Response of an archaeal community from anoxic coastal marine sediments To experimental petroleum contamination

Aquatic Microbial Ecology

Volumn 59, Issue 1, 2010, Pages 25-31

  Miralles, Gilles ^a   Acquaviva, Monique ^a   Bertrand, Jean Claude ^a   Cuny, Philippe ^a  

^a STATION MARINE D ENDOUME   (France)

Author keywords

Anoxic coastal sediments; Archaea; Hydrocarbon degradation; Petroleum contamination

Indexed keywords

ARCHAEA; BACTERIA (MICROORGANISMS); CRENARCHAEOTA; EURYARCHAEOTA; METHANOCOCCOIDES; METHANOLOBUS; METHANOSARCINA;

EID: 77954282280     PISSN: 09483055     EISSN: None     Source Type: Journal    
DOI: 10.3354/ame01379     Document Type: Article

References (39)

1. Aeckersberg F, Rainey FA, Widdel F (1998) Growth, natural relationships, cellular fatty acids and metabolic adaptation of sulfate-reducing bacteria that utilize long-chain alkanes under anoxic conditions. Arch Microbiol 170:361-369
2. Baker GC, Smith JJ, Cowan DA (2003) Review and reanalysis of domain-specific 16S primers. J Microbiol Methods 55:541-555
3. Bertrand JC, Almallah M, Acquaviva M, Mille G (1990) Biodegradation of hydrocarbons by an extremely halophilic archaebacterium. Lett Appl Microbiol 11:260-263
4. Bintrim SB, Donohue TJ, Handelsman J, Roberts GP, Goodman RM (1997) Molecular phylogeny of Archaea from soil. Proc Natl Acad Sci USA 94:277-282
5. Boetius A, Ravenschlag K, Schubert CJ, Rickert D and others (2000) A marine microbial consortium apparently mediating anaerobic oxidation of methane. Nature 407:623-626
6. Bowman JP, McCuaig RD (2003) Biodiversity, community structural shifts, and biogeography of prokaryotes within Antarctic continental shelf sediment. Appl Environ Microbiol 69:2463-2483
7. Chao A (1984) Nonparametric estimation of the number of classes in a population. Scand J Stat 11:265-270
8. Cravo-Laureau C, Matheron R, Cayol JL, Joulian C, Hirschler-Rea A (2004) Desulfatibacillum aliphaticivorans gen. nov., sp. nov., an n-alkane- and n-alkene-degrading, sulfate-reducing bacterium. Int J Syst Evol Microbiol 54:77-83
9. DeLong EF (1998) Everything in moderation: Archaea as 'non-extremophiles'. Curr Opin Genet Dev 8:649-654
10. Farrelly V, Rainey F, Stackebrandt E (1995) Effect of genome size and rrn gene copy number on PCR amplification of 16S rRNA genes from a mixture of bacterial species. Appl Environ Microbiol 61:2798-2801
11. Ficker M, Krastel K, Orlicky S, Edwards E (1999) Molecular characterization of a toluene-degrading methanogenic consortium. Appl Environ Microbiol 65:5576-5585
12. Hammer Ø, Harper DAT, Ryan PD (2001) PAST: paleontological statistics software package for education and data analysis. Palaeontol Electron 4:1-9
13. Harms G, Zengler K, Rabus R, Aeckersberg F, Minz D, Rossello-Mora R, Widdel F (1999) Anaerobic oxidation of o-xylene, m-xylene, and homologous alkylbenzenes by new types of sulfate-reducing bacteria. Appl Environ Microbiol 65:999-1004
14. Head IM, Jones DM, Roling WFM (2006) Marine microorganisms make a meal of oil. Nat Rev Microbiol 4:173-182
15. Jurgens G, Glockner FO, Amann R, Saano A, Montonen L, Likolammi M, Munster U (2000) Identification of novel Archaea in bacterioplankton of a boreal forest lake by phylogenetic analysis and fluorescent in situ hybridization. FEMS Microbiol Ecol 34:45-56
16. Kleikemper J, Pombo SA, Schroth MH, Sigler WV, Pesaro M, Zeyer J (2005) Activity and diversity of methanogens in a petroleum hydrocarbon-contaminated aquifer. Appl Environ Microbiol 71:149-158
17. Kniemeyer O, Musat F, Sievert SM, Knittel K and others (2007) Anaerobic oxidation of short-chain hydrocarbons by marine sulphate-reducing bacteria. Nature 449:898-902
18. Kulichevskaya IS, Milekhina EI, Borzenkov IA, Zvyagintseva IS, Belyaev SS (1992) Oxidation of petroleum hydrocarbons by extremely halophilic archaebacteria. Microbiology 60:596-601
