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PubMed2024

Dynamics of antibiotic resistance genes during manure composting: Reduction in herbivores manure and accumulation in carnivores.

The elevated levels of antibiotic resistance genes (ARGs) in livestock manure represent a significant threat to both the environment and human health. Composting has been recognized as an effective strategy to mitigate the abundance of ARGs in manure. However, notable rebounds in ARGs abundance have been observed during this process. This study explored the changes in ARGs abundance and the underlying influencing factors during the composting of carnivore (chicken and pig) and herbivore (sheep and cow) manures, along with mushroom residues. The findings revealed that the total relative abundance of ARGs increased by 6.96 and 10.94 folds in chicken and pig manure composts, respectively, whereas it decreased by a remarkable 91.72% and 98.37% in sheep and cow manure composts. Nitrogen content emerged as the primary physicochemical factors governing the abundance of ARGs in chicken and pig manure composts. Conversely, carbon content played a pivotal role in determining ARGs abundance in chicken and pig manure composts. Furthermore, the presence of dominant hosts, such as Corynebacterium, Bacillus, and Clostridium, along with emerging bacteria like Thermobifida, Saccharomonospora, and Actinomadura, contributed significantly to the enrichment of total ARGs, including tetG, tetO, tetX, and sul2, in chicken and pig manure composts. The coexistence of these genes with mobile genetic elements and a plethora of host bacteria, coupled with their high abundance, renders them particularly high-risk ARGs. On the other hand, the observed decrease in the abundance of total ARGs in sheep and cow manure composts can be attributed to the decline in the population of host bacteria, specifically Atopostipes, Psychrobacter, and Corynebacterium. Collectively, these results provide crucial insights into the management of ARGs risks and offer essential theoretical support for enhancing the safe utilization of organic fertilizer in agriculture.

Manure↗
PubMed2025

Quorum sensing in Saccharomyces cerevisiae brewing strains: effects of 2-phenylethanol on proteomic, lipidomic, and metabolomic profile.

Quorum sensing (QS) is a known mechanism by which microbial populations adjust gene expression and coordinate community-wide social behaviors based on the proximate population density. This regulatory system has garnered significant interest in both scientific research and the food industry. However, a central question remains whether industrial strains of Saccharomyces cerevisiae, the yeast species predominantly utilized in brewing, employ quorum signalling mechanisms similar to those observed in laboratory strains and other fungi. Despite the potential relevance of microbial social behavior regulators to brewing practices, studies examining QS in Saccharomyces spp. are limited. In this investigation, three industrial brewing strains of S. cerevisiae were cultivated on SLAD (nitrogen-restrictive) and SHAD (nitrogen-sufficient) agar media supplemented with 200 μM of the aromatic alcohol 2-phenylethanol (2-PE) over 72 h at 24°C. Subsequent analyses of the harvested biomass included proteomic, lipidomic, and metabolomic assessments. Results indicated that two of the industrial strains showed minimal differences in their profiles upon exposure to 2-PE, while the third strain exhibited significant differences. These findings imply that the impact of the QS molecule 2-PE on the proteome, lipidome, and metabolome of industrial S. cerevisiae may be strain-specific rather than universally applicable to the species.

Quorum Sensing↗
PubMed1999

Effect of phenylurea herbicides on soil microbial communities estimated by analysis of 16S rRNA gene fingerprints and community-level physiological profiles.

