{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,9,30]],"date-time":"2026-09-30T10:33:14Z","timestamp":1790764394554,"version":"4.1.0"},"reference-count":75,"publisher":"Frontiers Media SA","license":[{"start":{"date-parts":[[2022,6,13]],"date-time":"2022-06-13T00:00:00Z","timestamp":1655078400000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/501100000780","name":"European Commission","doi-asserted-by":"publisher","id":[{"id":"10.13039\/501100000780","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":["frontiersin.org"],"crossmark-restriction":true},"short-container-title":["Front. Microbiol."],"abstract":"<jats:p><jats:italic>Listeria monocytogenes<\/jats:italic> (<jats:italic>Lm<\/jats:italic>) is a ubiquitous bacterium that causes the serious foodborne illness listeriosis. Although soil is a primary reservoir and a central habitat for <jats:italic>Lm<\/jats:italic>, little information is available on the genetic features underlying the fitness of <jats:italic>Lm<\/jats:italic> strains in this complex habitat. The aim of this study was to identify (i) correlations between the strains fitness in soil, their origin and their phylogenetic position (ii) identify genetic markers allowing <jats:italic>Lm<\/jats:italic> to survive in the soil. To this end, we assembled a balanced panel of 216 <jats:italic>Lm<\/jats:italic> strains isolated from three major ecological compartments (outdoor environment, animal hosts, and food) and from 33 clonal complexes occurring worldwide. The ability of the 216 strains to survive in soil was tested phenotypically. Hierarchical clustering identified three phenotypic groups according to the survival rate (SR): phenotype 1 \u201cpoor survivors\u201d (SR &amp;lt; 2%), phenotype 2 \u201cmoderate survivors\u201d (2% &amp;lt; SR &amp;lt; 5%) and phenotype 3 \u201cgood survivors\u201d (SR &amp;gt; 5%). Survival in soil depended neither on strains\u2019 origin nor on their phylogenetic position. Genome-wide-association studies demonstrated that a greater number of genes specifically associated with a good survival in soil was found in lineage II strains (57 genes) than in lineage I strains (28 genes). Soil fitness was mainly associated with variations in genes (i) coding membrane proteins, transcription regulators, and stress resistance genes in both lineages (ii) coding proteins related to motility and (iii) of the category \u201cphage-related genes.\u201d The cumulative effect of these small genomic variations resulted in significant increase of soil fitness.<\/jats:p>","DOI":"10.3389\/fmicb.2022.917588","type":"journal-article","created":{"date-parts":[[2022,6,13]],"date-time":"2022-06-13T06:14:27Z","timestamp":1655100867000},"update-policy":"https:\/\/doi.org\/10.3389\/crossmark-policy","source":"Crossref","is-referenced-by-count":10,"title":["Listeria monocytogenes: Investigation of Fitness in Soil Does Not Support the Relevance of Ecotypes"],"prefix":"10.3389","volume":"13","author":[{"given":"Yann","family":"S\u00e9vellec","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Eliette","family":"Ascencio","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Pierre-Emmanuel","family":"Douarre","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Benjamin","family":"F\u00e9lix","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Laurent","family":"Gal","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Dominique","family":"Garmyn","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Laurent","family":"Guillier","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Pascal","family":"Piveteau","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Sophie","family":"Roussel","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"1965","published-online":{"date-parts":[[2022,6,13]]},"reference":[{"key":"B1","doi-asserted-by":"publisher","first-page":"89","DOI":"10.1534\/genetics.116.190496","article-title":"Bayesian Inference of the Evolution of a Phenotype Distribution on a Phylogenetic Tree.","volume":"204","author":"Ansari","year":"2016","journal-title":"Genetics"},{"key":"B2","doi-asserted-by":"publisher","first-page":"W16","DOI":"10.1093\/nar\/gkw387","article-title":"PHASTER: a better, faster version of the PHAST phage search tool.","volume":"44","author":"Arndt","year":"2016","journal-title":"Nucleic Acids Res."},{"key":"B3","doi-asserted-by":"publisher","first-page":"1560","DOI":"10.1093\/bib\/bbx121","article-title":"PHAST, PHASTER and PHASTEST: tools for finding prophage in bacterial genomes.","volume":"20","author":"Arndt","year":"2019","journal-title":"Brief. 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