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Antibiotics are used in animal livestock production for therapeutic treatment of disease and at subtherapeutic levels for growth promotion and improvement of feed efficiency. It is estimated that approximately 75% of antibiotics are not absorbed by animals and are excreted in waste. Antibiotic resistance selection occurs among gastrointestinal bacteria, which are also excreted in manure and stored in waste holding systems. Land application of animal waste is a common disposal method used in the United States and is a means for environmental entry of both antibiotics and genetic resistance determinants. Concerns for bacterial resistance gene selection and dissemination of resistance genes have prompted interest about the concentrations and biological activity of drug residues and break-down metabolites, and their fate and transport. Fecal bacteria can survive for weeks to months in the environment, depending on species and temperature, however, genetic elements can persist regardless of cell viability. Phylogenetic analyses indicate antibiotic resistance genes have evolved, although some genes have been maintained in bacteria before the modern antibiotic era. Quantitative measurements of drug residues and levels of resistance genes are needed, in addition to understanding the environmental mechanisms of genetic selection, gene acquisition, and the spatiotemporal dynamics of these resistance genes and their bacterial hosts. This review article discusses an accumulation of findings that address aspects of the fate, transport, and persistence of antibiotics and antibiotic resistance genes in natural environments, with emphasis on mechanisms pertaining to soil environments following land application of animal waste effluent.

RNA methylase genes are common antibiotic resistance determinants for multiple drugs of the macrolide, lincosamide, and streptogramin B (MLS B ) families. We used molecular methods to investigate the diversity, distribution, and abundance of MLS B methylases in waste lagoons and groundwater wells at two swine farms with a history of tylosin (a macrolide antibiotic structurally related to erythromycin) and tetracycline usage. Phylogenetic analysis guided primer design for quantification of MLS B resistance genes found in tylosin-producing Streptomyces (tlr(B), tlr(D)) and commensal/pathogenic bacteria (erm(A), erm(B), erm(C), erm(F), erm(G), erm(Q)). The near absence of tlr genes at these sites suggested a lack of native antibiotic-producing organisms. The gene combination erm(ABCF) was found in all lagoon samples analyzed. These four genes were also detected with high frequency in wells previously found to be contaminated by lagoon leakage. A weak correlation was found between the distribution of erm genes and previously reported patterns of tetracycline resistance determinants, suggesting that dissemination of these genes into the environment is not necessarily linked. Considerations of gene origins in history (i.e., phylogeny) and gene distributions in the landscape provide a useful \"molecular ecology\" framework for studying environmental spread of antibiotic resistance.

Accidental and incidental chemical releases of nitrogen-containing fertilizers occur at retail agrichemical facilities. Because contaminated soil may threaten groundwater quality, the facility may require some type of site remediation. The purpose of this study was to apply the concepts of the Soil Screening Levels of the U.S. Environmental Protection Agency to derive soil cleanup objectives (SCO) that are protective of groundwater quality in Illinois for nitrogen as nitrate and as ammonium. The Soil Screening Levels are based on the solute transport mechanisms of sorption, volatilization, and groundwater dilution, and the contaminant-specific groundwater cleanup objective used to derive the SCO. Because nitrate is relatively unreactive, only groundwater dilution could be taken into account in the derivation of a SCO. Using a default groundwater objective for potable groundwater, an SCO of 38 mg N-NO 3 /kg was derived. For ammonium, however, the extent of sorption was measured using an uncontaminated, surface-soil sample (0 to 15 cm) of 10 different soil types that occur in Illinois and three gravel-fill samples from three different agrichemical facilities. Using a default groundwater objective, an SCO was derived for each soil type. The median SCO was 989 mg N-NH 4 /kg. The SCO calculated for each of the 10 soil and 3 fill samples was positively correlated with cation exchange capacity, clay content, and surface area. It was concluded that this approach can be used to derive either default of site-specific SCOs for nitrogen as nitrate and as ammonium for chemical releases.

A 15-month-long hydrogeologic investigation of a fen-wetland complex in northeastern Illinois, USA indicated the encroachment of ground-water-borne anthropogenic contaminants into two of three high quality fens. Ground-water flow directions and chemical evidence indicated that plumes of ground water with anomalously large concentrations of Na super(+) and Cl super(-) originated from a private septic system and from rock salt spread on an adjacent road. The contamination, in turn, had an adverse effect on fen vegetation; within the plumes, diverse vegetation was replaced by the more salt-tolerant narrow-leaf cattail (Typha angustifolia). Ground water of the third fen contained large concentrations of SO sub(4) super(2-) as high as 516 mg/L. The SO sub(4) super(2-) anomaly was observed on a transient and/or seasonal basis in the fen ground water and in an adjacent marsh and pond. Isotopically light delta super(34)S values in these waters indicated that the addition of SO sub(4) super(2-) resulted from the oxidation of pyrite within underlying peat and/or pyritic gravel. However, the large SO sub(4) super(2-) concentrations had no discernible effect on fen vegetation. The results of this investigation indicate how easily construction of houses with private septic systems and deicing agents from roadway maintenance can contaminate fen ground water with relatively large concentrations of Na super(+) and Cl super(-), resulting in a significant loss of biodiversity in fens.