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  • Andreoni, V. and Gianfreda, L. (2007) Biodegradation and monitoring of aromatic-polluted habitats. Appl Microbiol Biotechnol 76, 287308.
  • Arulazhagan, P. and Vasudevan, N. (2011) Biodegradation of polycyclic aromatic hydrocarbons by a halotolerant bacterial strain Ochrobactrum sp. VA1. Mar Pollut Bull 62, 388394.
  • Arulazhagan, P., Vasudevan, N. and Yeom, I.T. (2010) Biodegradation of polycyclic aromatic hydrocarbon by a halotolerant bacterial consortium isolated from marine environment. Int J Environ Sci Technol 7, 639652.
  • Ausubel, F.M., Brent, R., Kingston, R.E., Moore, D.D., Seidman, J.G., Smith, J.A. and Struhl, K. (1993) Current Protocols in Molecular Biology. New York: John Wiley & Sons, Inc.
  • Bernard, D., Pascaline, H. and Jeremie, J.J. (1996) Distribution and origin of hydrocarbons in sediments from lagoons with fringing mangrove communities. Mar Pollut Bull 32, 734739.
  • Bouchez, M., Blanchet, D. and Vandecasteele, J. (1996) The microbiological fate of polycyclic aromatic hydrocarbons: carbon and oxygen balances for bacterial degradation of model compounds. Appl Microbiol Biotechnol 45, 556561.
  • Bray, H.R. and Kurtz, L.T. (1945) Determination of organic and available forms of phosphorus in soil. Soil Sci 9, 3946.
  • Brito, E.M., Guyoneaud, R., Goni-Urriza, M., Ranchou-Peyruse, A., Verbaere, A., Crapez, M.A., Wasserman, J.C. and Duran, R. (2006) Characterization of hydrocarbonnoclastic bacterial communities from mangrove sediments in Guanabara Bay, Brazil. Res Microbiol 157, 752762.
  • Cébron, A., Norini, M.P., Beguiristain, T. and Leyval, C. (2008) Real-time PCR quantification of PAH-ring hydroxylating dioxygenase (PAH-RHDα) genes from gram positive and gram negative bacteria in soil and sediment samples. J Microbiol Meth 73, 148159.
  • Cerniglia, C.E. (1992) Biodegradation of polycyclic aromatic hydrocarbons. Biodegradation 3, 351368.
  • Churchill, P.F., Morgan, A.C. and Kitchens, E. (2008) Characterization of a pyrene-degrading Mycobacterium sp. strain CH-2. J Environ Sci Heal B 43, 698706.
  • Daane, L.L., Harjono, I., Zylstra, G.J. and Haggblom, M.M. (2001) Isolation and characterization of polycyclic aromatic hydrocarbon-degrading bacteria associated with the rhizophere of salt marsh plants. Appl Environ Microbiol 67, 26832691.
  • Dean-Ross, D., Moody, J.D., Freeman, J.P., Doerge, D.R. and Cerniglia, C.E. (2001) Metabolism of anthracene by a Rhodococcus species. FEMS Microbiol Lett 204, 205211.
  • Dionisi, H., Chewning, C., Morgan, K., Menn, F., Easter, J. and Sayler, G. (2004) Abundance of dioxygenase genes similar to Ralstonia sp. strain U2 nagAc is correlated with naphthalene concentrations in coal tar-contaminated freshwater sediments. Appl Environ Microbiol 70, 39883995.
  • Felske, A., Akkermans, A.D.L. and De Vos, W.M. (1998) Quantification of 16S rRNAs in complex bacterial communities by multiple competitive reverse transcription-PCR in temperature gradient gel electrophoresis fingerprints. Appl Environ Microbiol 64, 45814587.
  • Ferguson, A.S., Huang, W.E., Lawson, K.A., Doherty, R., Gibert, O., Dickson, K.W., Whiteley, A.S., Kulakov, L.A. et al. (2007) Microbial analysis of soil and groundwater from a gasworks site and comparison to a sequenced biological reactive barrier remediation process (SEREBAR). J Appl Microbiol 102, 11271238.
  • Gauthier, M.J., Lafay, B., Christen, R., Fernandez, L., Acquaviva, M., Bonin, P. and Bertrand, J.C. (1992) Marinobacter hydrocarbonoclasticus gen. nov., sp. nov., a new extremely halotolerant, hydrocarbondegrading marine bacterium. Int J Syst Bacteriol 42, 568576.
