Cultivating antimicrobial resistance: how intensive agriculture ploughs the way for antibiotic resistance

Kelbrick, Matthew; Hesse, Elze; O' Brien, Siobhán

doi:10.1099/mic.0.001384

Cited by 3 publications

(1 citation statement)

References 156 publications

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“…An inevitable negative impact of antibiotic use is the emergence and dissemination of drug-resistant bacteria and resistance genes [ 2 ]. Antimicrobial resistance is a serious worldwide problem for both public and animal health [ 5 , 6 ]. Antibiotic resistance has now been escalated by major world health organizations to one of the top health challenges facing the twenty-first century [ 7 ].…”

Section: Introductionmentioning

confidence: 99%

Short-term exposure to antibiotics begets long-term disturbance in gut microbial metabolism and molecular ecological networks

Hong,

Li,

Chen

et al. 2024

Microbiome

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Background Antibiotic exposure can occur in medical settings and from environmental sources. Long-term effects of brief antibiotic exposure in early life are largely unknown. Results Post a short-term treatment by ceftriaxone to C57BL/6 mice in early life, a 14-month observation was performed using 16S rRNA gene-sequencing technique, metabolomics analysis, and metagenomics analysis on the effects of ceftriaxone exposure. Firstly, the results showed that antibiotic pre-treatment significantly disturbed gut microbial α and β diversities (P < 0.05). Both Chao1 indices and Shannon indices manifested recovery trends over time, but they didn’t entirely recover to the baseline of control throughout the experiment. Secondly, antibiotic pre-treatment reduced the complexity of gut molecular ecological networks (MENs). Various network parameters were affected and manifested recovery trends over time with different degrees, such as nodes (P < 0.001, R2 = 0.6563), links (P < 0.01, R2 = 0.4543), number of modules (P = 0.0672, R2 = 0.2523), relative modularity (P = 0.6714, R2 = 0.0155), number of keystones (P = 0.1003, R2 = 0.2090), robustness_random (P = 0.79, R2 = 0.0063), and vulnerability (P = 0.0528, R2 = 0.28). The network parameters didn't entirely recover. Antibiotic exposure obviously reduced the number of key species in gut MENs. Interestingly, new keystones appeared during the recovery process of network complexity. Changes in network stability might be caused by variations in network complexity, which supports the ecological theory that complexity begets stability. Besides, the metabolism profiles of the antibiotic group and control were significantly different. Correlation analysis showed that antibiotic-induced differences in gut microbial metabolism were related to MEN changes. Antibiotic exposure also caused long-term effects on gut microbial functional networks in mice. Conclusions These results suggest that short-term antibiotic exposure in early life will cause long-term negative impacts on gut microbial diversity, MENs, and microbial metabolism. Therefore, great concern should be raised about children’s brief exposure to antibiotics if the results observed in mice are applicable to humans.

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Section: Introductionmentioning

confidence: 99%

Short-term exposure to antibiotics begets long-term disturbance in gut microbial metabolism and molecular ecological networks

Hong,

Li,

Chen

et al. 2024

Microbiome

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Secondary messenger signalling influences Pseudomonas aeruginosa adaptation to sinus and lung environments

Ruhluel,

Fisher,

Barton

et al. 2024

The ISME Journal

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Pseudomonas aeruginosa is a cause of chronic respiratory tract infections in people with cystic fibrosis (CF), non-CF bronchiectasis and chronic obstructive pulmonary disease. Prolonged infection allows accumulation of mutations and horizontal gene transfer, increasing the likelihood of adaptive phenotypic traits. Adaptation is proposed to arise first in bacterial populations colonising upper airway environments. Here, we model this process using an experimental evolution approach. P. aeruginosa PAO1, which is not airway adapted, was serially passaged, separately, in media chemically reflective of upper or lower airway environments. To explore whether the CF environment selects for unique traits, we separately passaged PAO1 in airway-mimicking media with or without CF-specific factors. Our findings demonstrated that all airway environments – sinus and lungs, under CF and non-CF conditions – selected for loss of twitching motility, increased resistance to multiple antibiotic classes and a hyper-biofilm phenotype. These traits conferred increased airway colonisation potential in an in vivo model. CF-like conditions exerted stronger selective pressures, leading to emergence of more pronounced phenotypes. Loss of twitching was associated with mutations in type IV pili genes. Type IV pili mediate surface attachment, twitching and induction of cAMP signalling. We additionally identified multiple evolutionary routes to increased biofilm formation involving regulation of cyclic-di-GMP signalling. These included loss of function mutations in bifA and dipA phosphodiesterase genes and activating mutations in the siaA phosphatase. These data highlight that airway environments select for traits associated with sessile lifestyles and suggest upper airway niches support emergence of phenotypes that promote establishment of lung infection.

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Pantailocins: phage-derived bacteriocins from Pantoea ananatis and Pantoea stewartii subsp. indologenes

Stice,

Jan,

Chen

et al. 2023

Appl Environ Microbiol

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Phage-derived bacteriocins are highly specific and effective antimicrobial molecules, which have successfully been used as prophylactic treatments to prevent phytopathogen infections. Given the specificity of tailocins, a necessary step for broadening the tailocin catalog and for extending applicability across systems and diseases is the screening of new clades of phytopathogens for the production of molecules with tailocin-like killing activity. Here, we describe the production by and sensitivity of strains to tailocins produced by Pantoea ananatis and Pantoea stewartii subsp. indologenes . Phylogenetic evidence suggests that these tailocins are derived from Myoviridae family phage like many previously described R-type tailocins but also suggests that cooption from phage occurred independently of previously described tailocins. Since these tailocin encoding loci are present in the same genomic locations across multiple strains of both species and display a level of divergence that is consistent with other shared regions between the genomes and with vertical inheritance of the locus, we refer to them broadly as “Pantailocins.” IMPORTANCE Phage-derived bacteriocins (tailocins) are ribosomally synthesized structures produced by bacteria in order to provide advantages against competing strains under natural conditions. Tailocins are highly specific in their target range and have proven to be effective for the prevention and/or treatment of bacterial diseases under clinical and agricultural settings. We describe the discovery and characterization of a new tailocin locus encoded within genomes of Pantoea ananatis and Pantoea stewartii subsp. indologenes , which may enable the development of tailocins as preventative treatments against phytopathogenic infection by these species.

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Cultivating antimicrobial resistance: how intensive agriculture ploughs the way for antibiotic resistance

Cited by 3 publications

References 156 publications

Short-term exposure to antibiotics begets long-term disturbance in gut microbial metabolism and molecular ecological networks

Short-term exposure to antibiotics begets long-term disturbance in gut microbial metabolism and molecular ecological networks

Secondary messenger signalling influences Pseudomonas aeruginosa adaptation to sinus and lung environments

Pantailocins: phage-derived bacteriocins from Pantoea ananatis and Pantoea stewartii subsp. indologenes

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