The effect of three phenyl urea herbicides (diuron, linuron, and chlorotoluron) on soil microbial communities was studied by using soil samples with a 10-year history of treatment. Denaturing gradient gel electrophoresis (DGGE) was used for the analysis of 16S rRNA genes (16S rDNA). The degree of similarity between the 16S rDNA profiles of the communities was quantified by numerically analysing the DGGE band patterns. Similarity dendrograms showed that the microbial community structures of the herbicide-treated and nontreated soils were significantly different. Moreover, the bacterial diversity seemed to decrease in soils treated with urea herbicides, and sequence determination of several DGGE fragments showed that the most affected species in the soils treated with diuron and linuron belonged to an uncultivated bacterial group. As well as the 16S rDNA fingerprints, the substrate utilization patterns of the microbial communities were compared. Principal-component analysis performed on BIOLOG data showed that the functional abilities of the soil microbial communities were altered by the application of the herbicides. In addition, enrichment cultures of the different soils in medium with the urea herbicides as the sole carbon and nitrogen source showed that there was no difference between treated and nontreated soil in the rate of transformation of diuron and chlorotoluron but that there was a strong difference in the case of linuron. In the enrichment cultures with linuron-treated soil, linuron disappeared completely after 1 week whereas no significant transformation was observed in cultures inoculated with nontreated soil even after 4 weeks. In conclusion, this study showed that both the structure and metabolic potential of soil microbial communities were clearly affected by a long-term application of urea herbicides.

Bacteria↗
PubMed1995

Nutritional toxicology of tannins and related polyphenols in forage legumes.

Proanthocyanidins (PA) (condensed tannins) and hydrolyzable tannins (HT) are the two major classes of tannins. Proanthocyanidins are flavonoid polymers. Hydrolyzable tannins are polymers of gallic or ellagic acid esterified to a core molecule, commonly glucose or a polyphenol such as catechin. Proanthocyanidins are the most common type of tannin found in forage legumes. Problems in the analysis of tannins are that sample processing and drying decrease extraction and reactivity, suitable standards are unavailable, and quantitative analytical methods are poorly correlated with enzyme inhibition, protein precipitation, and nutritional effects. Hydrolyzable tannins are potentially toxic to ruminants. Pyrogallol, a hepatotoxin and nephrotoxin, is a product of HT degradation by ruminal microbes. Proanthocyanidins are considered to be non-toxic because they are not absorbed, but they are associated with lesions of the gut mucosa. Research on tannins in forage legumes has determined their effects on protein digestion and metabolism but more research on tannin structure in relation to digestion of specific proteins is needed. The widely accepted explanation for positive effects of PA on protein digestion and metabolism is that PA-protein complexes escape ruminal degradation and the protein is available in the lower tract. This proposed mechanism may be incorrect because PA also complex carbohydrates, endogenous proteins, and microbial products and the degradability of PA-protein complexes by ruminal microbes has not been adequately studied. Several alternative hypotheses (to escape protein) that explain the effect of PA on protein digestion and metabolism in ruminants are also consistent with experimental results on forage legumes. These include increased microbial protein synthesis, increased use of endogenous nitrogen in the rumen, and increased secretion of salivary glycoproteins. Research on manipulating the content and type of PA in forage legumes is justified because they are associated with non-bloating legumes, lower soluble non-protein nitrogen in silage, and improved efficiency of protein utilization. Research on the biosynthesis, molecular genetics, and cell biology of PA in forage legumes needs to be integrated with research on toxicology and nutrition.

Animal Feed↗
PubMed2005

Exo-enzymatic activities and dissolved organic pools in relation with mucilage development in the Northern Adriatic Sea.

We tested the hypothesis that the appearance of mucilage in the Northern Adriatic Sea was related with the accumulation of dissolved organic compounds released by intensive enzymatic activities and not utilized as direct substrate for microbial growth. To do this enzymatic activities and dissolved organic and inorganic pools in periods characterized by the presence of mucilage and in the same seasons but in absence of mucilage were compared. Extracellular enzymatic activities (aminopeptidase, beta-glucosidase and alkaline phosphatase), nutrient pool concentrations (total dissolved nitrogen, dissolved organic nitrogen, total dissolved phosphorus, dissolved organic phosphorus) and the biochemical composition of particulate and dissolved organic matter (in terms of proteins and carbohydrates) were determined on a monthly basis over a period of 3 years. Aminopeptidase and alkaline phosphatase activities displayed higher values in springs preceding the appearance of mucilage than in spring when no mucilage was observed. Beta-Glucosidase activity showed significantly higher values in summer periods characterized by the massive production of mucilage than in summers without mucilage events. The months preceding mucilage events were also characterized by an increase of the alkaline phosphatase to aminopeptidase activity ratio and by a significant accumulation of dissolved proteins. These findings, together with the significant increase of the DON/DOP ratio, suggest that mucilage formation is favoured by the deficiency of organic P. The present study provides compelling evidences that mucilage formation is favoured by the unbalance between organic matter mobilization by enzymatic activities and the accumulation of labile dissolved organic-N compounds.

