that does not mean that it is the cause of the infection. We also look at the host response.\u201d<\/p>\n<p>Sequencing the entire genetic material produces a huge amount of data. You therefore need smart software to solve this puzzle. Rossen: \u201cWe used an AI model to screen information about certain bacteria or viruses in a curated database. The model compares information from the database with the patient&#039;s results and symptoms.\u201d<\/p>\n<h4>Standardization<\/h4>\n<p>The possibilities of genomics technologies are not limited to diagnostics. Rossen, for example, sees opportunities in the preventive screening of wastewater in hospitals to make a prediction about infectious disease outbreaks. It is also used to identify new pathogens, such as SARS-CoV-2. But according to Rossen, further standardization is needed to make the method widely applicable. Location is an important consideration: \u201cThe question is whether you use this for all patients, or only for seriously ill patients, or only when all other tests are negative. There is no clear answer to this yet. Above all, we need more data to see what the value of this technology is. I hope that more research will be done into this, and that it will also be taken into account what benefits the patient.\u201d<\/p>\n\t\t<\/div>\n\t<\/div>\n<\/div>\n\n\r\n\t<div class=\"articles bg--dark-blue items_selected\">\r\n\t\t<div class=\"container\">\r\n\t\t\t<div class=\"articles__header\">\r\n\t\t\t\t\t\t\t\t\t<div class='heading-wrapper'><svg width=\"13\" height=\"13\" viewbox=\"0 0 13 13\" fill=\"none\" xmlns=\"http:\/\/www.w3.org\/2000\/svg\"><circle cx=\"6.394\" cy=\"6.5\" r=\"6.394\" fill=\"#000\"\/><\/svg><h2>Read more<\/h2><\/div>\t\t\t\t\t\t\t\t\t\t\t\t\t<a href=\"https:\/\/fhi.nl\/en\/kennishub\/\" class=\"button button--outline\">Knowledge hub<\/a>\r\n\t\t\t\t\t\t\t<\/div>\r\n\t\t\t\t\t\t<div class=\"post-grid post-grid--no-padding\">\r\n\t\t\t\t\n<a class=\"single-item single-item__articles\" href=\"https:\/\/fhi.nl\/en\/news\/antimicrobiele-resistentie-amr-is-een-verborgen-pandemie-jaarlijks-overlijden-miljoenen-mensen-aan-de-gevolgen-van-amr\/\" data-id=\"31440\">\n\t<div class=\"single-item__articles-icon\">\n\t\t<svg width=\"82\" height=\"98\" viewbox=\"0 0 82 98\" fill=\"none\" xmlns=\"http:\/\/www.w3.org\/2000\/svg\">\n<path fill-rule=\"evenodd\" clip-rule=\"evenodd\" d=\"M26.5586 7.96501C26.5586 6.61879 26.8909 5.49682 27.3233 4.77796C27.7792 4.02009 28.1318 4 28.1466 4H55.0564C55.0712 4 55.4238 4.02009 55.8796 4.77796C56.312 5.49682 56.6444 6.61879 56.6444 7.96501C56.6444 9.31122 56.312 10.4332 55.8796 11.1521C55.4238 11.9099 55.0712 11.93 55.0564 11.93H54.2487C53.8841 11.5449 53.3681 11.3047 52.796 11.3047H28.981C28.5233 11.3047 28.1015 11.4584 27.7644 11.7171C27.6381 11.602 27.4874 11.4248 27.3233 11.1521C26.8909 10.4332 26.5586 9.31122 26.5586 7.96501ZM26.981 15.7683C25.6024 15.3755 24.5619 14.3215 23.8956 13.2138C23.0294 11.7738 22.5586 9.91326 22.5586 7.96501C22.5586 6.01675 23.0294 4.15622 23.8956 2.71619C24.7383 1.31517 26.1797 0 28.1466 0H55.0564C57.0232 0 58.4646 1.31517 59.3073 2.71619C60.1735 4.15622 60.6444 6.01675 60.6444 7.96501C60.6444 9.91326 60.1735 11.7738 59.3073 13.2138C58.4646 14.6148 57.0232 15.93 55.0564 15.93H54.796V40.3243L80.5327 84.0062L80.5391 84.0172L80.5503 84.0368C84.0711 90.2609 79.5954 97.9997 72.4362 97.9997H9.34052C2.18152 97.9997 -2.29415 90.2608 1.22665 84.0368C1.23243 84.0265 1.23831 84.0163 1.24428 84.0062L26.981 40.3243V15.7683ZM30.981 15.93V35.792H39.161C40.2655 35.792 41.161 36.6874 41.161 37.792C41.161 38.8966 40.2655 39.792 39.161 39.792H30.981V40.8697C30.981 41.2268 30.8854 41.5773 