Dataset Information

The impact of systemic and copper pesticide applications on the phyllosphere microflora of tomatoes.

ABSTRACT: Contamination of tomatoes by Salmonella can occur in agricultural settings. Little is currently understood about how agricultural inputs such as pesticide applications may impact epiphytic crop microflora and potentially play a role in contamination events. We examined the impact of two materials commonly used in Virginia tomato agriculture: acibenzolar-S-methyl (crop protectant) and copper oxychloride (pesticide) to identify the effects these materials may exert on baseline tomato microflora and on the incidence of three specific genera; Salmonella, Xanthomonas and Paenibacillus.Approximately 186 441 16S rRNA gene and 39 381 18S rRNA gene sequences per independent replicate were used to analyze the impact of the pesticide applications on tomato microflora. An average of 3 346 677 (634 892 974 bases) shotgun sequences per replicate were used for metagenomic analyses.A significant decrease in the presence of Gammaproteobacteria was observed between controls and copper-treated plants, suggesting that copper is effective at suppressing growth of certain taxa in this class. A higher mean abundance of Salmonella and Paenibacillus in control samples compared to treatments may suggest that both systemic and copper applications diminish the presence of these genera in the phyllosphere; however, owing to the lack of statistical significance, this could also be due to other factors. The most distinctive separation of shared membership was observed in shotgun data between the two different sampling time-points (not between treatments), potentially supporting the hypothesis that environmental pressures may exert more selective pressures on epiphytic microflora than do certain agricultural management practices.

SUBMITTER: Ottesen AR

PROVIDER: S-EPMC4368374 | biostudies-literature | 2015 Mar

REPOSITORIES: biostudies-literature

ACCESS DATA

Publications

The impact of systemic and copper pesticide applications on the phyllosphere microflora of tomatoes.

Ottesen Andrea R AR Gorham Sasha S Pettengill James B JB Rideout Steven S Evans Peter P Brown Eric E

Journal of the science of food and agriculture 20141211 5

<h4>Background</h4>Contamination of tomatoes by Salmonella can occur in agricultural settings. Little is currently understood about how agricultural inputs such as pesticide applications may impact epiphytic crop microflora and potentially play a role in contamination events. We examined the impact of two materials commonly used in Virginia tomato agriculture: acibenzolar-S-methyl (crop protectant) and copper oxychloride (pesticide) to identify the effects these materials may exert on baseline t ...[more]

PMID: 25410588

Similar Datasets

Project description:The ability to detect a specific organism from a complex environment is vitally important to many fields of public health, including food safety. For example, tomatoes have been implicated numerous times as vehicles of foodborne outbreaks due to strains of Salmonella but few studies have ever recovered Salmonella from a tomato phyllosphere environment. Precision of culturing techniques that target agents associated with outbreaks depend on numerous factors. One important factor to better understand is which species co-enrich during enrichment procedures and how microbial dynamics may impede or enhance detection of target pathogens. We used a shotgun sequence approach to describe taxa associated with samples pre-enrichment and throughout the enrichment steps of the Bacteriological Analytical Manual's (BAM) protocol for detection of Salmonella from environmental tomato samples. Recent work has shown that during efforts to enrich Salmonella (Proteobacteria) from tomato field samples, Firmicute genera are also co-enriched and at least one co-enriching Firmicute genus (Paenibacillus sp.) can inhibit and even kills strains of Salmonella. Here we provide a baseline description of microflora that co-culture during detection efforts and the utility of a bioinformatic approach to detect specific taxa from metagenomic sequence data. We observed that uncultured samples clustered together with distinct taxonomic profiles relative to the three cultured treatments (Universal Pre-enrichment broth (UPB), Tetrathionate (TT), and Rappaport-Vassiliadis (RV)). There was little consistency among samples exposed to the same culturing medias, suggesting significant microbial differences in starting matrices or stochasticity associated with enrichment processes. Interestingly, Paenibacillus sp. (Salmonella inhibitor) was significantly enriched from uncultured to cultured (UPB) samples. Also of interest was the sequence based identification of a number of sequences as Salmonella despite indication by all media, that samples were culture negative for Salmonella. Our results substantiate the nascent utility of metagenomic methods to improve both biological and bioinformatic pathogen detection methods.

Project description:Pesticide spray drift is potentially a significant source of exposure to off-target, adjacent aquatic habitats. To estimate the magnitude of pesticide drift from aerial or ground applications, regulatory agencies in North America, Europe, and elsewhere rely on spray drift models to predict spray drift deposition for risk assessments. Refined assessments should ultimately depend on best-available data for exposure modeling. However, when developing lower tier "screening" assessments designed to indicate whether further refinement is needed, regulators often make conservative assumptions with a resulting increased level of uncertainty in estimating environmental exposure or risk. In the United States, it is generally accepted that, to ensure conservative regulatory assessments, it is reasonable to assume that the wind speed might be 4.47 m/s (10 miles per hour [mph]), the relative humidity and temperature are highly conducive to drift, and the wind is blowing directly toward a receiving water for any given single spray event in a season. However, what is the probability these conditions will all co-occur for each of 4 sequential spray events spaced a week apart (common practice for insecticides)? The refined approach in the present study investigates this question using hourly meteorological data sets for 5 United States Environmental Protection Agency (USEPA) standard crop scenarios to understand how real-world data can reduce unnecessary uncertainty for sequential applications. The impact of wind speeds, temperatures, relative humidity, and wind direction at different times of day on annual drift loadings has been examined using a stepwise process for comparison with corresponding regulatory default loading estimates. The impacts on drift estimates were significant; interestingly, the time of day of the applications impacted variability more than did the selected crop scenario. When all these real-world factors were considered, estimated 30-y total drift loads ranged from 2% to 5% greater than the default estimate (2 of 30 cases due to high afternoon wind speeds) to 51% to 86% reductions (25 of 30 cases) with an overall average reduction of 63%. Integr Environ Assess Manag 2020;16:197-210. © 2019 The Authors. Integrated Environmental Assessment and Management published by Wiley Periodicals, Inc. on behalf of Society of Environmental Toxicology & Chemistry (SETAC).

Dataset Information

The impact of systemic and copper pesticide applications on the phyllosphere microflora of tomatoes.

Publications

The impact of systemic and copper pesticide applications on the phyllosphere microflora of tomatoes.

Similar Datasets

OmicsDI is part of the ELIXIR infrastructure