Alkaline Phosphatase↗
PubMed2002

Anaerobic degradation of pyrrolidine and piperidine coupled with nitrate reduction.

Biodegradability of secondary amines (pyrrolidine, piperidine, piperazine, morpholine, and thiomorpholine) under anaerobic conditions was examined in microbial consortia from six different environmental sites. The consortia degraded pyrrolidine and piperidine under denitrifying conditions. Enrichment cultures were established by repeatedly sub-culturing the consortia on pyrrolidine or piperidine in the presence of nitrate. The enrichments strictly required nitrate for the anaerobic degradation and utilized pyrrolidine or piperidine as a carbon, nitrogen, and energy source for their anaerobic growths. The anaerobic degradation of pyrrolidine and piperidine reduced nitrate to nitrogen gas, indicating that these anaerobic degradations were coupled with a respiratory nitrate reduction.

Bacteria, Anaerobic↗
PubMed1995

Impact of carbon and flooding on the metabolic diversity of microbial communities in soils.

The assumption that carbon and soil water content are major determinants of microbial community structure and function is rarely questioned because of substantial evidence of the impacts of these variables on specific populations and functions. The significance of carbon and water for metabolic diversity at the microbial community level was tested on the field scale in agricultural plots varying in carbon inputs and in whether they were flooded. Surface soils in which rice straw was incorporated or burned and which were flooded or unflooded were sampled at monthly intervals three times during the flooded winter period (January to March) and again 1 month postdraining. Biomass carbon and nitrogen were not affected by treatments, active bacterial counts showed slight increases, and respiration rates were increased by carbon inputs and flooding. Biolog microplates were inoculated with soil extracts to quantify the metabolic diversity of the soil microbial community. Canonical correspondence analysis and the Monte Carlo permutation testing showed that differences in substrate utilization patterns were significantly related (P < 0.001) to carbon and flooding treatments. Biolog substrates whose metabolism was altered by the treatments were consistent across dates and tended to be positively related (utilization enhancement) to carbon inputs and negatively related to winter flooding. The importance of carbon as an environmental variable increased over time after straw treatment, whereas the importance of water became evident after flooding and decreased after drainage. The effect of long-term rice straw incorporation on substrate utilization patterns at another field site was consistent with these results despite the dissimilarities of the two soils.

Journal Article↗
PubMed2002

Nutrition in terrestrial isopods (Isopoda: Oniscidea): an evolutionary-ecological approach.

The nutritional morphology, physiology and ecology of terrestrial isopods (Isopoda: Oniscidea) is significant in two respects. (1) Most oniscid isopods are truly terrestrial in terms of being totally independent of the aquatic environment. Thus, they have evolved adaptations to terrestrial food sources. (2) In many terrestrial ecosystems, isopods play an important role in decomposition processes through mechanical and chemical breakdown of plant litter and by enhancing microbial activity. While the latter aspect of nutrition is discussed only briefly in this review, I focus on the evolutionary ecology of feeding in terrestrial isopods. Due to their possessing chewing mouthparts, leaf litter is comminuted prior to being ingested, facilitating both enzymatic degradation during gut passage and microbial colonization of egested faeces. Digestion of food through endogenous enzymes produced in the caeca of the midgut glands (hepatopancreas) and through microbial enzymes, either ingested along with microbially colonized food or secreted by microbial endosymbionts, mainly takes place in the anterior part of the hindgut. Digestive processes include the activity of carbohydrases, proteases, dehydrogenases, esterases, lipases, arylamidases and oxidases, as well as the nutritional utilization of microbial cells. Absorption of nutrients is brought about by the hepatopancreas and/or the hindgut epithelium, the latter being also involved in osmoregulation and water balance. Minerals and metal cations are effectively extracted from the food, while overall assimilation efficiencies may be low. Heavy metals are stored in special organelles of the hepatopancreatic tissue. Nitrogenous waste products are excreted via ammonia in its gaseous form, with only little egested along with the faeces. Nonetheless, faeces are characterized by high nitrogen content and provide a favourable substrate for microbial colonization and growth. The presence of a dense microbial population on faecal material is one reason for the coprophagous behaviour of terrestrial isopods. For the same reason, terrestrial isopods prefer feeding on decaying rather than fresh leaf litter, the former also being more palatable and easier to digest. Acceptable food sources are detected through distance and contact chemoreceptors. The 'quality' of the food source determines individual growth, fecundity and mortality, and thus maintenance at the population level. Due to their physiological adaptations to feeding on and digesting leaf litter, terrestrial isopods contribute strongly to nutrient recycling during decomposition processes. Yet, many of these adaptations are still not well understood.

