• No results found

6. CONCLUSIONS AND FUTURE WORK

6.2. Future work

Future experiments to address the effect of salicylate addition on PAH

degradation should focus on the following goals. First, other PAH-contaminated soils should be tested in addition to the single MGP soil tested in this research. If additional [13C]

salicylate were available, SIP could be used to identify the organisms selected for by spike versus continuous addition. Mineralization assays with various PAH will be straightforward to carry out and will reveal any increase in PAH degradation rates caused by salicylate addition. If salicylate is found to increase PAH degradation rates, its efficacy should be further tested in a pilot scale remediation project. In addition, isolates from salicylate enrichment cultures should be characterized. Improved understanding of the diversity and physiology of PAH-degrading organisms will help with management decisions for PAH- contaminated sites.

Supplements such as specific carbon sources or surfactants have been hypothesized to stimulate populations of degrading organisms or increase the available concentration of a contaminant (Ogunseitan and Olson 1993; Tiehm et al. 1997; Wang et al. 1998; Chen and Aitken 1999). The results of adding supplements to a contaminated environment will probably be contaminant- and site-specific. Environmental regulations may also dictate whether a supplement can be added to a particular site. Adding nonspecific carbon sources

such as acetate or molasses would presumably pass regulatory scrutiny, but adding a carbon source such as salicylate, which can be toxic to humans in high enough doses, may not easily acquire regulatory approval. Addition of salicylate in an ex situ treatment, such as a

bioreactor, may be seen as a safer option than addition of salicylate in situ.

While salicylate addition was not found to stimulate PAH degradation rates in the MGP soil studied in this work, some previous work examining PAH degradation rates in complex matrices following salicylate addition has shown increased degradation rates of naphthalene in activated sludge (Cardinal and Stenstrom 1991), naphthalene in soil

(Ogunseitan and Olson 1993), and pyrene in soil (Vanderford 2001). Previous work in which salicylate was not found to increase PAH degradation rates have hypothesized that salicylate was used as a carbon source instead of an inducer or that salicylate addition stimulated non- PAH degrading organisms (Carmichael and Pfaender 1997). The body of evidence to date suggests that salicylate can stimulate naphthalene removal in contaminated systems by increasing the abundance of naphthalene-degrading organisms.

References

Accardi-Dey, A. and P. Gschwend (2002). "Assessing the combined roles of natural organic matter and black carbon as sorbents in sediments." Environmental Science and

Technology 36(1): 21-29.

Accardi-Dey, A. and P. Gschwend (2003). "Reinterpreting literature sorption data considering both absorption into organic carbon and adsorption onto black carbon." Environmental Science and Technology 37(1): 99-106.

Adamczyk, J., M. Hesselsoe, N. Iversen, M. Horn, A. Lehner, P. H. Nielsen, M. Schloter, P. Roslev and M. Wagner (2003). "The isotope array, a new tool that employs substrate- mediated labeling of rRNA for determination of microbial community structure and function." Applied and Environmental Microbiology 69(11): 6875-6887.

Agranat, A. I. and Y. Shih (1976). "The scope of the Haworth synthesis." Journal of Chemical Education 53: 488-489.

Aitken, M. D. and T. C. Long (2004). Biotransformation, biodegradation, and bioremediation of polycyclic aromatic hydrocarbons. in Biodegradation and Bioremediation. Vol. 2. A. Singh and O. P. Ward, Eds. Berlin, Springer-Verlag. pp. 83-124.

Aitken, M. D., D. C. Nitz, D. V. Roy and C. Kazunga (1998a). Slurry-phase bioremediation of contaminated soil from a former manufactured-gas plant site, report no. 320.

University of North Carolina Water Resources Research Institute: Raleigh, NC. Aitken, M. D., W. T. Stringfellow, R. D. Nagel, C. Kazunga and S.-H. Chen (1998b).

"Characteristics of phenanthrene-degrading bacteria isolated from soils contaminated with polycyclic aromatic hydrocarbons." Canadian Journal of Microbiology 44: 743-752. Alemayehu, D., L. M. Gordon, M. M. O'Mahony, N. D. O'Leary and A. D. W. Dobson

(2004). "Cloning and functional analysis by gene disruption of a novel gene involved in indigo production and fluoranthene metabolism in Pseudomonas alcaligenes PA-10." FEMS Microbiology Letters 239: 285-293.