19. Ludwig W, Strunk O, Westram R, Richter L and others (2004) ARB: a software environment for sequence data. Nucleic Acids Res 32:1363-1371
20. Macnaughton SJ, Stephen JR, Venosa AD, Davis GA, Chang YJ, White DC (1999) Microbial population changes during bioremediation of an experimental oil spill. Appl Environ Microbiol 65:3566-3574
21. Magot M, Ollivier B, Patel BKC (2000) Microbiology of petroleum reservoirs. Antonie Leeuwenhoek 77:103-116
22. Miralles G, Grossi V, Acquaviva M, Duran R, Bertrand JC, Cuny P (2007a) Alkane biodegradation and dynamics of phylogenetic subgroups of sulfate reducing bacteria in an anoxic coastal marine sediment artificially contaminated with oil. Chemosphere 68:1327-1334
23. Miralles G, Nérini D, Manté C, Acquaviva M and others (2007b) Effects of spilled oil on bacterial communities of Mediterranean coastal anoxic sediments chronically subjected to oil hydrocarbon contamination. Microb Ecol 54:646-661
24. Muschenheim DK, Lee K (2002) Removal of oil from the sea surface through particulate interactions: review and prospectus. Spill Sci Technol Bull 8:9-18
25. Orcutt B, Samarkin V, Boetius A, Joye SB (2008) On the relationship between methane production and oxidation by anaerobic methanotrophic communities from cold seeps of the Gulf of Mexico. Environ Microbiol 10:1108-1117
26. Orphan VJ, Taylor LT, Hafenbradl D, Delong EF (2000) Culture-dependent and culture-independent characterization of microbial assemblages associated with hightemperature petroleum reservoirs. Appl Environ Microbiol 66:700-711
27. Parkes J (1999) Cracking anaerobic bacteria. Nature 401:217-218
28. Quaiser A, Ochsenreiter T, Klenk HP, Kletzin A and others (2002) First insight into the genome of an uncultivated crenarchaeote from soil. Environ Microbiol 4:603-611
29. Schleper C, Jurgens G, Jonuscheit M (2005) Genomic studies of uncultivated Archaea. Nat Rev Microbiol 3:479-488
30. Singleton DR, Furlong MA, Rathbun SL, Whitman WB (2001) Quantitative comparisons of 16S rRNA gene sequence libraries from environmental samples. Appl Environ Microbiol 67:4374-4376
31. Stetter KO, Huber R, Blochl E, Kurr M and others (1993) Hyperthermophilic archaea are thriving in deep North Sea and Alaskan oil reservoirs. Nature 365:743-745
32. Tamura K, Dudley J, Nei M, Kumar S (2007) MEGA4: molecular evolutionary genetics analysis (MEGA) software version 4.0. Mol Biol Evol 24:1596-1599
33. Thompson JD, Gibson TJ, Plewniak F, Jeanmougin F, Higgins DG (1997) The ClustalX windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res 25:4876-4882
34. von Wintzingerode F, Göbel UB, Stackebrandt E (1997) Determination of microbial diversity in environmental samples: pitfalls of PCR-based rRNA analysis. FEMS Microbiol Rev 21:213-229
35. Watanabe K, Kodama Y, Hamamura N, Kaku N (2002) Diversity, abundance, and activity of archaeal populations in oil-contaminated groundwater accumulated at the bottom of an underground crude oil storage cavity. Appl Environ Microbiol 68:3899-3907
36. Widdel F, Rabus R (2001) Anaerobic biodegradation of saturated and aromatic hydrocarbons. Curr Opin Biotechnol 12:259-276
37. Yakimov MM, Denaro R, Genovese M, Cappello S and others (2005) Natural microbial diversity in superficial sediments of Milazzo Harbor (Sicily) and community successions during microcosm enrichment with various hydrocarbons. Environ Microbiol 7:1426-1441
38. Zengler K, Richnow HH, Rossello-Mora R, Michaelis W, Widdel F (1999) Methane formation from long-chain alkanes by anaerobic microorganisms. Nature 401:266-269
39. Zvyagintseva IS, Belyaev SS, Borzenkov IA, Kostrikina NA, Milekhina EI, Isanov MV (1995) Halophilic archaebacteria from the Kalamkass oil field. Microbiology 64:67-71