{"id":22599,"date":"2022-12-19T11:00:37","date_gmt":"2022-12-19T10:00:37","guid":{"rendered":"https:\/\/resoilfoundation.org\/articles\/ricerca-sip-microbi-suolo\/"},"modified":"2022-12-22T10:04:49","modified_gmt":"2022-12-22T09:04:49","slug":"research-sip-soil-microbes","status":"publish","type":"post","link":"https:\/\/resoilfoundation.org\/en\/innovation-technology\/research-sip-soil-microbes\/","title":{"rendered":"A new research technique may unlock the secrets of soil microbes"},"content":{"rendered":"<h2>A study from the US paves the way for more in-depth investigations into the role of soil microbes. By improving the stable isotope survey, researchers highlighted the &#8220;food web&#8221; of interactions stimulated by soil microorganisms<\/h2>\n<p style=\"text-align: center;\">by Matteo Cavallito<\/p>\n<p>&nbsp;<\/p>\n<p>An innovative method of analyzing microbes could pave the way for new insights into the <strong>complex interactions<\/strong> that continuously take place in the <strong>soil<\/strong>, explains a <a href=\"https:\/\/microbiomejournal.biomedcentral.com\/articles\/10.1186\/s40168-022-01391-z#Sec12\" target=\"_blank\" rel=\"noopener\">study<\/a> published in recent weeks by scientists at <strong>Lawrence Livermore National Laboratory<\/strong>, a research center based in California. The authors, assisted by colleagues at the U.S. Department of Energy&#8217;s Joint Genome Institute and UC Berkeley, have developed a technique that allows for more effective use of what is known as SIP, or <strong>Stable Isotope Probing<\/strong>.<\/p>\n<p>The new version of this method, according to a <a href=\"https:\/\/www.llnl.gov\/news\/new-method-unearths-improved-understanding-soil-microbial-interactions\" target=\"_blank\" rel=\"noopener\">statement<\/a> from the California Laboratory, &#8220;automates several steps in the process of stable isotope probing, allowing investigations of microbial activity of microorganisms under realistic conditions, without the need for lab culturing.&#8221;<\/p>\n<h5><iframe loading=\"lazy\" title=\"YouTube video player\" src=\"https:\/\/www.youtube.com\/embed\/6s-5G-_SZpQ\" width=\"560\" height=\"315\" frameborder=\"0\" allowfullscreen=\"allowfullscreen\"><\/iframe><\/h5>\n<h5>A novel technique<\/h5>\n<p>The SIP method is usually based on the incorporation of isotopes into microbial biomass. This allows researchers to identify <strong>active microbes<\/strong> in a complex community by defining their physiological traits including cell biochemistry, metabolism, growth and mortality. However, the analysis takes place in the laboratory, is labor-intensive and allows only a small number of samples to be processed.<\/p>\n<blockquote><p>LLNL scientists, says the statement, have made <strong>major innovations<\/strong> to the method, significantly reducing the manual labor required and starting to process 16 samples simultaneously.<\/p><\/blockquote>\n<p>&#8220;Our semi-automated approach decreases operator time and improves reproducibility by targeting the most labor-intensive steps of SIP,&#8221; said <strong>Erin Nuccio<\/strong>, co-author and research coordinator. &#8220;We have now used this approach to process over a thousand samples, including some from very understudied soil microhabitats.&#8221;<\/p>\n<div class='avia-iframe-wrap'>\n<blockquote class=\"wp-embedded-content\" data-secret=\"ddK2pgkDOf\"><p><a href=\"https:\/\/resoilfoundation.org\/en\/articles\/carbon-trees-finland\/\">Forests, climate and carbon storage: the lesson of Finnish trees<\/a><\/p><\/blockquote>\n<p><iframe loading=\"lazy\" class=\"wp-embedded-content\" sandbox=\"allow-scripts\" security=\"restricted\" style=\"position: absolute; clip: rect(1px, 1px, 1px, 1px);\" title=\"&#8220;Forests, climate and carbon storage: the lesson of Finnish trees&#8221; &#8212; Re Soil Foundation\" src=\"https:\/\/resoilfoundation.org\/en\/articles\/carbon-trees-finland\/embed\/#?secret=0Z88oYXPFS#?secret=ddK2pgkDOf\" data-secret=\"ddK2pgkDOf\" width=\"600\" height=\"338\" frameborder=\"0\" marginwidth=\"0\" marginheight=\"0\" scrolling=\"no\"><\/iframe><\/div>\n<h5>New