Altschul, S. F., W. Gish, W. Miller, E. W. Myers and D. J. Lipman (1990). "Basic local alignment search tool." Journal of Molecular Biology 215: 403-410.

Amann, R., W. Ludwig and K.-H. Schleifer (1995). "Phylogenetic identification and in situ detection of individual microbial cells without cultivation." Microbiological Reviews 59(1): 143-169.

Andrews, J. H. (1984). Relevance of r- and K-theory to the ecology of plant pathogens. in Current Perspectives in Microbial Ecology. M. J. Klug and C. A. Reddy, Eds.

Washington, D.C., American Society for Microbiology. pp. 1-7.

situ hybridization with tyramide signal amplification." Journal of Microbiological Methods 50: 75-84.

Barnsley, E. A. (1975). "The bacterial degradation of fluoranthene and benzo[a]pyrene." Canadian Journal of Microbiology 21: 1004-1008.

Battley, E. H. (1987). Energetics of microbial growth. New York, N.Y., John Wiley & Sons. Bengtsson, G. and P. Zerhouni (2003). "Effects of carbon substrate enrichment and DOC

concentration on biodegradation of PAHs in soil." Journal of Applied Microbiology 94: 608-617.

Bianchin, M., L. Smith, J. F. Barker and R. Beckie (2006). "Anaerobic degradation of naphthalene in a fluvial aquifer: a radiotracer study." Journal of Contaminant Hydrology 84: 178-196.

Blair, N., A. Leu, E. Munoz, J. Olsen, E. Kwong and D. Des Marais (1985). "Carbon isotopic fractionation in heterotrophic microbial metabolism." Applied and Environmental

Microbiology 50(4): 996-1001.

Bogan, B. W., L. M. Lahner and J. R. Paterek (2001). "Limited roles for salicylate and phthalate in bacterial PAH bioremediation." Bioremediation Journal 5(2): 93-100. Boldrin, B., A. Tiehm and C. Fritzsche (1993). "Degradation of phenanthrene, fluorene,

fluoranthene, and pyrene by a Mycobacterium sp." Applied and Environmental Microbiology 59(6): 1927-1930.

Borneff, J., F. Selenka, H. Kunte and A. Maximos (1968). "Experimental studies on the formation of polycyclic aromatic hydrocarbons in plants." Environmental Research 2: 22- 29.

Borodina, E., M. J. Cox, I. R. McDonald and J. C. Murrell (2005). "Use of DNA-stable isotope probing and functional gene probes to investigate the diversity of methyl chloride-utilizing bacteria in soil." Environmental Microbiology 7(9): 1318-1328.

Boschker, H. T. S., W. de Graaf, M. Koster, L.-A. Meyer-Reil and T. E. Cappenberg (2001). "Bacterial populations and processes involved in acetate and propionate consumption in anoxic brackish sediments." FEMS Microbiology Ecology 35: 97-103.

Boschker, H. T. S. and J. J. Middelburg (2002). "Stable isotopes and biomarkers in microbial ecology." FEMS Microbiology Ecology 40: 85-95.

Boschker, H. T. S., S. C. Nold, P. Wellsbury, D. Bos, W. de Graaf, R. Pel, R. J. Parkes and T. E. Cappenberg (1998). "Direct linking of microbial populations to specific

Bosma, T. N. P., P. J. M. Middeldorp, G. Schraa and A. J. B. Zehnder (1997). "Mass transfer limitation of biotransformation: quantifying bioavailability." Environmental Science and Technology 31(1): 248-252.

Breedveld, G. D. and D. A. Karlsen (2000). "Estimating the availability of polycyclic aromatic hydrocarbons for bioremediation of creosote contaminated soils." Applied Microbiology and Biotechnology 54: 255-261.

Brosius, J., M. L. Palmer, P. J. Kennedy and H. F. Noller (1978). "Complete nucleotide sequence of a 16S ribosomal RNA gene from Escherichia coli." Proceedings of the National Academy of Sciences 75(10): 4801-4805.

