Relationships Between Root Pathogen Resistance, Abundance and Expression of \u3ci\u3ePseudomonas\u3c/i\u3e Antimicrobial Genes, and Soil Properties in Representative Swiss Agricultural Soils

Strains of Pseudomonas that produce antimicrobial metabolites and control soilborne plant diseases have often been isolated from soils defined as disease-suppressive, i.e., soils, in which specific plant pathogens are present, but plants show no or reduced disease symptoms. Moreover, it is assumed that pseudomonads producing antimicrobial compounds such as 2,4-diacetylphloroglucinol (DAPG) or phenazines (PHZ) contribute to the specific disease resistance of suppressive soils. However, pseudomonads producing antimicrobial metabolites are also present in soils that are conducive to disease. Currently, it is still unknown whether and to which extent the abundance of antimicrobials-producing pseudomonads is related to the general disease resistance of common agricultural soils. Moreover, virtually nothing is known about the conditions under which pseudomonads express antimicrobial genes in agricultural field soils. We present here results of the first side-by-side comparison of 10 representative Swiss agricultural soils with a cereal-oriented cropping history for (i) the resistance against two soilborne pathogens, (ii) the abundance of Pseudomonas bacteria harboring genes involved in the biosynthesis of the antimicrobials DAPG, PHZ, and pyrrolnitrin on roots of wheat, and (iii) the ability to support the expression of these genes on the roots. Our study revealed that the level of soil disease resistance strongly depends on the type of pathogen, e.g., soils that are highly resistant to Gaeumannomyces tritici often are highly susceptible to Pythium ultimum and vice versa. There was no significant correlation between the disease resistance of the soils, the abundance of Pseudomonas bacteria carrying DAPG, PHZ, and pyrrolnitrin biosynthetic genes, and the ability of the soils to support the expression of the antimicrobial genes. Correlation analyses indicated that certain soil factors such as silt, clay, and some macro- and micronutrients influence both the abundance and the expression of the antimicrobial genes. Taken together, the results of this study suggests that pseudomonads producing DAPG, PHZ, or pyrrolnitrin are present and abundant in Swiss agricultural soils and that the soils support the expression of the respective biosynthetic genes in these bacteria to various degrees. The precise role that these pseudomonads play in the general disease resistance of the investigated agricultural soils remains elusive

Traditional and molecular detection methods reveal intense interguild competition and other multitrophic interactions associated with native entomopathogenic nematodes in Swiss tillage soils

Background and aims: As part of a research consortium that explores ways to improve soil health, we study how entomopathogenic nematodes (EPNs) can be better exploited for the biological control of soil-dwelling insect pests in annual crops. Methods: We evaluated how tillage might affect belowground interactions in two 30-year running Swiss field trials by combining traditional (insect bait) and molecular (novel real-time qPCR protocols) methods. Soil samples (April and October 2013) were evaluated for the presence and activity of EPN soil food web assemblage comprising 13 EPN species, six nematophagous fungi, one ectoparasitic bacterium, and the free-living nematodes (FLN) of the Acrobeloides group. Results: Mortality of sentinel larvae, as well as qPCR analyses (for which we provide seven new primers/probes sets) found only trace levels of six EPN species, dominated by heterorhabditids species. Analysis of nematode progeny revealed that EPN compete intensely with FLN for insect cadavers. Overall, it appears that temperate annual cropping systems provide poor environments for EPN and that tillage does not negatively affect the natural occurrence of EPN. Conclusions: Natural occurrence of EPN in Swiss tillage soils was very low, and augmentation may be a promising strategy to improve the control of root pests of annual crops

La biologie du sol passionne et réunit agriculteurs et scientifiques

«Microfaune et microflore, booster de la fertilité des sols», c'est sous ce titre qu'a eu lieu, le 26 novembre 2015, le second atelier sur la biologie du sol organisé dans le cadre du Programme national de recherche PNR 68 «utilisation durable de la ressource sol». Début 2014, un premier atelier avait permis aux scientifiques de présenter les axes de recherche du bloc thématique «biologie du sol» aux agriculteurs et vulgarisateurs. Cette fois, les chercheurs ont pu présenter au même public les résultats de leurs recherches. Ce deuxième atelier a également permis de renforcer les ponts entre les différents acteurs pour développer davantage de pistes de travail liées à la biologie du sol