Variations in bacterial community structure and antimicrobial resistance gene abundance in cattle manure and poultry litter

Gurmessa, Biyensa; Ashworth, Amanda J.; Yang, Yichao; Savin, Mary C.; Moore, P.; Ricke, Steven C.; Corti, Giacomo; Pedretti, Ester Foppa; Cocco, Stefania

doi:10.1016/j.envres.2021.111011

Cited by 28 publications

(25 citation statements)

References 45 publications

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Section: Main Factors Affecting the Change Of Bacterial Community Structurementioning

confidence: 99%

“…Previous studies indicated that changes in microbial community structure arisen in response to the physical and chemical properties of composting (Duan et al, 2019;Gurmessa et al, 2021;Wan et al, 2021). For example, redundancy analysis uncovered strong correlations between bacterial community abundance and manure's physical and chemical properties and composition, with a positive correlation found between EC and C: N, and a negative correlation between total solids and the soluble components of heavy metals (Gurmessa et al, 2021). Another recent study revealed that the composition of both fungal and bacterial communities were significantly influenced by total phosphorus and NH 4 --N contents, indicating that composting's metataxonomy is involved in phosphorus and nitrogen metabolism (Wan et al, 2021).…”

Section: Main Factors Affecting the Change Of Bacterial Community Structurementioning

confidence: 99%

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Ciprofloxacin Causes the Greatest Bacterial Community Variation in Swine Manure Composting

Song¹,

Zhu²,

Li³

et al. 2021

Front. Environ. Sci.

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In this study, the influence of ciprofloxacin, chlorotetracycline, lincomycin, and sulfamethoxazole on the composition of the bacterial community structure was studied during aerobic composting with swine manure. Firmicutes (26.67%) and Chloroflexi (23.33%) were the most widely distributed phyla. Under all antibiotic treatments, the relative abundances of Bacillaceae, Streptosporangiaceae, Limnochordaceae, and Peptostreptococcaceae increased during the composting process. Moreover, norank_SBR1031, Planococcaceae, Thermomonosporaceae, Peptostreptococcaceae, Erysipelotrichaceae, Limnochordaceae, and Clostridiaceae_1 were the families showing the most significant differences across all treatments (p < 0.05). Principal co-ordinates analysis indicated that the family composition in the ciprofloxacin treatment significantly differed from the other treatments. The presence of ciprofloxacin increased both the abundance and diversity of the bacterial community (the Chao index changed from 588.44 to 680.17, and the Shannon index changed from 3.41 to 4.06) in the end of composting. Crocinitomicaceae dominated (relative abundance of 79.10%) among the unique families in the ciprofloxacin treatment. Network analysis indicated that ciprofloxacin altered the synergistic or competitive relationships between different families (norank_SBR1031 and Microscillaceae), leading to different bacterial community composition compared with other treatments. Further, a structural equation model showed that the C:N ratio was significantly negatively correlated with the bacterial community (λ = −0.869, p < 0.01), whereas pH showed a direct, significant positive relationship with the bacterial community (λ = 0.701, p < 0.01), especially in ciprofloxacin treatment. Overall, ciprofloxacin significantly influenced the physical and chemical properties of composting, altered the bacterial community structure. These findings have important implications for a better understanding of the effects of antibiotic types on bacterial community structure and the involved mechanisms during swine manure composting.

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Section: Main Factors Affecting the Change Of Bacterial Community Structurementioning

confidence: 99%

Section: Main Factors Affecting the Change Of Bacterial Community Structurementioning

confidence: 99%

Ciprofloxacin Causes the Greatest Bacterial Community Variation in Swine Manure Composting

Song¹,

Zhu²,

Li³

et al. 2021

Front. Environ. Sci.