Adaptation, Physiological↗
PubMed2003

Reducing environmental pollution using animal feed enzymes.

The global livestock population is estimated to be close to 4 billion animals, and to produce around 500 million tons of manure annually (Baidoo, 2003). This is expected to increase in the future with the projected greater demand for meat for human consumption. The problem of manure disposal is exacerbated by the concentration of animal production in increasingly large units, to obtain economies of scale and keep up with the demand for cheap food. The primary environmentalfactors are manure volume, manure nitrogen and phosphorus contents, methane production and odour (Jongbloed and Lenis, 1998). Legislation in many regions now restricts the amount of manure that can be applied per hectare, to prevent environmental pollution (Centner, 2001; Pellini and Morris, 2001). There are a number of strategies the animal production industry can take to reduce environmental impact. These include taking steps to improve the efficiency of conversion of feed into edible products, reduce feed wastage and formulate diets that more closely satisfy animal requirements for specific nutrients. At present 50-80% of the nitrogen and phosphorus fed to animals are not utilized but are excreted via manure and urine to the environment (Baidoo, 2003). Biotechnology could play a very important role in reducing the environmental impact of animal production. Examples include the development of animals more efficient at converting nutrients into edible products, and of higher quality, more digestible feedstuffs. Biotechnology can also be used to produce a range of feed additives that can improve the efficiency of animal production, including for example recombinant somatrophin, amino acids and enzymes. This paper summarizes a series of four experiments looking at the effects of microbial xylanase or phytase supplementation on excretion in swine and poultry. This summary indicates that the inclusion of these enzymes in animal feeds can reduce manure volume by up to 14%, and nitrogen and phosphorus outputs by up to 13% and 70%, respectively.

6-Phytase↗
PubMed1993

Effect of source of supplemental nitrogen on the utilization of citrus pulp-based diets by sheep.

Two trials were conducted to examine the influence of N enrichment of dried citrus pulp (DCP) through ammoniation vs urea supplementation on digestion and feeding value of a DCP-based diet for sheep. Treatments were 1) ammoniation of DCP with urea (CP-U), 2) ammoniation with ammonium hydroxide (CP-A), 3) supplementation with urea, and 4) supplementation with horse bean (HB). Diets were isonitrogenous (1.8% N). In Trial 1, treatment effects on characteristics of digestion were evaluated in a 4 x 4 Latin square experiment using four rams. Source of supplemental nonprotein N (NPN) did not influence (P > .10) ruminal OM digestion. Net microbial N synthesis, N absorption, N retention, and microbial efficiency were greater (P < .05) for the CP-U than for the CP-A or urea diets. Apparent N digestibility of CP-A was 14 to 25% lower (P < .05) than that of the other diets supplemented with NPN. In Trial 2, treatment effects on lamb growth performance were evaluated in a 105-d growing-finishing trial involving 32 Sardi lambs (19 kg). Intake was similar (P > .10) across treatments (1.13 kg of DM/d). Daily gain of the urea-fed lambs (182 g) was higher (P < .05) than that of CP-U- or CP-A-fed lambs (138 g). Feed efficiency and dietary NE values were similar (P > .10) among diets containing NPN. Growth performance seemed to be more directly affected by intake, rather than N economy. Enrichment of DCP through ammoniation with urea was a superior method of NPN supplementation with respect to efficiency of N utilization. However, the ultimate response to the potential benefits of such treatment may be seen only if N is truly limiting performance.