  • Gee, G.W. and Bauder, J.W. (1979) Particle size analysis by hydrometer: a simplified method for routine textural analysis and a sensitivity test of measured parameters. Soil Sci Soc Am J 43, 10041007.
  • Grund, E., Denecke, B. and Eichenlaub, R. (1992) Naphthalene degradation via salicylate and gentisate by Rhodococcus sp. strain B4. Appl Environ Microbiol 58, 18741877.
  • Guo, C.L., Zhou, H.W., Wong, Y.S. and Tam, N.F.Y. (2005) Isolation of PAH-degrading bacteria from mangrove sediments and their biodegradation potential. Mar Pollut Bull 51, 10541061.
  • Guo, C., Dang, Z., Wong, Y. and Tam, N.F. (2010) Biodegradation ability and dioxgenase genes of PAH-degrading Sphingomonas and Mycobacterium strains isolated from mangrove sediments. Int Biodeter Biodegr 64, 419426.
  • Guo, C., Ke, L., Dang, Z. and Tam, N.F. (2011) Temporal changes in Sphingomonas and Mycobacterium populations in mangrove sediments contaminated with different concentrations of polycyclic aromatic hydrocarbons (PAHs). Mar Pollut Bull 62, 133139.
  • Haritash, A.K. and Kaushik, C.P. (2009) Biodegradation aspects of polycyclic aromatic hydrocarbon (PAHs): a review. J Hazard Mater 169, 115.
  • Harwati, T.U., Kasai, Y., Kodama, Y., Susilaningsih, D. and Watanabe, K. (2007) Characterization of diverse hydrocarbon-degrading bacteria isolated from Indonesian seawater. Microbes Environ 22, 412415.
  • Hiraishi, A., Yonemitsu, Y., Matsushita, M., Shin, Y.K., Kuraishi, H. and Kawahara, K. (2002) Characterization of Porphyrobacter sanguineus sp. nov., an aerobic bacteriochlorophyll-containing bacterium capable of degrading biphenyl and dibenzofuran. Arch Microbiol 178, 4552.
  • Ho, Y., Jackson, M., Yang, Y., Mueller, J.G. and Pritchard, P.H. (2000) Characterization of fluoranthene- and pyrene-degrading bacteria isolated from PAH-contaminated soils and sediments. J Ind Microbiol Biotechnol 24, 100112.
  • Huijie, L., Caiyun, Y., Yun, T., Guanhui, L. and Tianling, Z. (2011) Using population dynamics analysis by DGGE to design the bacterial consortium isolated from mangrove sediments for biodegradation of PAHs. Int Biodeter Biodegr 65, 269275.
  • Jackson, M.L. (1958) Soil Chemical Analysis. New Jersey: Prentice-Hall Inc.
  • Johnsen, A.R., Bendixen, K. and Karlson, U. (2002) Detection of microbial growth on polycyclic aromatic hydrocarbons in microtiter plates by using the respiration indicator WST-1. Appl Environ Microbiol 68, 26832689.
  • Johnsen, A., Wick, L. and Harms, H. (2005) Principles of microbial PAHs degradation in soil. Environ Pollut 133, 7184.
  • Josic, D., Porobic, M., Milicevic, M., Vukovic, D., Pivic, R., Zdravkovic, M. and Coric, T. (2008) RAPD fingerprinting of indigenous Lysinibacillus fusiformis isolates from stabilized sludge and oil-polluted soil. Proceedings of the International meeting on soil fertility land management and agroclimatology Turkey, pp. 927933.
  • Juhasz, A.L. and Naidu, R. (2000) Bioremediation of high molecular weight polycyclic aromatic hydrocarbons: a review of the microbial degradation of benzo[a]pyrene. Int Biodeter Biodegr 45, 5788.
  • Kang, H., Hwang, S.Y., Kim, Y.M., Kim, E., Kim, Y.S., Kim, S.K., Kim, S.W., Cerniglia, C.E. et al. (2003) Degradation of phenanthrene and naphthalene by a Burkholderia species strain. Can J Microbiol 49, 139144.
  • Khan, A.A., Wang, R.F., Cao, W.W., Doerge, D.R. and Cerniglia, C.E. (2001) Molecular cloning, nucleotide sequence, and expression of genes encoding a polycyclic aromatic ring dioxygenase from Mycobacterium sp. strain PYR-1. Appl Environ Microbiol 67, 35773585.