30.7041 41.8849L21.3184 57.8149H60.4585L51.0728 41.8849C50.8916 41.5773 50.796 41.2268 50.796 40.8697V15.93H30.981ZM62.8152 61.8148C62.8065 61.8149 62.7978 61.8149 62.7891 61.8149H19.4727C19.3082 61.8149 19.1484 61.7951 18.9954 61.7577L4.70016 86.0205C2.69212 89.5942 5.27194 93.9997 9.34052 93.9997H72.4362C76.5051 93.9997 79.0848 89.5941 77.0768 86.0205L62.8152 61.8148Z\" fill=\"#FFDA56\"\/>\n<\/svg>\n\t<\/div>\n\t<div class=\"single-item__articles-title\"><div class='heading-wrapper'><h3>Antimicrobial resistance (AMR) is a hidden pandemic: \u201cMillions of people die every year from the consequences of AMR\u201d<\/h3><\/div><\/div>\n\t<div class=\"single-item__articles-terms\">\n\t\t\n\t\t\n\t\t\t\t\t\t<span class=\"button button--outline single-item__articles-term--branche single-item__articles-term\">Laboratory Technology<\/span>\n\t\t\t\t\t\t\t\t<span class=\"button button--outline single-item__articles-term--branche single-item__articles-term\">Background<\/span>\n\t\t\t\t\t\t\t\t<span class=\"button button--outline single-item__articles-term--branche single-item__articles-term\">World of Industry, Technology &amp; Science<\/span>\n\t\t\t\t\t\t\t\t<span class=\"button button--outline single-item__articles-term--branche single-item__articles-term\">Life Science\/Biotechnology<\/span>\n\t\t\t\t\t<\/div>\n\t<div class=\"single-item__articles-author-date-wrapper\">\n\t\t\t\t\t<div class=\"single-item__articles-author\">\n\t\t\t\tFHI, Federation of Technology Industries\t\t\t<\/div>\n\t\t\t\t\t\t\t<div class=\"single-item__articles-date\">\n\t\t\t\tMay 8, 2024\t\t\t<\/div>\n\t\t\t<\/div>\n<\/a>\n\n<a class=\"single-item single-item__articles\" href=\"https:\/\/fhi.nl\/en\/news\/bioluminescentie-maakt-snelle-dna-detectie-in-infectiediagnostiek-mogelijk\/\" data-id=\"31716\">\n\t<div class=\"single-item__articles-icon\">\n\t\t<svg width=\"35\" height=\"35\" viewbox=\"0 0 35 35\" fill=\"none\" xmlns=\"http:\/\/www.w3.org\/2000\/svg\">\n<mask id=\"mask0_1182_5532\" style=\"mask-type:luminance\" maskunits=\"userSpaceOnUse\" x=\"0\" y=\"0\" width=\"35\" height=\"35\">\n<path d=\"M0 0H35V35H0V0Z\" fill=\"white\"\/>\n<\/mask>\n<g mask=\"url(#mask0_1182_5532)\">\n<path d=\"M5.12695 9.22852H1.02539V31.9238H10.4299C12.2868 31.9238 14.0678 32.6615 15.3809 33.9746H19.6191C20.9322 32.6615 22.7132 31.9238 24.5701 31.9238H33.9746V11.2793H29.873\" stroke=\"#2A5CEE\" stroke-width=\"2\" stroke-miterlimit=\"10\"\/>\n<path d=\"M17.5 9.22852H18.1426C20.0088 7.89544 22.2237 7.17773 24.5615 7.17773H29.873V27.8223H24.5615C22.2237 27.8223 20.0088 28.54 18.1426 29.873H16.8574C14.9912 28.54 12.7763 27.8223 10.4385 27.8223H5.12695V5.12695H9.22852\" stroke=\"#2A5CEE\" stroke-width=\"2\" stroke-miterlimit=\"10\"\/>\n<path d=\"M9.22852 1.02539V21.6699C13.759 21.6699 17.5 25.3425 17.5 29.873V9.22852C17.5 4.698 13.759 1.02539 9.22852 1.02539Z\" stroke=\"#2A5CEE\" stroke-width=\"2\" stroke-miterlimit=\"10\"\/>\n<\/g>\n<\/svg>\n\t<\/div>\n\t<div class=\"single-item__articles-title\"><div class='heading-wrapper'><h3>Bioluminescence enables rapid DNA detection in infection diagnostics<\/h3><\/div><\/div>\n\t<div class=\"single-item__articles-terms\">\n\t\t\n\t\t\n\t\t\t\t\t\t<span class=\"button button--outline single-item__articles-term--branche single-item__articles-term\">Laboratory Technology<\/span>\n\t\t\t\t\t\t\t\t<span class=\"button button--outline single-item__articles-term--branche single-item__articles-term\">Life Science<\/span>\n\t\t\t\t\t\t\t\t<span class=\"button button--outline single-item__articles-term--branche single-item__articles-term\">Analysis<\/span>\n\t\t\t\t\t<\/div>\n\t<div class=\"single-item__articles-author-date-wrapper\">\n\t\t\t\t\t<div