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A trait-based ecological perspective on the soil microbial antibiotic-related genetic machinery.
Dulya, Olesya; Mikryukov, Vladimir; Shchepkin, Daniil V; Pent, Mari; Tamm, Heidi; Guazzini, Massimo; Panagos, Panos; Jones, Arwyn; Orgiazzi, Alberto; Marroni, Fabio; Bahram, Mohammad; Tedersoo, Leho.
Afiliación
  • Dulya O; Institute of Ecology and Earth Sciences, University of Tartu, Tartu 50409, Estonia; Center of Mycology and Microbiology, University of Tartu, Tartu 50409, Estonia. Electronic address: olesia.dulia@ut.ee.
  • Mikryukov V; Institute of Ecology and Earth Sciences, University of Tartu, Tartu 50409, Estonia; Center of Mycology and Microbiology, University of Tartu, Tartu 50409, Estonia. Electronic address: vladimir.mikryukov@ut.ee.
  • Shchepkin DV; Center of Mycology and Microbiology, University of Tartu, Tartu 50409, Estonia. Electronic address: dvshchepkin@gmail.com.
  • Pent M; Institute of Ecology and Earth Sciences, University of Tartu, Tartu 50409, Estonia. Electronic address: mari.pent@ut.ee.
  • Tamm H; Institute of Ecology and Earth Sciences, University of Tartu, Tartu 50409, Estonia. Electronic address: heidi.tamm@ut.ee.
  • Guazzini M; Department of Agriculture, Food, Environmental and Animal Sciences, University of Udine, Udine 33100, Italy. Electronic address: guazzini.massimo@spes.uniud.it.
  • Panagos P; European Commission, Joint Research Centre (JRC), Ispra, Province of Varese 21027, Italy. Electronic address: panos.panagos@ec.europa.eu.
  • Jones A; European Commission, Joint Research Centre (JRC), Ispra, Province of Varese 21027, Italy. Electronic address: arwyn.jones@ec.europa.eu.
  • Orgiazzi A; European Commission, Joint Research Centre (JRC), Ispra, Province of Varese 21027, Italy; European Dynamics, Brussels B-1000, Belgium. Electronic address: alberto.orgiazzi@ext.ec.europa.eu.
  • Marroni F; Department of Agriculture, Food, Environmental and Animal Sciences, University of Udine, Udine 33100, Italy. Electronic address: fabio.marroni@uniud.it.
  • Bahram M; Institute of Ecology and Earth Sciences, University of Tartu, Tartu 50409, Estonia; Department of Ecology, Swedish University of Agricultural Sciences, Uppsala 75007, Sweden; Department of Agroecology, Aarhus University, Forsøgsvej 1 4200, Slagelse, Denmark. Electronic address: mohammad.bahram@ut.ee
  • Tedersoo L; Center of Mycology and Microbiology, University of Tartu, Tartu 50409, Estonia. Electronic address: leho.tedersoo@ut.ee.
Environ Int ; 190: 108917, 2024 Aug.
Article en En | MEDLINE | ID: mdl-39089094
ABSTRACT
Antibiotic resistance crisis dictates the need for resistance monitoring and the search for new antibiotics. The development of monitoring protocols is hindered by the great diversity of resistance factors, while the "streetlight effect" denies the possibility of discovering novel drugs based on existing databases. In this study, we address these challenges using high-throughput environmental screening viewed from a trait-based ecological perspective. Through an in-depth analysis of the metagenomes of 658 topsoil samples spanning Europe, we explored the distribution of 241 prokaryotic and fungal genes responsible for producing metabolites with antibiotic properties and 485 antibiotic resistance genes. We analyzed the diversity of these gene collections at different levels and modeled the distribution of each gene across environmental gradients. Our analyses revealed several nonparallel distribution patterns of the genes encoding sequential steps of enzymatic pathways synthesizing large antibiotic groups, pointing to gaps in existing databases and suggesting potential for discovering new analogues of known antibiotics. We show that agricultural activity caused a continental-scale homogenization of microbial antibiotic-related machinery, emphasizing the importance of maintaining indigenous ecosystems within the landscape mosaic. Based on the relationships between the proportion of the genes in the metagenomes with the main predictors (soil pH, land cover type, climate temperature and humidity), we illustrate how the properties of chemical structures dictate the distribution of the genes responsible for their synthesis across environments. With this understanding, we propose general principles to facilitate the discovery of antibiotics, including principally new ones, establish abundance baselines for antibiotic resistance genes, and predict their dissemination.
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Texto completo: 1 Colección: 01-internacional Base de datos: MEDLINE Asunto principal: Microbiología del Suelo / Farmacorresistencia Microbiana / Antibacterianos País/Región como asunto: Europa Idioma: En Revista: Environ Int Año: 2024 Tipo del documento: Article Pais de publicación: Países Bajos
Texto completo
Añadir a Mi BVS
Imprimir
XML
PubMed Links
Buscar en Google

Texto completo: 1 Colección: 01-internacional Base de datos: MEDLINE Asunto principal: Microbiología del Suelo / Farmacorresistencia Microbiana / Antibacterianos País/Región como asunto: Europa Idioma: En Revista: Environ Int Año: 2024 Tipo del documento: Article Pais de publicación: Países Bajos