  • Klankeo, P., Nopcharoenkul, W. and Pinyakong, O. (2009) Two novel pyrene-degrading Diaphorobacter sp. and Pseudomonas sp. Isolated from soil. J Biosci Bioeng 108, 488495.
  • Klekowski, E.J. Jr, Corredor, J.E., Morell, J.M. and DelCastello, C.A. (1994) Petroleum pollution and mutation in mangroves. Mar Pollut Bull 28, 166169.
  • Koutny, M., Ruzicka, J. and Chlachula, J. (2003) Screening for phenol-degrading bacteria in the pristine soils of south Siberia. Appl Soil Ecol 23, 7983.
  • Lane, D.J. (1991) 16S/23S rRNA sequencing. In: Nucleic Acid Techniques in Bacterial Systematics ed. Stackebrandt, E. and Goodfellow, M., pp. 115175. Chichester, UK: Wiley.
  • Leys, N.M., Ryngaert, A., Bastiaens, L., Verstraete, W. and Springael, D. (2004) Occurrence and phylogenetic diversity of Sphingomonas strain in soils contaminated with polycyclic aromatic hydrocarbons. Appl Environ Microbiol 70, 19441955.
  • Li, A., Qu, Y.Y., Zhou, J.T. and Gou, M. (2009) Isolation and characteristics of a novel biphenyl degrading bacterial strain, Dyella ginsengisoli LA-4. J Environ Sci 21, 211217.
  • Lu, X.Y., Zhang, T. and Fang, H.H. (2011) Bacteria-mediated PAH degradation in soil and sediment. Appl Microbiol Biotechnol 89, 13551371.
  • Luo, Y.R., Zheng, T.L. and Huang, X. (2005) Biodegradation of benzo(a)pyrene by mangrove microbial consortium. J Xiamen University 44, 7579.
  • Mahanty, B., Pakshirajan, K. and Dasu, V. (2006) Production and properties of a biosurfactant applied to polycyclic aromatic hydrocarbon solubilization. Appl Biochem Biotechnol 134, 129141.
  • Marcos, M.S., Lozada, M. and Dionisi, H.M. (2009) Aromatic hydrocarbon degradation genes from chronically polluted subantarctic marine sediments. Appl Environ Microbiol 59, 19381942.
  • McLeod, S. (1973) Studies on wet oxidation procedures for the determination of organic carbon in soils. CSIRO division of soils. Notes On Soil Techniques. pp. 7379.
  • Moller, J. and Ingvorsen, H. (1993) Biodegradation of phenanthrene in soil microcosms stimulated by an introduced Alcaligenes sp. FEMS Microbiol Lett 102, 271278.
  • Muyzer, G., De Waal, E.C. and Uitterlinden, A.G. (1993) Profiling of complex microbial populations by denaturing gradient gel electrophoresis analysis of polymerase chain reaction-amplified genes coding for 16S rRNA. Appl Environ Microbiol 59, 695700.
  • Nopcharoenkul, W., Pinphanichakarn, P. and Pinyakong, O. (2011) The development of a liquid formulation of Pseudoxanthomonas sp. RN402 and its application in the treatment of pyrene-contaminated soil. J Appl Microbiol 111, 3647.
  • Pinyakong, O., Habe., H. and Omori., T. (2003) The unique aromatic catabolic genes in sphingomonads degrading polycyclic aromatic hydrocarbon (PAHs). J Gen Appl Microbiol 49, 119.
  • Pinyakong, O., Habe, H., Kouzuma, A., Nojiri, H., Yamane, H. and Omori, T. (2004) Isolation and characterization of genes encoding polycyclic aromatic hydrocarbon dioxygenase from acenaphthene and acenaphthylene degrading Sphingomonas sp. strain A4. FEMS Microbiol Lett 238, 297305.
  • Rehmann, L. and Daugulis, A.J. (2006) Biphenyl degradation kinetics by Burkholderia xenovorans LB400 in two-phase partitioning bioreactors. Chemosphere 63, 972979.
  • Romine, M.F., Stillwell, L.C., Wong, K.K., Thurston, S.J., Sisk, E.C., Sensen, C., Gaasterland, T., Fredrickson, J.K. et al. (1999) Complete sequence of a 184-kilobase catabolic plasmid from Sphingomonas aromaticivorans F199. J Bacteriol 181, 15851602.
