Antibiotic Resistance in Airborne Bacteria Near Conventional and Organic Beef Cattle Farms in California, USA

Sancheza, Helen M.; Echeverria, Cristina; Thulsiraj, Vanessa; Zimmer-Faust, Amy; Flores, Ariel; Laitz, Madeleine; Healy, Gregory; Mahendra, Shaily; Paulson, Suzanne E.; Zhu, Yifang; Jay, Jennifer A.

doi:10.1007/s11270-016-2979-8

Cited by 38 publications

(19 citation statements)

References 52 publications

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“…All farms were positive for at least three, and up to 12 of the 15 assayed genes, demonstrating that ARGs are common in agricultural soils, even in the absence of routine antibiotic drug or pesticide use. These data support other work done in organic farming operations examining ARGs in organic cattle, swine, and poultry production ( Stanton et al, 2011 ; Rothrock et al, 2016a ; Sancheza et al, 2016 ), where ARGs were also detected even when antibiotic drugs were not administered to animals. It was not surprising to detect sulfonamide and/or tetracycline ARGs at every farm sampled, as they occur naturally in soils, and have been detected in soils and water from around the globe, including ungrazed native prairie soils from the same region of Nebraska in which this study was conducted ( D’Costa et al, 2006 , 2007 ; Allen et al, 2010 ; Durso et al, 2012 , 2016 ; Cytryn, 2013 ).…”

Section: Discussionsupporting

confidence: 88%

Tetracycline and Sulfonamide Antibiotic Resistance Genes in Soils From Nebraska Organic Farming Operations

et al. 2018

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There is widespread agreement that agricultural antibiotic resistance should be reduced, however, it is unclear from the available literature what an appropriate target for reduction would be. Organic farms provide a unique opportunity to disentangle questions of agricultural antibiotic drug use from questions of antibiotic resistance in the soil. In this study, soil was collected from 12 certified organic farms in Nebraska, evaluated for the presence of tetracycline and sulfonamide resistance genes (n = 15 targets), and correlated to soil physical, chemical, and biological parameters. Tetracycline and sulfonamide antibiotic resistance genes (ARGs) were found in soils from all 12 farms, and 182 of the 196 soil samples (93%). The most frequently detected gene was tetG (55% of samples), followed by tet(Q) (49%), tet(S) (46%), tet(X) (30%), and tetA(P) (29%). Soil was collected from two depths. No differences in ARGs were observed based on soil depth. Positive correlations were noted between ARG presence and soil electrical conductivity, and concentrations of Ca, Na, and Mehlich-3 phosphorus. Data from this study point to possible relationships between selected soil properties and individual tetracycline resistance genes, including tet(O) which is a common target for environmental samples. We compared organic farm results to previously published data from prairie soils and found significant differences in detection frequency for 12 genes, eight of which were more commonly detected in prairie soils. Of interest, when tetracycline ARG results were sorted by gene mechanism, the efflux genes were generally present in higher frequency in the prairie soils, while the ribosomal protection and enzymatic genes were more frequently detected in organic farm soils, suggesting a possible ecological role for specific tetracycline resistance mechanisms. By comparing soil from organic farms with prairie soils, we can start to determine baseline effects of low-chemical input agricultural production practices on multiple measures of resistance.

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Section: Discussionsupporting

confidence: 88%

Tetracycline and Sulfonamide Antibiotic Resistance Genes in Soils From Nebraska Organic Farming Operations

et al. 2018

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“…Of interest, gene mechanisms of tetracycline resistance including the efflux genes, the ribosomal protection and enzymatic genes were suggesting a possible ecological role for specific wide spread of tetracycline resistance [ 47 ]. However, AMR genes especially tetracycline and sulfonamide were also detected in livestock production surrounding even when antimicrobial drugs were not administered to animals [ 47 , 48 ].…”