class=\"single-item__articles-author\">\n\t\t\t\tFHI, Federation of Technology Industries\t\t\t<\/div>\n\t\t\t\t\t\t\t<div class=\"single-item__articles-date\">\n\t\t\t\tMarch 20, 2024\t\t\t<\/div>\n\t\t\t<\/div>\n<\/a>\n\n<a class=\"single-item single-item__articles\" href=\"https:\/\/fhi.nl\/en\/news\/de-impact-van-next-gen-sequencing-en-whole-genome-sequencing-in-de-moleculaire-diagnostiek-van-patienten-met-kanker\/\" data-id=\"36703\">\n\t<div class=\"single-item__articles-icon\">\n\t\t<svg width=\"35\" height=\"35\" viewbox=\"0 0 35 35\" fill=\"none\" xmlns=\"http:\/\/www.w3.org\/2000\/svg\">\n<mask id=\"mask0_1182_5532\" style=\"mask-type:luminance\" maskunits=\"userSpaceOnUse\" x=\"0\" y=\"0\" width=\"35\" height=\"35\">\n<path d=\"M0 0H35V35H0V0Z\" fill=\"white\"\/>\n<\/mask>\n<g mask=\"url(#mask0_1182_5532)\">\n<path d=\"M5.12695 9.22852H1.02539V31.9238H10.4299C12.2868 31.9238 14.0678 32.6615 15.3809 33.9746H19.6191C20.9322 32.6615 22.7132 31.9238 24.5701 31.9238H33.9746V11.2793H29.873\" stroke=\"#2A5CEE\" stroke-width=\"2\" stroke-miterlimit=\"10\"\/>\n<path d=\"M17.5 9.22852H18.1426C20.0088 7.89544 22.2237 7.17773 24.5615 7.17773H29.873V27.8223H24.5615C22.2237 27.8223 20.0088 28.54 18.1426 29.873H16.8574C14.9912 28.54 12.7763 27.8223 10.4385 27.8223H5.12695V5.12695H9.22852\" stroke=\"#2A5CEE\" stroke-width=\"2\" stroke-miterlimit=\"10\"\/>\n<path d=\"M9.22852 1.02539V21.6699C13.759 21.6699 17.5 25.3425 17.5 29.873V9.22852C17.5 4.698 13.759 1.02539 9.22852 1.02539Z\" stroke=\"#2A5CEE\" stroke-width=\"2\" stroke-miterlimit=\"10\"\/>\n<\/g>\n<\/svg>\n\t<\/div>\n\t<div class=\"single-item__articles-title\"><div class='heading-wrapper'><h3>The impact of next gen sequencing and whole genome sequencing in the molecular diagnostics of cancer patients<\/h3><\/div><\/div>\n\t<div class=\"single-item__articles-terms\">\n\t\t\n\t\t\n\t\t\t\t\t\t<span class=\"button button--outline single-item__articles-term--branche single-item__articles-term\">Laboratory Technology<\/span>\n\t\t\t\t\t\t\t\t<span class=\"button button--outline single-item__articles-term--branche single-item__articles-term\">Life Science<\/span>\n\t\t\t\t\t\t\t\t<span class=\"button button--outline single-item__articles-term--branche single-item__articles-term\">Life Science\/Biotechnology<\/span>\n\t\t\t\t\t<\/div>\n\t<div class=\"single-item__articles-author-date-wrapper\">\n\t\t\t\t\t<div class=\"single-item__articles-author\">\n\t\t\t\tFHI, Federation of Technology Industries\t\t\t<\/div>\n\t\t\t\t\t\t\t<div class=\"single-item__articles-date\">\n\t\t\t\tFebruary 25, 2022\t\t\t<\/div>\n\t\t\t<\/div>\n<\/a>\n\t\t\t<\/div>\r\n\t\t<\/div>\r\n\t<\/div>","protected":false},"excerpt":{"rendered":"","protected":false},"featured_media":46256,"template":"","branches":[14],"events":[369,8],"secretariat":[],"categories":[],"themes_tax":[517],"content_types":[501],"class_list":["post-31643","news","type-news","status-publish","has-post-thumbnail","hentry"],"acf":[],"yoast_head":"<!-- This site is optimized with the Yoast SEO plugin v26.8 - https:\/\/yoast.com\/product\/yoast-seo-wordpress\/ -->\n<title>Infectiediagnostiek onder de loep met metagenomics<\/title>\n<meta name=\"description\" content=\"Infectiediagnostiek onder de loep met metagenomics\" \/>\n<meta name=\"robots\" content=\"index, follow, max-snippet:-1, max-image-preview:large, max-video-preview:-1\" \/>\n<link rel=\"canonical\" href=\"https:\/\/fhi.nl\/en\/lifescience\/nieuws\/infectiediagnostiek-onder-de-loep-met-metagenomics\/\" \/>\n<meta property=\"og:locale\" content=\"en_GB\" \/>\n<meta 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