Isolation and identification of caffeine-degrading bacteria from coffee plantation area

Microbial metabolism of caffeine and potential applications in bioremediation

With increasing global consumption of caffeine-rich products, such as coffee, tea, and energy drinks, there is also an increase in urban and processing waste full of residual caffeine with limited disposal options. This waste caffeine has been found to leach into the surrounding environment where it poses a threat to microorganisms, insects, small animals, and entire ecosystems. Growing interest in harnessing this environmental contaminant has led to the discovery of 79 bacterial strains, eight yeast strains, and 32 fungal strains capable of metabolizing caffeine by N-demethylation and/or C-8 oxidation. Recently observed promiscuity of caffeine-degrading enzymes in vivo has opened up the possibility of engineering bacterial strains capable of producing a wide variety of caffeine derivatives from a renewable resource. These engineered strains can be used to reduce the negative environmental impact of leached caffeine-rich waste through bioremediation efforts supplemented by our increasing understanding of new techniques such as cell immobilization. Here, we compile all of the known caffeine-degrading microbial strains, discuss their metabolism and related enzymology, and investigate their potential application in bioremediation.

Continuous removal of caffeine in a horizontal-flow anaerobic immobilized biomass bioreactor: identification of transformation products

Anaerobic bioreactors are an efficient technology for the biodegradation of emerging contaminants in environmental matrices. In this work, a horizontal-flow anaerobic immobilized biomass (HAIB) bioreactor was used to remove caffeine (CAF), which is frequently found in various aqueous matrices. The acrylic bench top bioreactor, with dimensions of 100 × 5.00 cm, was operated with a hydraulic retention time (HRT) of 12 h, during 45 weeks, under mesophilic conditions. The operation was performed in 4 phases: without CAF addition (phase I); CAF spiked at 300 μg L-1 (phase II); CAF at 600 μg L-1 (phase III); and CAF at 900 μg L-1 (phase IV). Samples of bioreactor influent and effluent were analyzed by liquid chromatography/tandem mass spectrometry (LC-MS/MS). The bioreactor removed organic matter (OM) and CAF with efficiencies of 88 and 93%, respectively. The first-order apparent removal constant (Kapp) values for OM and CAF were 0.419 and 0.304 h-1, respectively. Five transformation products (TPs) were identified, with m/z 243, 227, 211, and 181 (two products). The HAIB bioreactor is a suitable system for the removal of CAF present in wastewater, even at a concentration level of µg L-1.

Hydrolyzed urine for enhanced valorization and toxicant degradation of wet coffee processing wastes: Implications for soil contamination and health risk reductions

Coffee pulp (CP) and wastewater, from wet coffee processing plants, pollute water and soil ecosystems unless a greener management system is employed. The aim was to evaluate the effect of hydrolyzed human urine (HU) on the dynamics of total phenol, caffeine, and heavy metals during CP and coffee processing wastewater (CPWW) co-composting. The associated health risks reduction after application for cabbage production was also estimated. For the purpose, five treatments were prepared as C₀ (CP, control), C₁ (CP + CPWW), C₂ (CP + 1:1 CPWW:HU), C₃ (CP + 1:2 CPWW:HU) and C₄ (CP + 1:3 CPWW:HU). The optimum compost was applied for cabbage cultivation in comparison with mineral fertilizer and without fertilization in a greenhouse. The total phenol reduction was in the order of C₁ (77.71%) < C₀ (78.66%) < C₄ (79.89%) < C₃ (91.20%) < C₂ (91.48%), and maximum significant reduction of caffeine was also observed in C₃ (81.34%) and C₂ (82.66%). Pb and Cd were significantly reduced in C₂, and Cr in C₃ with a reduction of 4.38-15.13%, 12.50-33.00%, and 2.94-19.57%, respectively. The bio-concentration factor decreased in the order of Cd > Cr > Ni > Pb with concentrations, hazard quotient, hazard index (along with phenol) < 1, and cancer risk values below 1.00E-04, indicating very little risk. Thus, supplementing HU enhanced degradation of the anti-nutrient factors, and provide compost that enrich soil nutrients with little health risks of application.

Coffee Consumption Modulates Amoxicillin-Induced Dysbiosis in the Murine Gut Microbiome

The microbiome is essential for host health, and perturbations resulting from antibiotic use can lead to dysbiosis and disease. Diet can be a powerful modulator of microbiome composition and function, with the potential to mitigate the negative effects of antibiotic use. Thus, it is necessary to study the impacts of diet and drug interactions on the gut microbiome. Coffee is a commonly consumed beverage containing many compounds that have the potential to affect the microbiome, including caffeine, polyphenols, and fiber. We supplemented mice with caffeinated and decaffeinated coffee in conjunction with amoxicillin, and used 16S rRNA amplicon sequencing of fecal samples to investigate changes in diversity and composition of the murine fecal microbiome. We found that antibiotics, regardless of coffee supplementation, caused significant disruption to the murine fecal microbiome, enriching for Proteobacteria, Verrucomicrobia, and Bacteroidetes, but reducing Firmicutes. While we found that coffee alone did not have a significant impact on the composition of the fecal microbiome, coffee supplementation did significantly affect relative abundance metrics in mice treated with amoxicillin. After caffeinated coffee supplementation, mice treated with amoxicillin showed a smaller increase in Proteobacteria, specifically of the family Burkholderiaceae. Correspondingly we found that in vitro, Burkholderia cepacia was highly resistant to amoxicillin, and that it was inhibited by concentrations of caffeine and caffeinated coffee comparable to levels of caffeine in murine ceca. Overall, this work shows that coffee, and possibly the caffeine component, can impact both the microbiome and microbiome members during antibiotic exposure.

Microbial community in biofilters for water reuse applications: A critical review

The combination of ozonation (O₃) and biofiltration processes has become practical and desirable in advanced water reclamation for water reuse applications. However, the role of microbial community and its characteristics (source, abundance, composition, viability, structure) on treatment performance has not received the same attention in water reclamation biofilters as in other applications, such as in drinking water biofilters. Microbial community characterization of biofilters used in water reuse applications will add evidence to better understand the potential microorganisms, consequent risks, and mechanisms that will populate drinking water sources and ultimately influence public health and the environment. This critical review provides insights into O₃-biofiltration as a treatment barrier with a focus on development, structure, and composition of the microbial community characteristics involved in the process. The effect of microorganism seeding by the influent before and after the biofilter and ozone oxidation effects are explored to capture the microbial ecology interactions and environmental factors affecting the media ecosystem. The findings of reviewed studies concurred in identifying Proteobacteria as the most dominant phylum. However, Proteobacteria and other phyla relative abundance differ substantially depending upon environmental factors (e.g., pH, temperature, nutrients availability, among others) gradients. In general, we found significant gaps to relate and explain the biodegradation performance and metabolic processes within the biofilter, and hence deserve future attention. We highlighted and identified key challenges and future research ideas to assure O₃-biofiltration reliability as a promising barrier in advanced water treatment applications.