Antibiotic resistome in the livestock and aquaculture industries: Status and solutions

Zhao, Yi; Qin, Yang; Zhou, Xue; Wang, Fenghua; Muurinen, Johanna; Virta, Marko; Brandt, Kristian Koefoed; Zhu, Yan

doi:10.1080/10643389.2020.1777815

Cited by 163 publications

(90 citation statements)

References 175 publications

(261 reference statements)

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“…To eliminate diseases and parasitic attacks in the aquaculture industry, different synthetic antibiotics, chemical drugs, vaccines, and chemotherapeutics are being used at high rates from year after year [11,12]. Using of these chemical substances cause mass killing of beneficial aquatic bacteria [13], produce multi-drugs resistant pathogens [14], and leaving residues in fish which can be transmitted to human [15,16]. These problems are the most concerning aquaculture sustainability [17,18], and infectious diseases and parasitic infestation treatment with natural substances/compounds are the demanding sustainable aquaculture features [19].…”

Section: Introductionmentioning

confidence: 99%

Antiparasitic and Antibacterial Functionality of Essential Oils: An Alternative Approach for Sustainable Aquaculture

Dawood

Basuini

Zaineldin³

et al. 2021

Pathogens

143

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Using synthetic antibiotics/chemicals for infectious bacterial pathogens and parasitic disease control causes beneficial microbial killing, produces multi-drug resistant pathogens, and residual antibiotic impacts in humans are the major threats to aquaculture sustainability. Applications of herbal products to combat microbial and parasitic diseases are considered as alternative approaches for sustainable aquaculture. Essential oils (EOs) are the secondary metabolites of medicinal plants that possess bioactive compounds like terpens, terpenoids, phenylpropenes, and isothiocyanates with synergistic relationship among these compounds. The hydrophobic compounds of EOs can penetrate the bacterial and parasitic cells and cause cell deformities and organelles dysfunctions. Dietary supplementation of EOs also modulate growth, immunity, and infectious disease resistance in aquatic organisms. Published research reports also demonstrated EOs effectiveness against Ichthyophthirius multifiliis, Gyrodactylus sp., Euclinostomum heterostomum, and other parasites both in vivo and in vitro. Moreover, different infectious fish pathogenic bacteria like Aeromonas salmonicida, Vibrio harveyi, and Streptococcus agalactiae destruction was confirmed by plant originated EOs. However, no research was conducted to confirm the mechanism of action or pathway identification of EOs to combat aquatic parasites and disease-causing microbes. This review aims to explore the effectiveness of EOs against fish parasites and pathogenic bacteria as an environment-friendly phytotherapeutic in the aquaculture industry. Moreover, research gaps and future approaches to use EOs for sustainable aquaculture practice are also postulated.

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Section: Introductionmentioning

confidence: 99%

Antiparasitic and Antibacterial Functionality of Essential Oils: An Alternative Approach for Sustainable Aquaculture

Dawood

Basuini

Zaineldin³

et al. 2021

Pathogens

143

View full text Add to dashboard Cite

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“…To date, the emergence of AMR bacteria and widespread ARGs has led to serious public health and livestock industry concerns due to potential health risks to humans and animals [ 23 , 24 ]. Furthermore, SBSEC have been reported as one of the most AMR species among streptococci [ 11 ].…”

Section: Discussionmentioning

confidence: 99%

“…Antimicrobials agents (or antibiotics) have been used in the global livestock industry for the prevention and control of diseases, as well as growth promoters however, the emergence of antimicrobial resistance (AMR) and widespread antimicrobial resistance genes (ARGs) have led to serious industrial and public health concerns due to potential health risks to humans and animals [ 23 , 24 ]. Several classes of antimicrobial agents (e.g., tetracyclines, quinolones, aminoglycosides, and macrolides) are widely used in domestic animals and the dissemination of ARGs associated with these antibiotics (e.g., the erm , tetR , and qnr clusters) has been frequently reported from different geographical regions [ 25 , 26 ].…”