  • Selifonov, S.A., Slepen'kin, A.V., Adanin, V.M., Grechkina, G.M. and Starovoitov, I.I. (1993) Acenaphthene catabolism by strains of Alcaligenes eutrophus and Alcaligenes paradoxus. Microbiology 62, 8592.
  • Song, Y.F., Jing, X., Fleischmann, S. and Wilke, B.-M. (2002) Comparative study of extraction methods for the determination of PAHs from contaminated soils and sediments. Chemosphere 48, 9931001.
  • Stolz, A. (2009) Molecular characteristics of xenobiotic-degrading sphingomonads. Appl Microbiol Biotechnol 85, 793811.
  • Tae Jung, K., Eun Young, L., Youn Jung, K., Kyung-Suk, C. and Hee Wook, R. (2003) Degradation of polyaromatic hydrocarbons by Burkholderia cepacia 2A-12. World J Microb Biotechnol 19, 411417.
  • Tamura, K., Peterson, D., Peterson, N., Stecher, G., Nei, M. and Kumar, S. (2011) MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol Biol Evol 28, 27312739.
  • Tian, Y., Liu, H.J., Zheng, T.L., Kwon, K.K., Kim, S.J. and Yan, C.L. (2008) PAHs contamination and bacterial communities in mangrove surface sediments of the Jiulong River Estuary, China. Mar Pollut Bull 57, 707715.
  • Tuomi, P.M., Salminen, J.M. and Jorgensen, K.S. (2004) The abundance of nahAc genes correlates with the 14C-naphthalene mineralization potential in petroleum hydrocarbon-contaminated oxic soil layers. FEMS Microbiol Ecol 51, 99107.
  • Venkata, M.S., Prasanna, D., Purushotham, R.B. and Sarma, P.N. (2008) Ex situ bioremediation of pyrene contaminated soil in bio-slurry phase reactor operated in periodic discontinuous batch mode: influence of bioaugmentation. Int Biodeterior Biodegradation 62, 162169.
  • Walkley, T.M. and Black, C.A. (1934) An examination of Degtjareff method for determining soil organic matter and the proposed modification of the chronic acid titration method. Soil Sci 37, 2938.
  • Walter, D.W., Beyer, M. and Klein, J. (1990) Degradation of phenanthrene, fluorine and fluoranthene by pure bacterial cultures. Appl Microbiol Biotechnol 32, 479484.
  • Walter, U., Beyer, M., Klein, J. and Rehm, H.J. (1991) Degradation of pyrene by Rhodococcus sp. UW1. Appl Microbiol Biotechnol 34, 671676.
  • Weissenfels, W.D., Beyer, M., Klein, J. and Rehm, H.J. (1990) Degradation of phenanthrene, fluorene and fluoranthene by pure bacterial cultures. Appl Microbiol Biotechnol 32, 479484.
  • Winderl, C., Anneser, B., Griebler, C., Meckenstock, R.U. and Lueders, T. (2008) Depth-resolved quantification of anaerobic toluene degraders and aquifer microbial community patterns in distinct redox zones of a tar oil contaminant plume. Appl Environ Microbiol 74, 792801.
  • Yu, S.H., Ke, L., Wong, Y.S. and Tam, N.F.Y. (2005) Degradation of polycyclic aromatic hydrocarbons (PAHs) by a bacterial consortium enriched from mangrove sediments. Environ Int 21, 149154.
  • Zhou, H.W., Guo, C.L., Wong, Y.S. and Tam, N.F.Y. (2006) Genetic diversity of dioxygenase genes in polycyclic aromatic hydrocarbon-degrading bacteria isolated from mangrove sediments. FEMS Microbiol Lett 262, 148157.
  • Zhou, H.W., Luan, T.G., Zou, F. and Tam, N.F.Y. (2008) Different bacterial groups for biodegradation of three- and four-ring PAHs isolated from a Hong Kong mangrove sediment. J Hazard Mater 152, 11791185.
  • Zhou, H.W., Wong, A.H., Yu, R.M., Park, Y.D., Wong, Y.S. and Tam, N.F.Y. (2009) Polycyclic aromatic hydrocarbon-induced structural shift of bacterial communities in mangrove sediment. Microb Ecol 58, 153160.