Bull, I. D., N. R. Parekh, G. H. Hall, P. Ineson and R. P. Evershed (2000). "Detection and classification of atmospheric methane oxidizing bacteria in soil." Nature 405: 175-178. Burgess, R. M., S. A. Ryba, M. M. Perron, R. Tien, L. M. Thibodeau and M. G. Cantwell

(2004). "Sorption of 2,4'-dichlorobiphenyl and fluoranthene to a marine sediment

amended with different types of black carbon." Environmental Toxicology and Chemistry 23(11): 2534-2544.

Cardinal, L. J. and M. K. Stenstrom (1991). "Enhanced biodegradation of polyaromatic hydrocarbons in the activated sludge process." Research Journal Water Pollution Control Federation 63(7): 950-957.

Carey, F. A. (1992). Organic Chemistry. New York, McGraw-Hill, Inc.

Carmichael, L. M., R. F. Christman and F. K. Pfaender (1997). "Desorption and mineralization kinetics of phenanthrene and chrysene in comtaminated soils." Environmental Science and Technology 31(7): 126-132.

Carmichael, L. M. and F. K. Pfaender (1997). "The effect of inorganic and organic supplements on the microbial degradation of phenanthrene and pyrene in soils." Biodegradation 8: 1-13.

Carmo, A. M., L. S. Hundal and M. L. Thompson (2000). "Sorption of hydrophobic organic compounds by soil materials: Application of unit equivalent Freundlich coefficients." Environmental Science and Technology 34(20): 4363-4369.

Cerniglia, C. E. (1992). "Biodegradation of polycyclic aromatic hydrocarbons." Biodegradation 3: 351-368.

Cerniglia, C. E. and M. A. Heitkamp (1989). Microbial degradation of polycyclic aromatic hydrocarbons (PAH) in the aquatic environment. in Metabolism of Polycyclic Aromatic Hydrocarbons in the Aquatic Environment. U. Varanasi, Ed. Boca Raton, FL, CRC Press. pp. 41-68.

Chen, S.-H. and M. D. Aitken (1999). "Salicylate stimulates the degradation of high- molecular weight polycyclic aromatic hydrocarbons by Pseudomonas saccharophila

P15." Environmental Science and Technology 33(3): 435-439.

Chudoba, J., J. S. Cech, J. Farkac and P. Grau (1985). "Control of activated sludge filamentous bulking: Experimental verification of a kinetic selection theory." Water Research 19(2): 191-196.

Chudoba, J., P. Strakova and M. Kondo (1991). "Compartmentalized versus completely- mixed biological wastewater treatment systems." Water Research 25(8): 973-978. Colbert, S. F., M. Hendson, M. Ferri and M. N. Schroth (1993a). "Enhanced growth and

activity of a biocontrol bacterium genetically engineered to utilize salicylate." Applied and Environmental Microbiology 59(7): 2071-2076.

Colbert, S. F., T. Isakeit, M. Ferri, A. R. Weinhold, M. Hendson and M. N. Schroth (1993b). "Use of an exotic carbon source to selectively increase metabolic activity and growth of

Pseudomonas putida in soil." Applied and Environmental Microbiology 59(7): 2056- 2063.

Colbert, S. F., M. N. Schroth, A. R. Weinhold and M. Hendson (1993c). "Enhancement of population densities of Pseudomonas putida PpG7 in agricultural ecosystems by selective feeding with the carbon source salicylate." Applied and Environmental Microbiology 59(7): 2064-2070.

Cole, J. R., B. Chai, T. L. Marsh, R. J. Farris, Q. Wang, S. A. Kulam, S. Chandra, D. M. McGarrell, T. M. Schmidt, G. M. Garrity and J. M. Tiedje (2003). "The Ribosomal Database Project (RDP-II): previewing a new autoaligner that allows regular updates and the new prokaryotic taxonomy." Nucleic Acids Research 31: 442-443.

Cornelissen, G., G. D. Breedveld, S. Kalaaitzidis, K. Christanis, A. Kibsgaard and A. Oen (2006). "Strong sorption of native PAHs to pyrogenic and unburned carbonacious geosorbents in sediments." Environmental Science and Technology 40(4): 1197-1203. Cornelissen, G., H. Rigterink, M. M. A. Ferdinandy and P. C. M. van Noort (1998). "Rapidly

desorbing fractions of PAHs in contaminated sediments as a predictor of the extent of bioremediation." Environmental Science and Technology 32(7): 966-970.

