Marine microbial community response to inorganic and organic sediment amendments in laboratory mesocosms

Ecotoxicology and Environmental Safety

Volumn 74, Issue 7, 2011, Pages 1931-1941

  Kan, Jinjun ^a   Wang, Yanbing ^a   Obraztsova, Anna ^a   Rosen, Gunther ^b   Leather, James ^b   Scheckel, Kirk G ^c   Nealson, Kenneth H ^a   Arias Thode, Y Meriah ^b  

^a UNIVERSITY OF SOUTHERN CALIFORNIA   (United States)

^b Naval Command   (United States)

^c U S ENVIRONMENTAL PROTECTION AGENCY   (United States)

Author keywords

Amendments; Bacterial community; Marine sediments; Mesocosms

Indexed keywords

ACETIC ACID; APATITE; CHITIN; INORGANIC COMPOUND; ORGANIC COMPOUND; ZINC;

APATITE; COMMUNITY RESPONSE; DOMINANCE; ECOTOXICOLOGY; INORGANIC COMPOUND; MARINE POLLUTION; MESOCOSM; MICROBIAL COMMUNITY; ORGANIC POLLUTANT; ORGANOCLAY; POPULATION DENSITY; REMEDIATION; SEDIMENT POLLUTION;

ALPHAPROTEOBACTERIA; ARTICLE; BACTERIAL CELL; BACTERIUM IDENTIFICATION; BACTEROIDETES; CELL DENSITY; CELL POPULATION; CONTROLLED STUDY; DENATURING GRADIENT GEL ELECTROPHORESIS; DESULFOVIBRIO; ECOTOXICITY; FIRMICUTES; GAMMAPROTEOBACTERIA; MARINE SPECIES; MESOCOSM; MICROBIAL COMMUNITY; MICROBIAL POPULATION DYNAMICS; NONHUMAN; SEDIMENT; WATER CONTENT; WATER QUALITY; WATER TREATMENT; X RAY ABSORPTION SPECTROSCOPY;

BACTERIA; ECOTOXICOLOGY; GEOLOGIC SEDIMENTS; METALS, HEAVY; SEAWATER; WATER MICROBIOLOGY; WATER POLLUTANTS, CHEMICAL; WATER QUALITY;

ALPHAPROTEOBACTERIA; BACTERIA (MICROORGANISMS); BACTEROIDETES; DELTAPROTEOBACTERIA; DESULFOVIBRIO; FIRMICUTES; GAMMAPROTEOBACTERIA;

EID: 80053131971     PISSN: 01476513     EISSN: 10902414     Source Type: Journal    
DOI: 10.1016/j.ecoenv.2011.06.011     Document Type: Article

References (68)