Ammonia↗
PubMed2004

Implementation of the Anammox process for improved nitrogen removal.

Stringent standards for nitrogen discharge necessitate the implementation of new systems for the sustainable removal of ammonium from wastewater. One of such systems is based on the process of anaerobic ammonium oxidation (Anammox), which is a new powerful tool especially for strong nitrogenous wastewaters. In this study, the Anammox process performance was tested with synthetic wastewater in a completely stirred tank reactor (CSTR). The reactor was operated for 511 days and fed with increasing amounts of ammonium and nitrite. In this period, an increase of ammonium and nitrite utilization rates were observed as a result of the increase of nitrogen loads in the influent. After 272 days, about 60% of the biomass was removed from the reactor and the system was restarted. Throughout 511 days 90% of the ammonium and more than 99% of the nitrite were converted mainly to dinitrogen (N2) and nitrate. The microbial community in the reactor was characterized with Fluorescence in situ Hybridization (FISH). The study showed that the population in the reactor was dominated by the deep-branching planctomycete Candidatus "Brocadia anammoxidans" strain Dokhaven 2.

Bacteria, Anaerobic↗
PubMed1996

Degradation of pentaerythritol tetranitrate by Enterobacter cloacae PB2.

A mixed microbial culture capable of metabolizing the explosive pentaerythritol tetranitrate (PETN) was obtained from soil enrichments under aerobic and nitrogen-limiting conditions. A strain of Enterobacter cloacae, designated PB2, was isolated from this culture and was found to use PETN as a sole source of nitrogen for growth. Growth yields suggested that 2 to 3 mol of nitrogen was utilized per mol of PETN. The metabolites pentaerythritol dinitrate, 3-hydroxy-2,2-bis-[(nitrooxy)methyl]propanal, and 2,2-bis-[(nitrooxy)methyl]-propanedial were identified by mass spectrometry and 1H-nuclear magnetic resonance. An NADPH-dependent PETN reductase was isolated from cell extracts and shown to liberate nitrite from PETN, producing pentaerythritol tri- and dinitrates which were identified by mass spectrometry. PETN reductase was purified to apparent homogeneity by ion-exchange and affinity chromatography. The purified enzyme was found to be a monomeric flavoprotein with a M(r) of approximately 40,000, binding flavin mononucleotide noncovalently.

Aerobiosis↗
PubMed1993

[Effect of the addition of tropical fruits--pineapple (Ananas comosus) and papaya (Carica papaya)--on the production of biological silage from fish].

Microbial Fish Silage was produced from under-utilized fish mixed with juice and waste fruits (pineapple and papaya) at 35 degrees C. Six different products were elaborated as following: A: fish muscle with pineapple juice; B: fish muscle with fruit wastes; C: gutted fish with pineapple juice; D: gutted fish with fruit wastes; E: whole fish with pineapple juice; F: whole fish with fruit wastes. Process development was evaluated by measuring: pH, acidity, non-protein nitrogen, consistency and exudate liquid. Results indicated a slow decrease in pH value and production of acidity during 20 storage days. The addition of fruits to silage did not have any effect on these values. Silage liquefaction or hydrolysis was related to the following parameters: consistency, non-protein nitrogen and exudate liquid. The addition of fruits was related to silage liquefaction or hydrolysis, and it was measured by the consistency. Exudate liquid and non-protein nitrogen increased during storage time. However silage made from whole fish showed highest values in those parameters than other processing conditions. This results suggested that hydrolysis involve first enzymes from guts and second enzymes from muscle and head. Pineapple juice did not contribute to hydrolysis process. Mainly sensory changes in the silage occurs during first 24 hours and they were related to chemical changes. Proximal analysis did not change during silage process and microbial counts indicated the freshness of raw material used i this study.

Animals↗
PubMed1988

Biodegradation of nitriles in shale oil.

