Biostimulation of the autochthonous microbial community for the depletion of polychlorinated biphenyls (PCBs) in contaminated sediments

Environmental Science and Pollution Research

Volumn 20, Issue 6, 2013, Pages 3989-3999

  Di Gregorio, Simona ^a   Azaizeh, Hassan ^b,c   Lorenzi, Roberto ^a  

^a UNIVERSITY OF PISA   (Italy)

^b UNIVERSITY OF HAIFA   (Israel)

^c TEL HAI COLLEGE   (Israel)

Author keywords

Proteobacteria; Proteobacteria; Acidobacteria; Actinobacteria; Bacteroidetes; Chloroflexi o 17 DF 1 strains; Dehalococcoides sp.; Firmicutes; Sparganium sp.

Indexed keywords

POLYCHLORINATED BIPHENYL; RNA 16S;

ACETATE; ANOXIC CONDITIONS; AUTOCHTHON; BACTERIUM; BIODEGRADATION; BIOMANIPULATION; BIOREMEDIATION; DECHLORINATION; MICROBIAL COMMUNITY; PCB; POLLUTANT REMOVAL; POLYMERASE CHAIN REACTION; RELATIVE ABUNDANCE; SEDIMENT POLLUTION;

ACIDOBACTERIA; ACTINOBACTERIA; ALPHAPROTEOBACTERIA; ARTICLE; BETAPROTEOBACTERIA; BIOREMEDIATION; CHEMISTRY; CHLOROFLEXI; GENETICS; ISOLATION AND PURIFICATION; METABOLISM; MICROBIOLOGY; POLLUTANT; QUALITY CONTROL; REAL TIME POLYMERASE CHAIN REACTION; SEDIMENT;

ACIDOBACTERIA; ACTINOBACTERIA; ALPHAPROTEOBACTERIA; BETAPROTEOBACTERIA; BIODEGRADATION, ENVIRONMENTAL; CHLOROFLEXI; ENVIRONMENTAL POLLUTANTS; GEOLOGIC SEDIMENTS; POLYCHLORINATED BIPHENYLS; QUALITY CONTROL; REAL-TIME POLYMERASE CHAIN REACTION; RNA, RIBOSOMAL, 16S;

ACIDOBACTERIA; ACTINOBACTERIA; ALPHAPROTEOBACTERIA; BACTERIA (MICROORGANISMS); BACTEROIDETES; BETAPROTEOBACTERIA; CHLOROFLEXI; CHLOROFLEXI (CLASS); DEHALOCOCCOIDES; FIRMICUTES; SPARGANIUM;

EID: 84878109663     PISSN: 09441344     EISSN: 16147499     Source Type: Journal    
DOI: 10.1007/s11356-012-1350-x     Document Type: Article

References (40)