Cornelissen, G., P. C. M. van Noort and H. A. J. Govers (1997). "Desorption kinetics of chlorobenzenes, polycyclic aromatic hydrocarbons, and polychlorinated biphenyls: Sediment extraction with Tenax and effects of contact time and hydrophobicity." Environmental Toxicology and Chemistry 16(7): 1351-1357.

Cottrell, M. T. and D. L. Kirchman (2000). "Natural assemblages of marine proteobacteria and members of the Cytophaga-Flavobacter cluster consuming low-and high-molecular- weight dissolved organic matter." Applied and Environmental Microbiology 66(4): 1692- 1697.

Crossman, Z. M., F. Abraham and R. P. Evershed (2004). "Stable isotope pulse-chasing and compound specific stable carbon isotope analysis of phospholipid fatty acids to assess methane oxidizing bacterial populations in landfill cover soils." Environmental Science and Technology 38(5): 1359-1367.

Daane, L. L., I. Harjono, G. J. Zylstra and M. M. Haggblom (2001). "Isolation and

characterization of polycyclic aromatic hydrocarbon-degrading bacteria associated with the rhizosphere of salt marsh plants." Applied and Environmental Microbiology 67(6): 2683-2691.

Dagher, F., E. Deziel, P. Lirette, G. Paquette, J.-G. Bisaillon and R. Villemur (1997). "Comparative study of five polycyclic aromatic hydrocarbon degrading bacterial strains isolated from contaminated soils." Canadian Journal of Microbiology 43: 368-377. Davies, J. I. and W. C. Evans (1964). "Oxidative metabolism of naphthalene by soil

Pseudomonads." Biochemistry Journal 91: 251-261.

DeRito, C. M., G. M. Pumphrey and E. L. Madsen (2005). "Use of field-based stable isotope probing to identify adapted populations and track carbon flow through a phenol-

degrading soil microbial community." Applied and Environmental Microbiology 71(12): 7858-7865.

Dionisi, H. M., C. S. Chewning, K. H. Morgan, F.-M. Menn, J. P. Easter and G. S. Sayler (2004). "Abundance of dioxygenase genes similar to Ralstonia sp. Strain U2 nagAc is correlated with naphthalene concentrations in coal tar-contaminated sediments." Applied and Environmental Microbiology 70(7): 3988-3995.

Dojka, M. A., P. Hugenholtz, S. K. Haack and N. R. Pace (1998). "Microbial diversity in a hydrocarbon- and chlorinated-solvent-contaminated aquifer undergoing intrinsic bioremediation." Applied and Environmental Microbiology 64: 3869-3877.

Dorn, J. G., R. J. Frye and R. M. Maier (2003). "Effect of temperature, pH, and initial cell number on luxCDABE and nah gene expression during naphthalene and salicylate catabolism in the bioreporter organism Pseudomonas putida RB1353." Applied and Environmental Microbiology 69(4): 2209-2216.

Dumont, M. G. and J. C. Murrell (2005). "Stable isotope probing - linking microbial identity to function." Nature Reviews Microbiology 3: 499-504.

Dunn, N. W. and I. C. Gunsalus (1973). "Transmissible plasmid coding early enzymes of naphthalene oxidation in Pseudomonas putida." Journal of Bacteriology 114(3): 974-979. Durant, N. D., C. A. A. Jonkers and E. J. Bouwer (1997). "Spatial variability in the

naphthalene mineralization response to oxygen, nitrate, and orthophosphate amendments in MGP aquifer sediments." Biodegradation 8: 77-86.

Durant, N. D., L. P. Wilson and E. J. Bouwer (1995). "Microcosm studies of subsurface PAH-degrading bacteria from a former manufactured gas plant." Journal of Contaminant Hydrology 17: 213-237.

Edwards, U., T. Rogall, H. Blocker, M. Emde and E. C. Bottger (1989). "Isolation and direct complete nucleotide determination of entire genes. Characterization of a gene coding for 16S ribosomal RNA." Nucleic Acids Research 17: 7843-7853.

