Biology subjects

Barny, M.-A.

Publications and source records attributed to Barny, M.-A..

4 recordsLinked to original sources

bioRxiv2025

Pectobacterium versatile beta-lactamase, a common good of the soft rot Pectobacteriaceae (SRP) species complex

Little is known about the role of antibiotics and associated resistance in microbial ecosystems in the absence of clinical antibiotic pressure. The Soft Rot Pectobacteriaceae (SRP) species complex, which comprises 37 bacterial species that are collectively responsible for the severe rotting of many crops, is an interesting model to analyse the role of {beta}-lactam and {beta}-lactamases in natural ecosystems. In particular, within this complex, most Pectobacterium versatile strains harbour a {beta}-lactamase called BlaPEC-1. The aim of our work was to analyse the role of BlaPEC-1 during infection. To this end, two blaPEC-1-deleted strains were constructed and compared with their wild-type counterparts in vitro and in potato tuber infections. In vitro, the BlaPEC-1 {beta}-lactamase enables P. versatile to resist ampicillin or carbapenem produced by Pectobacterium brasiliense. In mono-infections on potato tubers, blaPEC-1-deleted strains were unaffected in terms of virulence, fitness or association with commensal bacteria. In mixed infections, the BlaPEC-1 {beta}-lactamase proved necessary for the coexistence of P. versatile with the carbapenem-producing strain, and also for the protection of carbapenem-sensitive strains both in vitro and in planta. Interestingly, in planta protection was observed even if the blaPEC-1 gene was repressed and bacteria expressing BlaPEC-1 were in the minority within the symptom. These results indicate that BlaPEC-1 exerts a true {beta}-lactamase function during the infection process and acts as a public good of the SRP species complex. Finally, our results highlight the important role of {beta}-lactamase in maintaining of strains diversity in natural ecosystem. Statements relating to our ethics and integrity policiesThe data shown in this paper are available within the article and supplementary materials. The funding of the ANR, ANR-19-CE35-0016-03, is acknowledged. The funders had no role in study design, data collection and interpretation, or the decision to submit the work for publication. The authors declare that there are no conflicts of interest. All applicable local, national and international regulations and conventions, as well as normal scientific ethical practices, were followed in the preparation of this work. This manuscript has not been previously or simultaneously published or submitted elsewhere and was critically reviewed and approved by all co-authors before submission. The CRediT of all authors is provided.

microbiology↗

bioRxiv2024

Tailocin-mediated interactions in Soft Rot Pectobacteriaceae

Bacteria carry phage-derived elements within their genomes, some of which can produce phage-like particles (tailocins) used as weapons to kill kin strains in response to environmental conditions. This study investigates the production and activity of tailocins by plant pathogenic bacteria: Pectobacterium, Dickeya, and Musicola genera, which compete for niche, providing an attractive model to study the ecological role of tailocins. Microscopy revealed that most analyzed strains (88%) produced tailocins. Tailocin-mediated killing interactions were assessed across 351 strain pairs, showing that Dickeya spp. had a higher likelihood of killing neighbors (57.1%) than Pectobacterium spp. (21.6%). Additionally, Dickeya spp. strains exhibited broader phylogenetic killing, targeting both Pectobacterium spp. and Musicola sp., while Pectobacterium spp. tailocins were genus-specific. Mutual killing was observed in 33.9% of interactions, predominantly within Dickeya spp. Although tailocins were morphologically indistinguishable between producers, genomic analyses identified conserved clusters having distinct differences between Pectobacterium spp. and Dickeya spp tailocins. This suggests different origins of these particles. Induction experiments demonstrated that tailocin production was boosted by hydrogen peroxide, supporting the role of these particles in bacteria-bacteria competition during infection. Tailocins were detectable in infected potato tissue but not in river water, highlighting the particular ecological relevance of tailocins in plant environments.