1. Akob D.M., Mills H.J., Kostka J.E. Metabolically active microbial communities in uranium-contaminated subsurface sediments. FEMS Microbiol. Ecol. 2006, 59:95-107.
2. Anderson R.T., Vrionis H.A., Ortiz-Bernad I., Resch C.T., Long P.E., Dayvault R., Karp K., Marutzky S., Metzler D.R., Peacock R., White D.C., Lowe M., Lovley D.R. Stimulating the in situ activity of Geobacter species to remove uranium from the groundwater of a uranium-contaminated aquifer. Appl. Environ. Microbiol. 2003, 69:5884-5891.
3. Arias Y.M., Tebo B.M. Comparative studies of Cr (VI) reduction by sulfidogenic and non-sulfidogenic microbial communities. Appl. Environ. Microbiol. 2003, 69:1847-1853.
4. Arias Y.M., Obraztsova A., Tebo B.M., Green-Ruiz C. Natural attenuation of Cr(VI) contamination in laboratory mesocosms. Geomicrobiol. J. 2003, 20:389-401.
5. Ayyakkannu K., Chandramohan D. Occurrence and distribution of phosphate solubilizing bacteria and phosphatase in marine sediments at Porto Novo. Mar. Biol. 1971, 11:201-205.
6. Barnes L.J., Scheeren P.J.M., Buisman C.J.N. Microbial removal of heavy metal and sulfate from contaminated groundwaters. Emerging Technology for Bioremediation of Metals 1994, 38-49. CRC Press. J.L. Means, R.E. Hinchee (Eds.).
7. Barton L.L., Fauque G.D. Biochemistry, physiology and biotechnology of sulfate-reducing bacteria. Adv. Appl. Microbiol. 2009, 68:41-98.
8. Bassler B.L., Yu C., Lee Y.C., Roseman S. Chitin utilization by marine bacteria: degradation and catabolism of chitin oligosaccharides by Vibrio furnissii. J. Biol. Chem. 1991, 266:24276-24286.
9. Baturin G.N. Coastal Upwelling, Vol B 1983, 11. Plenum Press. J. Thiede, E. Suess (Eds.).
10. Benguella B., Benaissa H. Cadmium removal from aqueous solutions by chitin: kinetic and equilibrium studies. Water Res. 2002, 36:2463-2474.
11. Bretschger O., Obraztsova A., Sturm C.A., Chang I.S., Gorby Y.A., Reed S.B., Culley D.E., Reardon C.L., Barua S., Romine M.F., Zhou J., Beliaev A.S., Bouhenni R., Saffarini D., Mansfeld F., Kim B.H., Fredrickson J.K., Nealson K.H. Current production and metal oxide reduction by Shewanella oneidensis MR-1 wild type and mutants. Appl. Environ. Microbiol. 2007, 73:7003-7012.
12. Brierley C.L. Metal immobilization using bacteria. Microbial Mineral Recovery 1990, 303-323. McGraw-Hill. H.L. Ehrlich, C.L. Brierley (Eds.).
13. Brown S., Chaney R., Hallfrisch J., Ryan J.A., Berti W.R. In situ soil treatments to reduce the phyto and bioavailability of lead, zinc, and cadmium. J. Environ. Qual. 2004, 33:522-531.
14. Buchan A., Gonzalez J.M., Moran M.A. Overview of the marine Roseobacter lineage. Appl. Environ. Microbiol. 2005, 71:5665-5667.
15. Caccavo F., Coates J.D., Rossellomora R.A., Ludwig W., Schleifer K.H., Lovley D.R., McInerney M.J. Geovibrio ferrireducens, a phylogenetically distinct dissimilatory Fe (III)-reducing bacterium. Arch. Microbiol. 1996, 165:370-376.
16. Cao X.D., Ma L.Q., Wahbi A. Immobilization of Cu, Zn, and Pb in contaminated soils using phosphate rock and phosphoric acid. J. Hazard. Mat. 2009, 164:555-564.
17. 13C-labeled acetate at the field scale: detection of microbes responsible for reduction of U(VI). Environ. Sci. Technol. 2005, 39:9039-9048.
18. Chen F., Lu J., Binder B.J., Liu Y., Hodson R.E. Application of digital image analysis and flow cytometry to enumerate marine viruses stained with SYBR gold. Appl. Environ. Microbiol. 2001, 67:539-545.
19. Cho Y.-M., Ghosh U., Kennedy A.J., Grossman A., Ray G., Tomaszewski J.E., Smithenry D.W., Bridges T.S., Luthy R.G. Field application of activated carbon amendment for in-situ stabilization of polychlorinated biphenyls in marine sediment. Environ. Sci. Technol. 2009, 43:3815-3823.
20. De Souza B.D., Nair S., Chandramohan D. Phosphate solubilizing bacteria around Indian peninsula. Indian J. Mar. Sci. 2000, 29:48-51.
21. Edlund A., Hårdeman F., Jansson J.K., Sjöling S. Active bacterial community structure along vertical redox gradients in Baltic Sea sediment. Environ. Microbiol. 2008, 10:2051-2063.
22. Garau G., Castaldi P., Santona L., Deiana P., Melis P. Influence of red mud, zeolite and lime on heavy metal immobilization, culturable heterotrophic microbial populations and enzyme activities in a contaminated soil. Geoderma 2007, 142:47-57.