Section: Introductionmentioning

confidence: 99%

Diversity and Antimicrobial Resistance in the Streptococcus bovis/Streptococcus equinus Complex (SBSEC) Isolated from Korean Domestic Ruminants

et al. 2021

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S. bovis/S. equinus complex (SBSEC) includes lactic acid-producing bacteria considered as the causative agent associated with acute rumen lactic acidosis in intensive ruminants. Considering the limited information on the detailed characteristics and diversity of SBSEC in Korea and the emergence of antimicrobial resistance (AMR), we investigated the diversity of SBSEC from domestic ruminants and verified the presence of antimicrobial resistance genes (ARGs) against several antimicrobials with their phenotypic resistance. Among 51 SBSEC isolates collected, two SBSEC members (S. equinus and S. lutetiensis) were identified; sodA-based phylogenetic analyses and comparisons of overall genome relatedness revealed potential plasticity and diversity. The AMR rates of these SBSEC against erythromycin, clindamycin, and tetracycline were relatively lower than those of other SBSEC isolates of a clinical origin. An investigation of the ARGs against those antimicrobials indicated that tetracycline resistance of SBSECs generally correlated with the presence of tet(M)-possessing Tn916-like transposon. However, no correlation between the presence of ARGs and phenotypic resistance to erythromycin and clindamycin was observed. Although a limited number of animals and their SBSEC isolates were examined, this study provides insights into the potential intraspecies biodiversity of ruminant-origin SBSEC and the current status on antimicrobial resistance of the bacteria in the Korean livestock industry.

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“…Antibiotic resistance is a serious human and animal health concern, annually resulting in 35,000 deaths in the US [1] and more than 700,000 deaths globally [2]. Agricultural practices, especially the use of antibiotics in livestock, present numerous concerns with respect to their potential to contribute to the evolution and spread of antibiotic resistance [3][4][5][6]. The spread of antibiotic resistance genes (ARGs) to and from pathogens and resident non-pathogenic bacteria via horizontal gene transfer in agricultural environments is of special concern [7,8].…”

Section: Introductionmentioning

confidence: 99%

AgroSeek: a system for computational analysis of environmental metagenomic data and associated metadata

et al. 2021

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Background Metagenomics is gaining attention as a powerful tool for identifying how agricultural management practices influence human and animal health, especially in terms of potential to contribute to the spread of antibiotic resistance. However, the ability to compare the distribution and prevalence of antibiotic resistance genes (ARGs) across multiple studies and environments is currently impossible without a complete re-analysis of published datasets. This challenge must be addressed for metagenomics to realize its potential for helping guide effective policy and practice measures relevant to agricultural ecosystems, for example, identifying critical control points for mitigating the spread of antibiotic resistance. Results Here we introduce AgroSeek, a centralized web-based system that provides computational tools for analysis and comparison of metagenomic data sets tailored specifically to researchers and other users in the agricultural sector interested in tracking and mitigating the spread of ARGs. AgroSeek draws from rich, user-provided metagenomic data and metadata to facilitate analysis, comparison, and prediction in a user-friendly fashion. Further, AgroSeek draws from publicly-contributed data sets to provide a point of comparison and context for data analysis. To incorporate metadata into our analysis and comparison procedures, we provide flexible metadata templates, including user-customized metadata attributes to facilitate data sharing, while maintaining the metadata in a comparable fashion for the broader user community and to support large-scale comparative and predictive analysis. Conclusion AgroSeek provides an easy-to-use tool for environmental metagenomic analysis and comparison, based on both gene annotations and associated metadata, with this initial demonstration focusing on control of antibiotic resistance in agricultural ecosystems. Agroseek creates a space for metagenomic data sharing and collaboration to assist policy makers, stakeholders, and the public in decision-making. AgroSeek is publicly-available at https://agroseek.cs.vt.edu/.

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Antibiotic resistome in the livestock and aquaculture industries: Status and solutions

Cited by 163 publications

References 175 publications

Antiparasitic and Antibacterial Functionality of Essential Oils: An Alternative Approach for Sustainable Aquaculture

Antiparasitic and Antibacterial Functionality of Essential Oils: An Alternative Approach for Sustainable Aquaculture

Diversity and Antimicrobial Resistance in the Streptococcus bovis/Streptococcus equinus Complex (SBSEC) Isolated from Korean Domestic Ruminants

AgroSeek: a system for computational analysis of environmental metagenomic data and associated metadata

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