1. Abraham WR, Nogales B, Golyshin PN, Pieper DH, Timmis KN (2002) Polychlorinated biphenyl-degrading microbial communities in soils and sediments. Curr Opin Microbiol 5: 246-253.
2. Aguirre de Cárcer D, Martin M, Karlson U, Rivilla R (2007) Changes in bacterial populations and in biphenyl dioxygenase gene diversity in a polychlorinated biphenyl-polluted soil after introduction of willow trees for rhizoremediation. Appl Environ Microbiol 73: 6224-6232.
3. Barns SM, Takala SL, Kusk CR (1999) Wide distribution and diversity of members of the bacterial kingdom Acidobacterium in the environment. Appl Environ Microbiol 65: 1731-1737.
4. Bedard DL, Ritalahti KM, Loeffler FE (2007) Dehalococcoides population in sediment-free mixed cultures metabolically dechlorinates the commercial polychlorinated biphenyl mixture Aroclor 1260. Appl Environ Microbiol 73: 2513-2521.
5. Blackwood CB, Oaks A, Buyers JS (2005) Phylum- and class-specific PCR primers for general microbial community analysis. Appl Environ Microbiol 71: 6193-6198.
6. Borja J, Taleon DM, Auresenia J, Gallardo S (2005) Polychlorinated biphenyls and their biodegradation. Process Biochem 40: 1999-2013.
7. Calhoun A, King GM (1997) Regulation of root-associated methanotrophy by oxygen availability in the rhizosphere of two aquatic macrophytes. Appl Environ Microbiol 63: 3051-3058.
8. Cámara B, Herrera C, Gonzalez M, Couve E, Hofer B, Seeger, M (2004) From PCBs to highly toxic metabolites by the biphenyl pathway. Environ Microbiol. 6: 842-850.
9. Chekol T, Vough LR, Chaney RL (2004) Phytoremediation of polychlorinated biphenyl-contaminated soils: the rhizosphere effect. Environ Int 30: 799-804.
10. Correa PA, Lin LS, Craig LJ, Dingfei H, Hornbuckle KC, Schnoor JL, VanAken B (2010) The effects of individual PCB congeners on the soil bacterial community structure and the abundance of biphenyl dioxygenase genes. Environ Int 36: 901-906.
11. Cutter LA, Watts JEM, Sowers KR, May HD (2001) Identification of a microorganism that links its growth to the reductive dechlorination of 2, 3, 5, 6-chlorobiphenyl. Environ Microbiol 3: 699-709.
12. Delaune RD, Reddy KR (2005) Redox Potential. In: Hillel D (ed) Encyclopedia of soils in the environment. Academic, London, pp 366-371.
13. Epuri V, Sorensen DL (1997) Phytoremediation of soil and water contaminants. Benzo(a)pyrene and hexachlorobiphenyl contaminated soil: phytoremediation potential. ACS Symposium Series.
14. Fierer N, Jackson JA, Vilgalys R, Jackson RB (2005) Assessment of soil microbial community structure by use of taxon-specific quantitative PCR assays. Appl Environ Microbiol 71: 4117-4120.
15. Furukawa K, Fujihara H (2008) Microbial degradation of polychlorinated biphenyls: biochemical and molecular features. J Biosc Bioeng 105: 433-449.
16. Furukawa K, Suenaga H, Goto M (2004) Biphenyl dioxygenases: functional versatilities and directed evolution. J Bacteriol 186: 5189-5196.
17. Girvin DC, Scott AJ (1997) Polychlorinated biphenyl sorption by soils: measurement of soil-water partition coefficients at equilibrium. Chemosphere 35: 2007-2025.
18. Hendrickson ER, Payne JA, Young RM, Starr MG, Perry MP, Fahnestock S, Ellis DE, Ebersole RC (2002) Molecular analysis of Dehalococcoides 16S ribosomal DNA from chloroethene-contaminated sites throughout North America and Europe. Appl Environ Microbiol 68: 485-495.
19. Lane D (1991) 16 s/23s rRNA sequencing. Goodfellow ESAM, nucleic acid techniques in bacterial systematics. John Wiley, West Sussex.
20. Li H, Liu L, Lin W, Wang S (2011) Plant uptake and in-soil degradation of PCB-5 under varying cropping conditions. Chemosphere 84: 943-949.
21. Lloyd JW, Paige JN (2008) Enhancing polychlorinated biphenyl dechlorination in fresh water sediment with biostimulation and bioaugmentation. Chemosphere 71: 176-182.
22. Mackova M, Prouzova P, Stursa P, Ryslava E, Uhlik O, Beranova K, Rezek J, Kurzawova V, Demnerova K, Macek T (2009) Phyto/rhizoremediation studies using long-term PCB-contaminated soil. Environ Sci Pollut Res 16: 817-829.
23. Manz W, Amann R, Ludwig W, Vancanneyt M, Schleifer KH (1996) Application of a suite of 16S rRNA-specific oligonucleotide probes designed to investigate bacteria of the phylum cytophaga-flavobacter-bacteroides in the natural environment. Microbiology 142: 1097-1106.
24. Meier H, Amann R, Ludwig W, Schleifer KH (1999) Specific oligonucleotide probes for in situ detection of a major group of Gram-positive bacteria with low DNA G+C content. Syst Appl Microbiol 22: 186-196.
25. Muyzer G, Dewaal EC, Uitterlinden AG (1993) Profiling of complex microbial populations by denaturing gradient gel-electrophoresis analysis of polymerase chain reaction-amplified genes-coding for 16S ribosomal-RNA. Appl Environ Microbiol 59: 695-700.
26. Nogales B, Moore ERB, Abraham WR, Timmis KN (1999) Identification of the metabolically active members of a bacterial community in a polychlorinated biphenyl polluted moorland soil. Environ Microbiol 1: 199-212.
27. Nogales B, Moore ERB, Llobet-Brossa E, Rossello-Mora R, Amann R, Timmis KN (2001) Combined use of 16S ribosomal DNA and 16S rRNA to study the bacterial community of polychlorinated biphenyl-polluted soil. Appl Environ Microbiol 67: 1874-1884.
28. Overmann J, Coolen MJL, Tuschak C (1999) Specific detection of different phylogenetic groups of chemocline bacteria based on PCR and denaturing gradient gel electrophoresis of 16S rRNA gene fragments. Arch Microbiol 172: 83-94.
29. Perelo LW (2010) In situ bioremediation of organic pollutants in aquatic sediments. J Hazard Mater 177: 81-89.
30. Pfaffl MW (2001) A new mathematical model for relative quantification in real-time RT-PCR. Nucleic Acids Res 29: e45.
31. Pieper DH, Seeger M (2008) Bacterial metabolism of polychlorinated biphenyls. J Mol Microbiol Biotechnol 15: 121-138.
32. Quensen JF III, Boyd SA, Tiedje JM (1990) Dechlorination of four commercial polychlorinated biphenyl mixtures (Aroclors) by anaerobic microorganisms from sediments. Appl Env Microbiol 8: 2360-2369.
33. Slater H, Gouin T, Leigh MB (2011) Assessing the potential for rhizoremediation of PCB contaminated soils in northern regions using native tree species. Chemosphere 84: 199-206.
34. Smith KE, Schwab AP, Banks MK (2007) Phytoremediation of polychlorinated biphenyl (PCB)-contaminated sediment: a greenhouse feasibility study. J Environ Qual 36: 239-244.
35. Stach JEM, Maldonado LA, Ward AC, Goodfellow M, Bull AT (2003) New primers for the class Actinobacteria: application to marine and terrestrial environments. Environ Microbiol 5: 828-841.
36. Tillmann S, Strompl C, Timmis KN, Abraham WR (2005) Stable isotope probing reveals the dominant role of Burkholderia species in aerobic degradation of PCBs. FEMS Microbiol Ecol 52: 207-217.
37. van Aken B, Correa PA, Schnoor JL (2010) Phytoremediation of polychlorinated biphenyls: new trends and promises. Environ Sci Technol 44: 2767-2776.
38. Vasilyeva GK, Strijakova ER (2007) Bioremediation of soils and sediments contaminated by polychlorinated biphenyls. Microbiology 76: 639-653.
39. Watts JEM, Fagervold SK, May HD, Sowers KR (2005) A PCR-based specific assay reveals a population of bacteria within the Chloroflexi associated with the reductive dehalogenation of polychlorinated biphenyls. Microbiology 151: 2039-2046.
40. Wu Q, Watts JEM, Sowers KR, May HD (2002) Identification of a bacterium that specifically catalyzes the reductive dechlorination of polychlorinated biphenyls with doubly flanked chlorines. Appl Env Microbiol 68: 807-812.