title: Low occurrence of Pseudomonas aeruginosa in agricultural soils with and without organic amendment.
abstract: The occurrence of Pseudomonas aeruginosa was monitored at a broad spatial scale in French agricultural soils, from various soil types and under various land uses to evaluate the ability of soil to be a natural habitat for that species. To appreciate the impact of agricultural practices on the potential dispersion of P. aeruginosa, we further investigated the impact of organic amendment at experimental sites in France and Burkina Faso. A real-time quantitative PCR (qPCR) approach was used to analyze a set of 380 samples selected within the French RMQS ("Réseau de Mesures de la Qualité des Sols") soil library. In parallel, a culture-dependent approach was tested on a subset of samples. The results showed that P. aeruginosa was very rarely detected suggesting a sporadic presence of this bacterium in soils from France and Burkina Faso, whatever the structural and physico-chemical characteristics or climate. When we analyzed the impact of organic amendment on the prevalence of P. aeruginosa, we found that even if it was detectable in various manures (at levels from 10(3) to 10(5) CFU or DNA targets (g drywt)(-1) of sample), it was hardly ever detected in the corresponding soils, which raises questions about its survival. The only case reports were from a vineyard soil amended with a compost of mushroom manure in Burgundy, and a few samples from two fields amended with raw urban wastes in the sub-urban area of Ouagadougou, Burkina Faso. In these soils the levels of culturable cells were below 10 CFU (g drywt)(-1).
authors.affiliation: CNRS, Ecole Nationale Vétérinaire de Lyon, and Université Lyon 1, UMR 5557 Ecologie Microbienne, Université de Lyon Villeurbanne, France.
authors.forename: Amélie
authors.initials: A
authors.lastname: Deredjian
authors.affiliation: CNRS, Ecole Nationale Vétérinaire de Lyon, and Université Lyon 1, UMR 5557 Ecologie Microbienne, Université de Lyon Villeurbanne, France.
authors.forename: Céline
authors.initials: C
authors.lastname: Colinon
authors.affiliation: UMR Ecosol, IRD-Université de Ouagadougou, UFR/SVT Ouagadougou, Burkina Faso.
authors.forename: Edmond
authors.initials: E
authors.lastname: Hien
authors.affiliation: CNRS, Ecole Nationale Vétérinaire de Lyon, and Université Lyon 1, UMR 5557 Ecologie Microbienne, Université de Lyon Villeurbanne, France.
authors.forename: Elisabeth
authors.initials: E
authors.lastname: Brothier
authors.affiliation: CNRS, Ecole Nationale Vétérinaire de Lyon, and Université Lyon 1, UMR 5557 Ecologie Microbienne, Université de Lyon Villeurbanne, France.
authors.forename: Benjamin
authors.initials: B
authors.lastname: Youenou
authors.affiliation: CNRS, Ecole Nationale Vétérinaire de Lyon, and Université Lyon 1, UMR 5557 Ecologie Microbienne, Université de Lyon Villeurbanne, France.
authors.forename: Benoit
authors.initials: B
authors.lastname: Cournoyer
authors.affiliation: Plateforme GenoSol, INRA-Université Bourgogne, AgroSup, UMR1347 Agroécologie Dijon, France.
authors.forename: Samuel
authors.initials: S
authors.lastname: Dequiedt
authors.affiliation: INRA-Université Bourgogne, AgroSup, UMR1347 Agroécologie Dijon, France.
authors.forename: Alain
authors.initials: A
authors.lastname: Hartmann
authors.affiliation: INRA, US 1106 InfoSol Orléans, France.
authors.forename: Claudy
authors.initials: C
authors.lastname: Jolivet
authors.affiliation: INRA, UMR 1091 Environnement et Grandes Cultures Thiverval-Grignon, France.
authors.forename: Sabine
authors.initials: S
authors.lastname: Houot
authors.affiliation: Plateforme GenoSol, INRA-Université Bourgogne, AgroSup, UMR1347 Agroécologie Dijon, France.
authors.forename: Lionel
authors.initials: L
authors.lastname: Ranjard
authors.affiliation: INRA, US 1106 InfoSol Orléans, France.
authors.forename: Nicolas P A
authors.initials: NP
authors.lastname: Saby
authors.affiliation: CNRS, Ecole Nationale Vétérinaire de Lyon, and Université Lyon 1, UMR 5557 Ecologie Microbienne, Université de Lyon Villeurbanne, France.
authors.forename: Sylvie
authors.initials: S
authors.lastname: Nazaret
mesh_terms: D000383:Agriculture; D002050:Burkina Faso; D005602:France; D058889:Molecular Typing; D011550:Pseudomonas aeruginosa / Q000145:classification / Q000235:genetics; D012987:Soil / Q000737:chemistry*; D012988:Soil Microbiology
chemical_list: D012987:Soil
keywords: Pseudomonas aeruginosa; cultivation; organic amendment; qPCR; soil