Detecting antibiotic resistance genes and human potential pathogenic Bacteria in fishmeal by culture-independent method

Improving Aerobic Digestion of Food Waste by Adding a Personalized Microbial Inoculum

In the context of China's garbage classification policy, on-site aerobic food waste (FW) digestion is crucial for reducing transportation and disposal costs. The efficiency of this process is largely determined by the microbial community structure and its functions. Therefore, this study aimed to analyze the impact of a personalized microbial consortium (MCM) on the efficiency of aerobic FW digestion and to reveal the underlying mechanisms. An MCM, sourced from naturally degrading FW, was selected to enrich degrading bacteria with relatively high hydrolyzing ability. The functionality of the MCM was evaluated by tracing the successions of microbial communities, and comparing the differences in the forms of organic compounds, metabolic functions, and hydrolase activities. X-ray photoelectron spectroscopy demonstrated that the MCM metabolized faster, and produced more acidic metabolites. Metagenomic analysis indicated that FW inoculated with the personalized MCM increased abundance of Bacillaceae producing hydrolysis enzymes and promoted glycolysis metabolic pathways, enhancing energy generation for metabolism, compared to the commercial effective bacterial agent. This paper provides both theoretical and practical evidence for the improvement of biochemical processor of FW with the personalized MCM, which has promising application prospects and economic value.

Mariculture waters as yet another hotbed for the creation and transfer of new antibiotic-resistant pathogenome

With the rapid growth of aquaculture globally, large amounts of antibiotics have been used to treat aquatic disease, which may accelerate induction and spread of antibiotic-resistant bacteria (ARB) and antibiotic resistance genes (ARGs) in aquaculture environments. Herein, metagenomic and 16S rRNA analyses were used to analyze the potentials and co-occurrence patterns of pathogenome (culturable and unculturable pathogens), antibiotic resistome (ARGs), and mobilome (mobile genetic elements (MGEs)) from mariculture waters near 5000 km coast of South China. Total 207 species of pathogens were identified, with only 10 culturable species. Furthermore, more pathogen species were detected in mariculture waters than those in coastal waters, and mariculture waters were prone to become reservoirs of unculturable pathogens. In addition, 913 subtypes of 21 ARG types were also identified, with multidrug resistance genes as the majority. MGEs including plasmids, integrons, transposons, and insertion sequences were abundantly present in mariculture waters. The co-occurrence network pattern between pathogenome, antibiotic resistome, and mobilome suggested that most of pathogens may be potential multidrug resistant hosts, possibly due to high frequency of horizontal gene transfer. These findings increase our understanding of mariculture waters as reservoirs of antibiotic resistome and mobilome, and as yet another hotbed for creation and transfer of new antibiotic-resistant pathogenome.

Antimicrobial resistomes in food chain microbiomes

The safety and integrity of the global food system is in a constant state of flux with persistent chemical and microbial risks. While chemical risks are being managed systematically, microbial risks pose extra challenges. Antimicrobial resistant microorganism and persistence of related antibiotic resistance genes (ARGs) in the food chain adds an extra dimension to the management of microbial risks. Because the food chain microbiome is a key interface in the global health system, these microbes can affect health in many ways. In this review, we systematically summarize the distribution of ARGs in foods, describe the potential transmission pathway and transfer mechanism of ARGs from farm to fork, and discuss potential food safety problems and challenges. Modulating antimicrobial resistomes in the food chain facilitates a sustainable global food production system.

The role of feeds in the transmission of chicken pathogens in Dodoma Urban District, Tanzania

Chicken production is an important economic activity in Tanzania. Indigenous chickens are kept in rural areas, while exotic breeds are kept in urban areas. Due to their high productivity, exotic breeds are becoming important sources of protein in fast-growing cities. Dodoma is one of the cities growing very fast in Tanzania. As a result, production of layers and broilers has increased dramatically. However, diseases remain the major challenge to chicken production despite the efforts of livestock officers to educate people on good management practices. This has made farmers think that feeds may be the source of pathogens. The study's objectives were thus to identify the major diseases affecting broiler and layer chickens in the Dodoma urban district, as well as the potential role of feeds in pathogen transmission to chickens. A household survey was conducted to identify common diseases affecting chickens in the study area. Thereafter, locally prepared feed samples were collected from twenty shops available in the district to determine the presence of Salmonella and Eimeria parasites. The presence of Eimeria parasites in the feeds was determined by raising day-old chicks in a sterile environment for 3 wk while feeding them the feed samples collected. Fecal samples from the chicks were analyzed for the presence of Eimeria parasites. Salmonella contamination of the feed samples was determined in the laboratory through the culture method. The study found that coccidiosis, Newcastle disease, fowl typhoid, infectious bursal disease, and colibacillosis are the main diseases affecting chickens in the district. After 3 wk of rearing, 3 out of 15 chicks developed coccidiosis. In addition, about 31.1% of the feed samples showed the presence of Salmonella spp. The prevalence of Salmonella was highest in limestone (53.3%), followed by fishmeal (26.7%), and maize bran (13.3%). It has been concluded that feeds are potential carriers of pathogens. To reduce economic losses and the continuous use of drugs in chicken production, health authorities should assess the microbial quality of poultry feeds.