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“…The decay rate of sul1, sul2, tetM, and intI1 within the soil was lower for this set of genes whilst ermB and ermF genes exhibited increased dissipation rates. Cattle manure contained a more prominent macrolide ermB and sul1 resistant gene set than the poultry litter (Gurmessa et al, 2021). The observation of the wide distribution of erm genes was linked with erm proteins accountable for the demethylation of singular adenine base from the 23S rRNA, which is a region that encodes targets for lincosamides, macrolides and streptogramins B that explains the wide-spreading resistance potential of that gene.…”

Section: Manure As a Vector Of Antimicrobial Resistancementioning

confidence: 99%

“…First of all, ARG management could focus on eliminating ARGs bearing a low natural reduction potential (e.g., sul1, sul2, intl1, and tetM) prior to the manure being applied to the soils. Changing some of the manure handling practices to the novel manure handling methods can potentially reduce the abundance of ARGs in manure utilized for land treatments (Ruuskanen et al, 2016;Gurmessa et al, 2021). Processes such as extending windrow composting and stockpiling have previously been shown to reduce resistance determinants of erythromycin, tetracycline and sulfamethazine between 0.5 and 3 logs in contrast to original cattle manure levels (Xu et al, 2016).…”

Section: Manure As a Vector Of Antimicrobial Resistancementioning

confidence: 99%

The Fate of Foodborne Pathogens in Manure Treated Soil

et al. 2021

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The aim of this review was to provide an update on the complex relationship between manure application, altered pathogen levels and antibiotic resistance. This is necessary to protect health and improve the sustainability of this major farming practice in agricultural systems based on high levels of manure production. It is important to consider soil health in relation to environment and land management practices in the context of the soil microflora and the introduction of pathogens on the health of the soil microbiome. Viable pathogens in manure spread on agricultural land may be distributed by leaching, surface run-off, water source contamination and contaminated crop removal. Thus it is important to understand how multiple pathogens can persist in manures and on soil at farm-scale and how crops produced under these conditions could be a potential transfer route for zoonotic pathogens. The management of pathogen load within livestock manure is a potential mechanism for the reduction and prevention of outbreaks infection with Escherichia coli, Listeria Salmonella, and Campylobacter. The ability of Campylobacter, E. coli, Listeria and Salmonella to combat environmental stress coupled with their survival on food crops and vegetables post-harvest emphasizes the need for further study of these pathogens along with the emerging pathogen Providencia given its link to disease in the immunocompromised and its’ high levels of antibiotic resistance. The management of pathogen load within livestock manure has been widely recognized as a potential mechanism for the reduction and prevention of outbreaks infection but any studies undertaken should be considered as region specific due to the variable nature of the factors influencing pathogen content and survival in manures and soil. Mediocre soils that require nutrients could be one template for research on manure inputs and their influence on soil health and on pathogen survival on grassland and in food crops.

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“…1). ARGs abundance in poultry litter, however, largely relies on how it has been handled or managed before use (Gurmessa et al, 2021a).…”

Section: Dynamics Of Args During Post-digestate Composting and Co-compostingmentioning

confidence: 99%

Post-digestate composting shifts microbial composition and degrades antimicrobial resistance genes

Gurmessa

Milanović

Pedretti

et al. 2021

Bioresource Technology

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Post-digestate treatments may reduce the risk linked to Antibiotic Resistant Genes (ARGs) release with digestate direct land application. Thus, this study aimed to evaluate post-digestate composting and co-composting with biogas production feedstock (maize silage, food processing waste, and poultry litter) effect on abundance of selected ARGs: erm (B), tet (K), tet (M), tet (O), and tet (S) genes. More than 80% of all ARGs were removed after 90 days of composting but removals from co-composting were lower. Bacteroidetes, Firmicutes, and Proteobacteria dominated fresh digestate, but a network analysis indicated only a few genera were potential hosts of ARGs. Canonical correspondence analysis showed more than 90% variations in ARGs abundance were explained by water extractable trace elements, indicating a strong relationship. The study illustrates the potential of post-digestate composting to mitigate ARGs in the environment.

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Variations in bacterial community structure and antimicrobial resistance gene abundance in cattle manure and poultry litter

Cited by 28 publications

References 45 publications

Ciprofloxacin Causes the Greatest Bacterial Community Variation in Swine Manure Composting

Ciprofloxacin Causes the Greatest Bacterial Community Variation in Swine Manure Composting

The Fate of Foodborne Pathogens in Manure Treated Soil

Post-digestate composting shifts microbial composition and degrades antimicrobial resistance genes

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