Section: Discussionmentioning

confidence: 99%

Whole genome sequencing analysis of multiple Salmonella serovars provides insights into phylogenetic relatedness, antimicrobial resistance, and virulence markers across humans, food animals and agriculture environmental sources

2018

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BackgroundSalmonella enterica is a significant foodborne pathogen, which can be transmitted via several distinct routes, and reports on acquisition of antimicrobial resistance (AMR) are increasing. To better understand the association between human Salmonella clinical isolates and the potential environmental/animal reservoirs, whole genome sequencing (WGS) was used to investigate the epidemiology and AMR patterns within Salmonella isolates from two adjacent US states.ResultsWGS data of 200 S. enterica isolates recovered from human (n = 44), swine (n = 32), poultry (n = 22), and farm environment (n = 102) were used for in silico prediction of serovar, distribution of virulence genes, and phylogenetically clustered using core genome single nucleotide polymorphism (SNP) and feature frequency profiling (FFP). Furthermore, AMR was studied both by genotypic prediction using five curated AMR databases, and compared to phenotypic AMR using broth microdilution. Core genome SNP-based and FFP-based phylogenetic trees showed consistent clustering of isolates into the respective serovars, and suggested clustering of isolates based on the source of isolation. The overall correlation of phenotypic and genotypic AMR was 87.61% and 97.13% for sensitivity and specificity, respectively. AMR and virulence genes clustered with the Salmonella serovars, while there were also associations between the presence of virulence genes in both animal/environmental isolates and human clinical samples.ConclusionsWGS is a helpful tool for Salmonella phylogenetic analysis, AMR and virulence gene predictions. The clinical isolates clustered closely with animal and environmental isolates, suggesting that animals and environment are potential sources for dissemination of AMR and virulence genes between Salmonella serovars.Electronic supplementary materialThe online version of this article (10.1186/s12864-018-5137-4) contains supplementary material, which is available to authorized users.

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“…Sometimes, clear correlations are observed between drugs and resistance; this is the outcome that is generally expected. In the presence of more drugs, more resistance is observed (as measured by an increase in the number or types of AR bacteria and/or AR genes) (Knapp et al 2010; Sancheza et al 2016; Österberg et al 2016). However, the presence of more drugs does not always correlate with more resistance in environmental settings (Ghosh and LaPara 2007; Dalkmann et al 2012; Mantz et al 2013; Jechalke et al 2015).…”

Section: Drugs Bacteria and Genes In The Environmentmentioning

confidence: 99%

One Health and Antibiotic Resistance in Agroecosystems

Durso

Cook

2018

EcoHealth

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Agriculture reflects One Health principals, with the job of the farmer being to sustainably balance human, animal, and soil health. It is imperative to include an agricultural perspective when addressing antibiotic resistance (AR) from a One Health perspective, as the farmers, ranchers, and agricultural professionals have an intimate working knowledge of these complex systems, and they will be on the front lines of implementing on-farm control measures. Currently, communication across the One Health triad (humans, animals, environment) regarding agricultural AR is hindered by ambiguous language, complicated by cultural and linguistic differences that can lead to the conclusion that the other participant is not aware of the facts, or has ulterior motives. This work explores and identifies the language and vocabulary of AR in the context of supporting strategic short-and long-term problem solving in a One Health context.

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Antibiotic Resistance in Airborne Bacteria Near Conventional and Organic Beef Cattle Farms in California, USA

Cited by 38 publications

References 52 publications

Tetracycline and Sulfonamide Antibiotic Resistance Genes in Soils From Nebraska Organic Farming Operations

Tetracycline and Sulfonamide Antibiotic Resistance Genes in Soils From Nebraska Organic Farming Operations

Whole genome sequencing analysis of multiple Salmonella serovars provides insights into phylogenetic relatedness, antimicrobial resistance, and virulence markers across humans, food animals and agriculture environmental sources

One Health and Antibiotic Resistance in Agroecosystems

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