Apex Predators Enhance Environmental Adaptation but Reduce Community Stability of Bacterioplankton in Crustacean Aquaculture Ponds

Aquaculture environments harbor complex bacterial communities that are critical for the growth and health of culture species. Apex predators are frequently added to aquaculture ponds to improve ecosystem stability. However, limited research has explored the effects of apex predators on the composition and function of bacterioplankton communities, as well as the underlying mechanisms of community assembly. Using 16S ribosomal RNA (rRNA) high-throughput sequencing, we investigated bacterioplankton communities of crustacean aquaculture ponds with and without apex predators (mandarin fish, Siniperca chuatsi) throughout the culture process. In addition to investigating differences in bacterioplankton communities, we also explored variations in environmental adaptation, functional redundancy, and community stability. Significant differences were observed in bacterioplankton composition among different cultural stages; there was an increase in Bacteriobota and fermentation-related bacteria, but a decrease in Firmicutes and pathogens in the middle stages of aquaculture. Apex predators increased the abundance of organic matter degradation bacteria and decreased pathogens. Bacterioplankton communities under apex predator disturbances had a wider environmental breadth, indicating broader environmental adaptation. Moreover, functional prediction and network analyses revealed that communities under apex predator disturbances were less functionally redundant and unstable. Based on the null model, stochastic processes drove community assembly during aquaculture, whereas apex predators elevated the contribution of deterministic processes. Greater changes in nitrate in culture ponds caused by apex predator disturbances were decisive in controlling the balance between stochasticity and determinism in community assembly. Our study provided insight into the mechanisms underlying bacterioplankton community assembly in aquaculture systems in response to apex predator disturbances.

Spatial and temporal effects of fish feed on antibiotic resistance in coastal aquaculture farms

For the first time, both spatial and temporal effects of fish feed on changes in abundance of antibiotic resistance genes (ARGs) were investigated in South Korea via quantifying ARGs and analyzing physicochemical parameters in the influent (IN) and effluent before (BF) and 30 min after (AF) the fish feeding time of sixteen flow-through fish farms. The absolute abundance of ARGs in AF samples was 5 times higher than in BF and 12 times higher than in IN samples. Values of physicochemical parameters such as ammonia, total nitrogen, suspended solids and turbidity in the effluent significantly increased by 21.6, 4.2, 2.6 and 1.65 times, respectively, after fish feeding. Spatially, the fish farms on Jeju Island exhibited higher relative abundance (3.02 × 10^-4 - 6.1 × 10^-2) of ARGs compared to the farms in nearby Jeollanam-do (3.4 × 10^-5 - 8.3 × 10^-3). Seasonally, samples in summer and autumn showed a higher abundance of ARGs than in winter and spring. To assess risk to the food chain as well as public health, further studies are warranted to explore the pathogenic potential of these ARGs.

Antimicrobial Resistance Gene Detection Methods for Bacteria in Animal-Based Foods: A Brief Review of Highlights and Advantages

Antimicrobial resistance is a major public health problem and is mainly due to the indiscriminate use of antimicrobials in human and veterinary medicine. The consumption of animal-based foods can contribute to the transfer of these genes between animal and human bacteria. Resistant and multi-resistant bacteria such as Salmonella spp. and Campylobacter spp. have been detected both in animal-based foods and in production environments such as farms, industries and slaughterhouses. This review aims to compile the techniques for detecting antimicrobial resistance using traditional and molecular methods, highlighting their advantages and disadvantages as well as the effectiveness and confidence of their results.

Comprehensive treatment of marine aquaculture wastewater by a cost-effective flow-through electro-oxidation process

The effective treatment of marine aquaculture wastewater is of great significance to protect marine environment and marine organisms. This study validated the feasibility of the comprehensive removal of NH₄⁺-N, NO₂^--N, COD and P, as well as disinfection and antibiotics removal from marine aquaculture wastewater by electrochemical oxidation (EO), comparing the performance and energy consumption with that by electro-peroxone (EP) and electro-Fenton (EF) process. Due to the formation of more free chlorine, the removal of NH₄⁺-N and COD was in order of EO ≫ EP > EF. A new flow-through EO reactor was adopted, which was found enhanced the formation rate of free chlorine and degradation rate of pollutants, and thus performed better than that of flow-by reactor and batch reactor. By this flow-through EO process, the removal of NH₄⁺-N and NO₂^--N could reach >90% and their concentrations after treatment both meet the Water Drainage Standard for Sea Water Mariculture (SC/T 9103-2007). Meanwhile, the process had a good bactericidal performance with a lg(c/c₀) of -5.6. At the same time, antibiotics such as sulfadimidine (SMT) and norfloxacin (NOR) could be completely removed. The energy consumption was only 0.054 kWh/g NH₄⁺-N (0.27 kWh/m³), which was far more cost-effective than other oxidative processes. The new flow-through EO process has great practical application prospects for the comprehensive removal of multiple pollutants and sterilization from marine aquaculture wastewater.