Enell, A., F. Reichenberg, G. Ewald and P. Warfvinge (2005). "Desorption kinetics studies on PAH-contaminated soil under varying temperatures." Chemosphere 61(10): 1529- 1538.

Eriksson, M., E. Sodersten, Z. Yu, G. Dalhammar and W. W. Mohn (2003). "Degradation of polycyclic aromatic hydrocarbons at low temperature under aerobic and nitrate-reducing conditions in enrichment cultures from northern soils." Applied and Environmental Microbiology 69: 275-284.

Evans, W. C., H. N. Fernley and E. Griffiths (1965). "Oxidative metabolism of phenanthrene and anthracene by soil pseudomonads." Biochemistry Journal 95: 819-831.

Fernley, H. N. and W. C. Evans (1958). "Oxidative metabolism of polycyclic hydrocarbons by soil pseudomonads." Nature 182: 373-375.

Fernley, H. N., E. Griffiths and W. C. Evans (1964). "Oxidative metabolism of phenanthrene and anthracene by soil bacteria: The initial ring-fission step." Biochemistry Journal 91: 15p-16p.

Filonov, A. E., I. F. Puntus, A. V. Karpov, I. A. Kosheleva, L. I. Akhmetov, D. R. Yonge, J. N. Peterson and A. M. Boronin (2006). "Assessment of naphthalene biodegradation efficiency of Pseudomonas and Burkholderia strains tested in soil model systems." Journal of Chemical Technology and Biotechnology 81: 216-224.

Foght, J. M. and D. W. S. Westlake (1988). "Degradation of polycyclic aromatic

hydrocarbons and aromatic heterocycles by a Pseudomonas species." Canadian Journal of Microbiology 34: 1135-1141.

Foght, J. M. and D. W. S. Westlake (1991). "Cross hybridization of plasmid and genomic DNA from aromatic and polycyclic aromatic hydrocarbon degrading bacteria." Canadian Journal of Microbiology 37: 924-932.

Fuhrman, J. A., K. McCallum and A. A. Davis (1992). "Novel major archaebacterial group from marine plankton." Nature 356: 148-149.

Furukawa, K., J. R. Simon and A. M. Chakrabarty (1983). "Common induction and regulation of biphenyl, xylene/toluene, and salicylate catabolism in Pseudomonas paucimobilis." Journal of Bacteriology 154(3): 1356-1362.

Gardes, M. and T. D. Bruns (1993). "ITS primers with enhanced specificity for

basidiomycetes - application to the identification of mycorrhizae and rusts." Molecular Ecology 2: 113-118.

Gaskin, S. and R. Bentham (2005). "Comparison of enrichment methods for the isolation of pyrene-degrading bacteria." International Biodeterioration & Biodegradation 56: 80-85. Gibson, D. T. and R. E. Parales (2000). "Aromatic hydrocarbon dioxygenases in

environmental biotechnology." Current Opinion in Biotechnology 11: 236-243.

Gibson, D. T. and V. Subramanian (1984). Microbial degradation of aromatic hydrocarbons. in Microbial degradation of organic compounds. D. T. Gibson, Ed. New York, Marcel Dekker, Inc. pp. 181-252.

Ginige, M. P., P. Hugenholtz, H. Daims, M. Wagner, J. Keller and L. L. Blackall (2004). "Use of stable-isotope probing, full-cycle rRNA analysis, and fluorescence in situ hybridization-microautoradiography to study a methanol-fed denitrifying microbial community." Applied and Environmental Microbiology 70(1): 588-596.

Gordon, L. and A. D. W. Dobson (2001). "Fluoranthene degradation in Pseudomonas alcaligenes PA-10." Biodegradation 12: 393-400.

Goyal, A. K. and G. J. Zylstra (1997). "Genetics of naphthalene and phenanthrene degradation by Comamonas testosteroni." Journal of Industrial Microbiology & Biotechnology 19: 401-407.

Gray, N. D. and I. M. Head (2001). "Linking genetic identity and function in communities of uncultured bacteria." Environmental Microbiology 3(8): 481-492.