23. Ingram-Smith C., Martin S.R., Smith K.S. Acetate kinase: not just a bacterial enzyme. Trends Microbiol. 2006, 14:249-253.
24. Istok J.D., Senko J.M., Krumholtz L.R., Watson D., Bogle M.A., Peacock A., Chang Y.J., White D.C. In situ bioreduction of technetium and uranium in a nitrate-contaminated aquifer. Environ. Sci. Technol. 2004, 38:468-475.
25. Jezequel K., Lebeau T. Soil bioaugmentation by free and immobilized bacteria to reduce potentially phytoavailable cadmium. Bioresour. Technol. 2008, 99:690-698.
26. Jukes T.H., Cantor C.R. Evolution of protein molecules. Mammalian Protein Metabolism 1969, 21-132. Academic Press. H.N. Munro (Ed.).
27. Kan J., Wang K., Chen F. Temporal variation and detection limit of an estuarine bacterioplankton community analyzed by denaturing gradient gel electrophoresis (DGGE). Aquat. Microb. Ecol. 2006, 42:7-18.
28. Katz, C., 2007. Sediment site assessment study submarine base, San Diego. Final Report.
29. Kieft T.L., Fredrickson J.K., Onstott T.C., Gorby Y.A., Kostandarithes H.M., Bailey T.J., Kennedy D.W., Li S.W., Plymale A.E., Spadoni C.M., Gray M.S. Dissimilatory reduction of Fe(III) and other electron acceptors by a Thermus isolate. Appl. Environ. Microbiol. 1999, 65:1214-1221.
30. Kleikemper J., Pelz O., Schroth M.H., Zeyer J. Sulfate-reducing bacterial community response to carbon source amendments in contaminated aqufer microcosms. FEMS Microbiol. Ecol. 2002, 42:109-118.
31. Laperche V., Traina S.J., Gaddam P., Logan T.J. Chemical and mineralogical characterizations of Pb in a contaminated soil: reactions with synthetic apatite. Environ. Sci. Technol. 1996, 30:3321-3326.
32. Lear G., Song B., Gault A.G., Polya D.A., Lloyd J.R. Molecular analysis of arsenate-reducing bacteria within Cambodian sediments following amendment with acetate. Appl. Environ. Microbiol. 2007, 73:1041-1048.
33. Leather, J.M., 1993. The Geochemistry of Phosphorites and other Phosphatic Sediments from the Peru Margin and the Monterey Formation, California: Carbon and Oxygen Isotopes of Carbonate Fluorapatite (CFA) and Carbon and Phosphorus Accumulation Rates. Ph.D. Dissertation in Geochemistry. University of California, Scripps Institution of Oceanography. San Diego, CA.
34. Lovley D.R. Dissimilatory metal reduction. Annu. Rev. Microbiol. 1993, 47:263-290.
35. Lukas F.S., Hollibaugh J.T. Response of sediment bacterial assemblages to selenate and acetate amendments. Environ. Sci. Technol. 2001, 35:528-534.
36. Ma Q.Y., Logan T.J., Traina S.J. Lead immobilization from aqueous solutions and contaminated soils using phosphate rocks. Environ. Sci. Technol. 1995, 29:1118-1126.
37. McDonough K.M., Murphy P., Olsta J., Zhu Y., Reible D., Lowry G.V. Development and placement of a sorbent-amended thin layer sediment cap in the Anacostia river. Soil Sediment Contam. 2007, 16:313-322.
38. Melton,V., Gardner, K., 2004. http://www.ceps.unh.edu/news/releases04/apatite404.htm.
39. Moran M.A., Gonzalez J.M., Kiene R.P. Linking a bacterial taxon to sulfur cycling in the sea: studies of the marine Roseobacter group. Geomicrobiol. J. 2003, 20:375-388.
40. Moran M.A., Belas R., Schell M.A., Gonzalez J.M., Sun F., Sun S., Binder B.J., Edmonds J., Ye W., Orcutt B., Howard E.C., Meile C., Palefsky W., Goesmann A., Ren Q., Paulsen I., Ulrich L.E., Thompson L.S., Saunders E., Buchan A. Ecological genomics of marine Roseobacters. Appl. Environ. Microbiol. 2007, 73:4559-4569.
41. Millward R.N., Bridges T.S., Ghosh U., Zimmerman J.R., Luthy R.G. Addition of activated carbon to sediments to reduce PCB bioaccumulation by a polychaete (Neanthes arenaceodentata) and an amphipod (Leptocheirus plumulosus). Environ. Sci. Technol. 2005, 39:2880-2887.
42. Mortland M.M., Shaobai S., Boyd S.A. Clay organic complexes as adsorbents for phenol and chlorophenols. Clays Clay Miner. 1986, 34:581-585.
43. Muyzer G., de Waal E.C., Uitterlinden A.G. Profiling of complex microbial populations by denaturing gradient gel electrophoresis analysis of polymerase chain reaction-amplified genes coding for 16S rRNA. Appl. Environ. Microbiol. 1993, 59:695-700.
44. Muyzer G., Stams A.J.M. The ecology and biotechnology of sulphate-reducing bacteria. Nat. Rev. Microbiol. 2008, 6:441-454.