perspectives<\/h5>\n<p>According to the authors, the technique allows the dynamic activities of microbial communities to be studied more effectively. This is highlighted by the same results of the study that focused on the <strong>mycorrhizosphere<\/strong> that hosts <strong>arbuscular mycorrhizal fungi<\/strong>, or AMFs. These particular microbes, an Indiana University research previously observed, interact with plants by providing them with increased <a href=\"https:\/\/resoilfoundation.org\/en\/articles\/trees-impact-climate-soil\/\" target=\"_blank\" rel=\"noopener\">carbon storage capacity<\/a>.<\/p>\n<blockquote><p>The fungi identified by the researchers, the study says, &#8220;highlight the potential for cross-kingdom trophic interactions in the <strong>AMFs<\/strong> hyphosphere, including predation, decomposition of fungal necromass or plant detritus, and archaeal ammonia oxidation that may utilize ammonium or <strong>CO2<\/strong> released from the aforementioned processes.&#8221;<\/p><\/blockquote>\n<p>By combining the new method with other disciplines such as metatracriptomics, which studies the gene expression of microbes, and proteomics, which provides essential information about proteins, it will be possible to obtain &#8220;an important genomic resource for <strong>future experiments<\/strong> exploring interactions between arbuscular mycorrhizal fungal hyphae (filamentous structure of, ed.) and their native microbiome.&#8221;<\/p>\n<div class='avia-iframe-wrap'>\n<blockquote class=\"wp-embedded-content\" data-secret=\"BJFa8zNIBv\"><p><a href=\"https:\/\/resoilfoundation.org\/en\/articles\/energy-microbes-soil\/\">Researchers believe microorganisms can help us store energy in the soil<\/a><\/p><\/blockquote>\n<p><iframe loading=\"lazy\" class=\"wp-embedded-content\" sandbox=\"allow-scripts\" security=\"restricted\" style=\"position: absolute; clip: rect(1px, 1px, 1px, 1px);\" title=\"&#8220;Researchers believe microorganisms can help us store energy in the soil&#8221; &#8212; Re Soil Foundation\" src=\"https:\/\/resoilfoundation.org\/en\/articles\/energy-microbes-soil\/embed\/#?secret=4hE7WcV6vJ#?secret=BJFa8zNIBv\" data-secret=\"BJFa8zNIBv\" width=\"600\" height=\"338\" frameborder=\"0\" marginwidth=\"0\" marginheight=\"0\" scrolling=\"no\"><\/iframe><\/div>\n<h5>Microbes and carbon<\/h5>\n<p>MFAs, the researchers recall, form symbiotic relationships with <strong>72 percent of all terrestrial plants<\/strong>. In exchange for carbon, the fungus provides essential resources such as nitrogen, phosphorus and water. This study thus made it possible to highlight the &#8220;food web&#8221; of interactions stimulated by the same microorganisms in the soil.<\/p>\n<p>Peculiar role of microbes in the carbon cycle has long been the subject of various studies.<\/p>\n<blockquote><p>In January 2021, for example, researchers at the University of Massachusetts Amherst <a href=\"https:\/\/www.nature.com\/articles\/s41467-020-17502-z\" target=\"_blank\" rel=\"noopener\">revealed<\/a> how microbial diversity <a href=\"https:\/\/resoilfoundation.org\/en\/articles\/microbes-co2-diversity-soil\/\" target=\"_blank\" rel=\"noopener\">promotes growth<\/a> in <strong>carbon use efficiency<\/strong>, i.e., the balance between the amount assimilated by fungi and bacteria and the amount emitted into the atmosphere<\/p><\/blockquote>\n<p>The survey, explains <strong>Jennifer Pett-Ridge<\/strong>, one of the co-authors, shows &#8220;a major route for how plant carbon gets broadly distributed into soil.&#8221; The soil itself &#8220;holds the largest pool of actively cycling organic carbon on the planet.&#8221; And the study, which is based on sequencing &#8220;a tiny amount of DNA,&#8221; has &#8220;determined the active organisms and then reconstructed their genomes and potential interactions.&#8221; The application of these techniques now opens the way for new research.