Enrichment cultures were obtained, after prolonged incubation on a shale oil as the sole source of nitrogen, that selectively degraded nitriles. Capillary gas chromatographic analyses showed that the mixed microbial populations in the enrichments degraded the homologous series of aliphatic nitriles but not the aliphatic hydrocarbons, aromatic hydrocarbons, or heterocyclic-nitrogen compounds found in this oil. Time course studies showed that lighter nitriles were removed more rapidly than higher-molecular-weight nitriles. A Pseudomonas fluorescens strain isolated from an enrichment, which was able to completely utilize the individual nitriles undecyl cyanide and undecanenitrile as sole sources of carbon and nitrogen, was unable to attack stearonitrile when provided alone as the growth substrate. A P. aeruginosa strain, also isolated from one of the enrichments, used nitriles but not aliphatic or aromatic hydrocarbons when the oil was used as a sole nitrogen source. However, when the shale oil was used as the sole source of carbon, aliphatic hydrocarbons in addition to nitriles were degraded but aromatic hydrocarbons were still not attacked by this P. aeruginosa strain.

Journal Article↗
PubMed1970

Relationship between rumen ammonia levels and the microbial population and volatile fatty acid proportions in faunated and defaunated sheep.

Cheviot wethers were defaunated by using dioctyl sodium sulfosuccinate and were constantly infused with urea to provide 2.87% of the daily N intake. Defaunation resulted in higher rumen dry matter and lower rumen pH. The molar per cent propionate was higher in defaunated sheep, whereas the molar per cent butyrate and acetate was lower. Apparent nitrogen digestibility, nitrogen utilization, and nitrogen balance were higher in defaunated sheep when compared with faunated animals. Urea infusion resulted in lower apparent nitrogen digestibility, nitrogen utilization, and nitrogen balance in faunated sheep, but did not affect nitrogen metabolism in defaunated sheep. Rumen ammonia-N levels in defaunated sheep were lower than those observed for faunated animals, and urea infusion into faunated sheep increased rumen ammonia-N levels to a greater extent than did the urea infusion into defaunated animals. Significant correlations were demonstrated between rumen ammonia-N levels and C(2)/C(3), C(3)/C(4) and C(2)/C(4) volatile acid ratios. From this it was concluded that, as rumen ammonia-N levels increased, there was a shift from propionate to higher proportions of butyrate and acetate.

Acetates↗
PubMed2000

Digestive performance and digesta passage in the omnivorous greater bilby, Macrotis lagotis (Marsupialia: Peramelidae).

Omnivores such as the greater bilby (Macrotis lagotis) consume a variety of dietary items and often are faced with large changes in the nutrient composition of their food. This paper explores the basis for the dietary flexibility of the bilby by comparing digestive performance and digesta retention patterns of captive bilbies fed either an insect diet (mealworm larvae) or a plant diet (mixed seeds). Mean retention times (MRTs) of particle and solute markers in the gastrointestinal tract did not differ significantly between the two diets, but MRT of the particle marker was significantly longer than that of the solute marker on both the mealworm (particle: 23.5 h; solute: 17.9 h) and mixed seed (particle 33.0 h; solute: 30.2 h) diets. Lack of selective retention of solutes and small particles in the bilby gastrointestinal tract probably restricts them to relatively low-fibre diets, such as those based on seeds rather than leaves and stems of plants. It was observed radiographically that the major sites of digesta retention were the caecum, proximal colon and distal colon, and thus the hindgut is probably the principal site of microbial fermentation. The mealworms were more digestible than the mixed seeds, but digestible energy intake (mealworm: 939 kJ x kg(-0.75) x d(-1); mixed seed: 629 kJ x kg(-0.75) x d(-1)) was high enough for maintenance of body mass and positive nitrogen balance on both diets. Thus, although bilbies may be limited in their ability to utilize high-fibre diets by a lack of selective retention of solutes and small particles in their hindgut, their digestive strategy is flexible enough to accommodate at least some diets of both animal and plant origin. Such a strategy should benefit an animal inhabiting environments in which food resources are unpredictable in their relative abundance.

Animal Nutritional Physiological Phenomena↗