Guerin, W. F. and S. A. Boyd (1992). "Differential bioavailability of soil-sorbed napthalene to two bacterial species." Applied and Environmental Microbiology 58(4): 1142-1152. Haderlein, A., R. Legros and B. Ramsay (2001). "Enhancing pyrene mineralization in

contaminated soil by the addition of humic acids or composted contaminated soil." Applied Microbiology and Biotechnology 56: 555-559.

Haeseler, F., D. Blanchet, V. Druelle, P. Werner and J.-P. Vandecasteele (1999a).

"Analytical characterization of contaminated soils from former manufactured gas plants." Environmental Science and Technology 33(6): 825-830.

Haeseler, F., D. Blanchet, V. Druelle, P. Werner and J.-P. Vandecasteele (1999b). "Ecotoxicological assessment of soils of former manufactured gas plant sites: Bioremediation potential and pollutant mobility." Environmental Science and Technology 33(24): 4379-4384.

Harvey, R. G. (1991). Polycyclic aromatic hydrocarbons: Chemistry and carcinogenicity. Cambridge, Cambridge University Press.

Hatzinger, P. B. and M. Alexander (1995). "Effect of aging of chemicals in soil on their biodegradability and extractability." Environmental Science and Technology 29(2): 537- 545.

Huesemann, M. H., T. S. Hausmann and T. J. Fortman (2004). "Does bioavailability limit biodegradation? A comparison of hydrocarbon biodegradation and desorption rates in aged soils." Biodegradation 15(4): 261-274.

Hugenholtz, P., B. M. Goebel and N. R. Pace (1998). "Impact of culture-independent studies on the emerging phylogenetic view of bacterial diversity." Journal of Bacteriology 180(18): 4765-4774.

Hullar, M. A. J., B. Fry, B. J. Peterson and R. T. Wright (1996). "Microbial utilization of estuarine dissolved organic carbon: a stable isotope tracer approach tested by mass balance." Applied and Environmental Microbiology 62(7): 2489-2493.

Hutchens, E., S. Radajewski, M. G. Dumont, I. R. McDonald and J. C. Murrell (2004). "Analysis of methanotrophic bacteria in Movile Cave by stable isotope probing." Environmental Microbiology 6(2): 111-120.

Jeon, C. O., W. Park, P. Padmanabhan, C. DeRito, J. R. Snape and E. L. Madsen (2003). "Discovery of a bacterium, with distinctive dioxygenase, that is responsible for in situ

biodegradation in contaminated sediment." Proceedings of the National Academy of Sciences 100(23): 13591-13596.

Ji, P. and M. Wilson (2003). "Enhancement of population size of a biological control agent and efficacy in control of bacterial speck of tomato through salicylate and ammonium sulfate amendments." Applied and Environmental Microbiology 69(2): 1290-1294. Jimenez, I. Y. and R. Bartha (1996). "Solvent-augmented mineralization of pyrene by a

Mycobacterium sp." Applied and Environmental Microbiology 62(7): 2311-2316. Johnsen, A. R., K. Bendixen and U. Karlson (2001). "Detection of microbial growth on

polycyclic aromatic hydrocarbons in microtiter plates by using the respiration indicator WST-1." Applied and Environmental Microbiology 68(6): 2683-2689.

Johnsen, A. R., A. Winding, U. Karlson and P. Roslev (2002). "Linking of microorganisms to phenanthrene metabolism in soil by analysis of 13-C labeled lipids." Applied and Environmental Microbiology 68(12): 6106-6113.

Johnson, A. C., P. F. Larsen, D. F. Gadbois and A. W. Humason (1985). "The distribution of polycyclic aromatic hydrocarbons in the surficial sediments of Penobscot Bay (Maine, USA) in relation to possible sources and to other sites worldwide." Marine

Environmental Research 15: 1-16.

Johri, A. K., M. Dua, A. Singh, N. Sethunathan and R. L. Legge (1999). "Characterization and regulation of catabolic genes." Critical Reviews in Microbiology 25(4): 245-273.

Juhasz, A. L. and R. Naidu (2000). "Bioremediation of high molecular weight polycyclic aromatic hydrocarbons: a review of the microbial degradation of benzo[a]pyrene."

Related documents