<\/p>\n","protected":false},"excerpt":{"rendered":"<p>A study from the US paves the way for more in-depth investigations into the role of soil microbes. By improving the stable isotope survey, researchers highlighted the &#8220;food web&#8221; of interactions stimulated by soil microorganisms <\/p>\n","protected":false},"author":4,"featured_media":22606,"comment_status":"closed","ping_status":"open","sticky":false,"template":"","format":"standard","meta":{"footnotes":""},"categories":[152,134],"tags":[220,237,188,186,163],"class_list":["post-22599","post","type-post","status-publish","format-standard","has-post-thumbnail","hentry","category-innovation-technology","category-articles","tag-carbon","tag-organic-matter","tag-research","tag-soil","tag-usa-en"],"yoast_head":"<!-- This site is optimized with the Yoast SEO plugin v27.4 - https:\/\/yoast.com\/product\/yoast-seo-wordpress\/ -->\n<title>A new research technique may unlock the secrets of soil microbes<\/title>\n<meta name=\"description\" content=\"Using a new stable isotope probing technique, scientists have reconstructed the interactions of soil microbes\" \/>\n<meta name=\"robots\" content=\"index, follow, max-snippet:-1, max-image-preview:large, max-video-preview:-1\" \/>\n<link rel=\"canonical\" href=\"https:\/\/resoilfoundation.org\/en\/innovation-technology\/research-sip-soil-microbes\/\" \/>\n<meta property=\"og:locale\" content=\"en_US\" \/>\n<meta property=\"og:type\" content=\"article\" \/>\n<meta property=\"og:title\" content=\"A new research technique may unlock the secrets of soil microbes\" \/>\n<meta property=\"og:description\" content=\"Using a new stable isotope probing technique, scientists have reconstructed the interactions of soil microbes\" \/>\n<meta property=\"og:url\" content=\"https:\/\/resoilfoundation.org\/en\/innovation-technology\/research-sip-soil-microbes\/\" \/>\n<meta property=\"og:site_name\" content=\"Re Soil Foundation\" \/>\n<meta property=\"article:publisher\" content=\"https:\/\/www.facebook.com\/resoilfoundation\/\" \/>\n<meta property=\"article:published_time\" content=\"2022-12-19T10:00:37+00:00\" \/>\n<meta property=\"article:modified_time\" content=\"2022-12-22T09:04:49+00:00\" \/>\n<meta property=\"og:image\" content=\"https:\/\/resoilfoundation.org\/wp-content\/uploads\/2022\/12\/Lnll-1.jpg\" \/>\n\t<meta property=\"og:image:width\" content=\"975\" \/>\n\t<meta property=\"og:image:height\" content=\"675\" \/>\n\t<meta property=\"og:image:type\" content=\"image\/jpeg\" \/>\n<meta name=\"author\" content=\"Matteo Cavallito\" \/>\n<meta name=\"twitter:card\" content=\"summary_large_image\" \/>\n<meta name=\"twitter:creator\" content=\"@re_soil\" \/>\n<meta name=\"twitter:site\" content=\"@re_soil\" \/>\n<meta name=\"twitter:label1\" content=\"Written by\" \/>\n\t<meta name=\"twitter:data1\" content=\"Matteo Cavallito\" \/>\n\t<meta name=\"twitter:label2\" content=\"Est. reading time\" \/>\n\t<meta name=\"twitter:data2\" content=\"4 minutes\" \/>\n<script type=\"application\/ld+json\" class=\"yoast-schema-graph\">{\"@context\":\"https:\\\/\\\/schema.org\",\"@graph\":[{\"@type\":\"Article\",\"@id\":\"https:\\\/\\\/resoilfoundation.org\\\/en\\\/innovation-technology\\\/research-sip-soil-microbes\\\/#article\",\"isPartOf\":{\"@id\":\"https:\\\/\\\/resoilfoundation.org\\\/en\\\/innovation-technology\\\/research-sip-soil-microbes\\\/\"},\"author\":{\"name\":\"Matteo Cavallito\",\"@id\":\"https:\\\/\\\/resoilfoundation.org\\\/en\\\/#\\\/schema\\\/person\\\/9deaff5320c99714a3a7944e4b7c8fbe\"},\"headline\":\"A new research technique may unlock the secrets of soil microbes\",\"datePublished\":\"2022-12-19T10:00:37+00:00\",\"dateModified\":\"2022-12-22T09:04:49+00:00\",\"mainEntityOfPage\":{\"@id\":\"https:\\\/\\\/resoilfoundation.org\\\/en\\\/innovation-technology\\\/research-sip-soil-microbes\\\/\"},\"wordCount\":656,\"image\":{\"@id\":\"https:\\\/\\\/resoilfoundation.org\\\/en\\\/innovation-technology\\\/research-sip-soil-microbes\\\/#primaryimage\"},\"thumbnailUrl\":\"https:\\\/\\\/resoilfoundation.org\\\/wp-content\\\/uploads\\\/2022\\\/12\\\/Lnll-1.jpg\",\"keywords\":[\"carbon\",\"organic matter\",\"research\",\"soil\",\"usa\"],\"articleSection\":[\"Innovation &amp; 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