microbiology↗

bioRxiv2023

Bacterial pathogens dynamic during multi-species infections

Soft rot Pectobacteriacea (SRP) gathers more than 30 bacterial species that collectively rot a wide range of plants by producing and secreting a large set of plant cell wall degrading enzymes (PCWDEs). Worldwide potato field surveys identified 15 different SRP species on symptomatic plants and tubers. The abundance of each species observed during outbreaks varies over space and time and the mechanisms driving species shift during outbreak are unknown. Furthermore, multi-species infections are frequently observed and the dynamics of these coinfections are not well understood. To understand the dynamics of coinfections, we set up 16 different synthetic communities of 6 SRP strains to mimic coinfections. The bacteria present in each tested community were representative of 2 different species, with 3 strains per species. These communities were inoculated in potato tubers or on synthetic media and their outcome was followed by amplification and Illumina sequencing of the discriminatory housekeeping gene gapA. We also compared disease incidence and bacterial multiplication in potato tubers during mixed-species infection and single-species infection. A species that was unable to induce disease in potato was efficiently maintained and eventually became dominant in some of the communities tested, indicating that cheating can shape dominant species. Modeling indicates that the cost of PCWDEs production and secretion, the rate of potato degradation and the diffusion rate of degraded substrate could favor the cheater species. Interaction outcomes differed between potato tuber and synthetic medium, highlighting the driving effect of environmental conditions, with higher antagonistic interactions observed in potato tubers. Antagonistic interactions were strain specific and not species specific. Toxicity interference was also observed within some communities, allowing the maintenance of strains otherwise sensitive to toxic compounds. Overall, the results indicate that intraspecific competition, cooperation through trophic interaction and toxicity interference contribute to the maintenance of SRP diversity. The implications of these processes for epidemiological surveillance are discussed.

microbiology↗

bioRxiv2022

Comparative seasonal abundance and diversity of populations of the Pseudomonas syringae and Soft Rot Pectobacteriaceae species complexes throughout the Durance River catchment from its French Alps sources to its delta

Rivers, creeks, streams are integrators of biological, chemical and physical processes occurring in a catchment linking land cover from the headwaters to the outlet. The dynamics of human and animal pathogens in catchments have been widely studied in a large variety of contexts allowing the optimization of disease risk reduction. In parallel, there is an emerging awareness that crop pathogens might also be disseminated via surface waters especially when they are used for irrigation. However, there are no studies on the extent to which potential plant pathogens are present - nor about their dynamics - along the full course of a catchment. Here we have compared the seasonal dynamics of populations of the Pseudomonas syringae (Psy) and the Soft Rot Pectobacteriaceae (SRP) species complexes along a 270 km stretch of the Durance River from the upstream alpine reaches to the downstream agricultural production areas at the confluence with the Rhone River at Avignon. Among 168 samples collected at 21 sites in fall, winter, spring and summer of 2016 and 2017, Psy strains were detected at all sampling sites and in 156 of the samples at population densities up to 105 bacteria L-1. In contrast, SRP strains were detected in 98 of the samples, mostly from the southern part of the river, at population densities that did not exceed 3 x 104 bacteria L-1. Among the biological and chemical parameters that were characterized at each sampling site, temperature was the only factor that explained a significant amount of the variability in population size for both species complexes. Psy densities decreased with increasing temperature whereas SRP densities increased with increasing temperature. River-borne populations of SRP were composed mainly of Pectobacterium versatile and P. aquaticum that have little known epidemiological importance. Only a few strains of Pectobacterium and Dickeya species reputed for their epidemiological impact were observed. In contrast, Psy populations at all sites were dominated by a genetic lineage of phylogroup 2 known from other studies for its broad host range and its geographic and habitat ubiquity. Our observations suggest that surveillance of river water for SRP could be leveraged to signal diagnostic and management reactions to avoid disease outbreaks. In contrast, the constant presence of Psy throughout the catchment in absence of regular and widespread disease outbreaks due to this group of bacteria suggests that surveillance should focus on future changes in land use, river water conditions and agronomic practices that could destabilize the mechanisms currently holding Psy outbreaks in check.

ecology↗