45. Nealson K.H. Sediment Bacteria: who's there, what are they doing, and what's new?. Annu. Rev. Earth Planet. Sci. 1997, 25:403-434.
46. Nriagu J.O. Lead orthophosphates-IV formation and stability in the environment. Geochim. Cosmochim. Acta 1974, 38:887-898.
47. Øvreås L., Forney L., Daae F.L., Torsvik V. Distribution of bacterioplankton in meromictic Lake Saelenvannet, as determined by denaturing gradient gel electrophoresis of PCR-amplified gene fragments coding for 16S rRNA. Appl. Environ. Microbiol. 1997, 63:3367-3373.
48. Paller M.H., Knox A.S. Amendments for the in situ remediation of contaminated sediments: evaluation of potential environmental impacts. Sci. Total Environ. 2010, 408:4894-4900.
49. Perry K.A., Kostka J.E., Luther J.W., Nealson K.H. Mediation of sulfur speciation by a Black Sea facultative anaerobe. Science 1993, 259:801-803.
50. Ravel B., Newville M. ATHENA, ARTEMIS, HEPHAESTUS: data analysis for X-ray absorption spectroscopy using IFEFFIT. J. Synchrotron. Rad. 2005, 12:537-541.
51. Reimers C.E., Kastner M., Garrison R.E. Phosphate Deposits of the World 1990, 300. Cambridge University Press. W.C. Burnett, S.R. Riggs (Eds.).
52. Rivadeneyra M.A., Delgado R., del Moral A., Ferrer M.R., Ramos-Cormenzana A. Precipitation of calcium carbonate by Vibrio spp. from an inland saltern. FEMS Microbiol. Ecol. 1994, 13:197-204.
53. Rivadeneyra M.A., Delgado G., Delgado R., del Moral A., Ferrer M.R., Ramos-Cormenzana A. Precipitation of carbonates by Bacillus spp. isolated from saline soils. Geomicrobiol. J. 1994, 11:175-184.
54. Rodriguez H., Fraga R. Review: phosphate solubilizing bacteria and their role in plant growth promotion. Biotechnol. Adv. 1999, 17:319-339.
55. Rosen, G., Leather, J., Kan, J., Arias-Thode, Y.M., Ecotoxicological response of marine organisms to inorganic and organic sediment amendments in laboratory exposures. Excotoxicolol. Environ. Saf., this issue, doi:. http://10.1016/j.ecoenv.2011.06.023.
56. Saitou N., Nei M. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol. Biol. Evol. 1987, 4:406-425.
57. Scäfer H., Muyzer G. Denaturing gradient gel electrophoresis in marine microbial ecology. Methods in Microbiology 2001, 425-468. Academic Press. J. Paul (Ed.).
58. Schulz H.N., Schulz H.D. Large sulfur bacteria and the formation of phosphorite. Science 2005, 307:416-418.
59. Scheckel K.G., Ryan J.A., Allen D., Lescano N.V. Determining speciation of Pb in phosphate-amended soils: method limitations. Sci.Total Environ. 2005, 350:261-272.
60. Scheckel K.G., Williams A.G.B., McDermott G., Gratson D., Neptune D., Ryan J.A. Lead speciation and bioavailability in apatite amended sediments. Appl. Environ. Soil Sci. 2011, 1-8.
61. Seager T.P., Gardner K.H. Barriers to adoption of novel environmental technologies: contaminated sediments. Strategic Management of Marine Ecosystems 2005, 298-312. Springer. E. Levner, I. Linkov, J.M. Proth (Eds.).
62. Tebo B.M. Metal precipitation by marine bacteria: potential for biotechnological applications. Genetic Engineering 1995, 231-261. Plenum Press. J.K. Setlow (Ed.).
63. Tebo B.M., Obraztsova A.Y. Chromium(VI), manganese(IV), uranium(VI), and iron(III): electron acceptors for growth for a novel sporeforming sulfate-reducing bacterium. FEMS Microbiol. Lett. 1998, 162:193-198.
64. Uzair B., Ahmed N. Solubilization of insoluble inorganic phosphate compounds by attached and free-living marine bacteria. J. Basic Appl. Sci. 2007, 3:59-63.
65. USEPA, 1989. Ambient water quality criteria for ammonia (saltwater)-1989. EPA 440/5-88-004. Office of Water Regulations and Standards, Criteria and Standards Division, Washington, DC, USA.
66. Vera S.M., Werth C.J., Sanford R.A. Evaluation of different polymeric organic materials for creating conditions that favor reductive processes in groundwater. Bioremed. J. 2001, 5:169-181.
67. Werth, C.J., Sanford, R.A., St John, R., Barnuevo, G.C., 2005. Long-term management of chlorinated solvent plumes using a slow-release in situ electron donor source. Abstract Poster G-4. In: SERDP/ ESTCP Meeting 2005, Washington, DC.
68. Zhou D., Zhang L., Guo S. Mechanisms of lead biosorption on cellulose/chitin beads. Water Res. 2005, 39:3755-3762.