Enhancement of the microbial community biomass and diversity during air sparging bioremediation of a soil highly contaminated with kerosene and BTEX

Applied Microbiology and Biotechnology

Volumn 82, Issue 3, 2009, Pages 565-577

  Kabelitz, Nadja ^a   MacHackova, Jirina ^b   Imfeld, Gwenaël ^a   Brennerova, Maria ^c   Pieper, Dietmar H ^d   Heipieper, Hermann J ^a   Junca, Howard ^d  

^a HELMHOLTZ CENTRE FOR ENVIRONMENTAL RESEARCH UFZ   (Germany)

^b Earth Tech CZ Sro   (Czech Republic)

^c INSTITUTE OF MICROBIOLOGY   (Czech Republic)

^d HELMHOLTZ CENTRE FOR INFECTION RESEARCH   (Germany)

Author keywords

Air sparging; Biodiversity; Bioremediation; BTEX; Microbiota

Indexed keywords

16S RRNA GENES; AIR FORCE BASE; AIR SPARGING; BIOVENTING; BTEX; COMPLEX COMPOSITIONS; CONTAMINATION LEVELS; CZECH REPUBLICS; JET FUELS; MICROBIAL COMMUNITIES; MICROBIOTA; PHOSPHOLIPID FATTY ACIDS; SELECTIVE PRESSURES; SOIL MICROBIAL COMMUNITIES;

AIR; AROMATIC COMPOUNDS; BIODEGRADATION; BIODIVERSITY; BIOLOGICAL MATERIALS; BIOMASS; BIOREMEDIATION; BIOTECHNOLOGY; CONTAMINATION; FATTY ACIDS; PHOSPHOLIPIDS; SOILS;

SOIL POLLUTION;

BIODIVERSITY; BIOMASS; BIOVENTING; BTEX; COMMUNITY DYNAMICS; FATTY ACID; MICROBIAL COMMUNITY; OIL POLLUTION; PHOSPHOLIPID; RNA; SOIL MICROORGANISM; SOIL POLLUTION; SPECIES DIVERSITY; TAXONOMY;

BACTERIA; BIODEGRADATION, ENVIRONMENTAL; BIODIVERSITY; BIOMASS; HYDROCARBONS, AROMATIC; KEROSENE; MOLECULAR SEQUENCE DATA; PHYLOGENY; SOIL MICROBIOLOGY; SOIL POLLUTANTS;

CENTRAL EUROPE; CZECH REPUBLIC; EURASIA; EUROPE;

BACTERIA (MICROORGANISMS);

EID: 60549099336     PISSN: 01757598     EISSN: None     Source Type: Journal    
DOI: 10.1007/s00253-009-1868-0     Document Type: Article

References (66)

1. SG Acinas V Klepac-Ceraj DE Hunt C Pharino I Ceraj DL Distel MF Polz 2004 Fine-scale phylogenetic architecture of a complex bacterial community Nature 430 551 554
2. SG Acinas LA Marcelino V Klepac-Ceraj MF Polz 2004 Divergence and redundancy of 16S rRNA sequences in genomes with multiple rrn operons J Bacteriol 186 2629 2635
3. JP Allen EA Atekwana EA Atekwana JW Duris DD Werkema S Rossbach 2007 The microbial community structure in petroleum-contaminated sediments corresponds to geophysical signatures Appl Environ Microbiol 73 2860 2870
4. RI Amann W Ludwig KH Schleifer 1995 Phylogenetic identification and in situ detection of individual microbial cells without cultivation Microbiol Rev 59 143 169
5. Y Anzai H Kim JY Park H Wakabayashi H Oyaizu 2000 Phylogenetic affiliation of the pseudomonads based on 16S rRNA sequence Int J Syst Evol Microbiol 50 1563 1589
6. KE Ashelford NA Chuzhanova JC Fry AJ Jones AJ Weightman 2006 New screening software shows that most recent large 16S rRNA gene clone libraries contain chimeras Appl Environ Microbiol 72 5734 5741
7. DH Bass NA Hastings RA Brown 2000 Performance of air sparging systems: a review of case studies J Hazard Mater 72 101 119
8. EG Bligh WJ Dyer 1959 A rapid method of total lipid extraction and purification Can J Biochem Physiol 37 911 917
9. JR Cole 2003 The Ribosomal Database Project (RDP-II): previewing a new autoaligner that allows regular updates and the new prokaryotic taxonomy Nucleic Acids Res 31 442 443
10. TP Curtis WT Sloan JW Scannell 2002 Estimating prokaryotic diversity and its limits Proc Nat Acad Sci U S A 99 10494 10499
11. BM Duineveld GA Kowalchuk A Keijzer JD van Elsas JA van Veen 2001 Analysis of bacterial communities in the rhizosphere of chrysanthemum via denaturing gradient gel electrophoresis of PCR-amplified 16S rRNA as well as DNA fragments coding for 16S rRNA Appl Environ Microbiol 67 172 178
12. RC Edgar 2004 MUSCLE: a multiple sequence alignment method with reduced time and space complexity BMC Bioinformatics 5 113
13. J Felsenstein 1989 PHYLIP-Phylogeny Inference Package (Version 3.2) Cladistics 5 164 166
14. AS Ferguson 2007 Microbial analysis of soil and groundwater from a gasworks site and comparison with a sequenced biological reactive barrier remediation process J Appl Microbiol 102 1227 1238
15. A Frostegard E Baath A Tunlid 1993 Shifts in the structure of soil microbial communities in limed forests as revealed by phospholipid fatty-acid analysis Soil Biol Biochem 25 723 730
16. A Frostegard A Tunlid E Baath 1993 Phospholipid fatty acid composition, biomass, and activity of microbial communities from 2 soil types experimentally exposed to different heavy metals Appl Environ Microbiol 59 3605 3617
17. A Frostegard A Tunlid E Baath 1996 Changes in microbial community structure during long-term incubation in two soils experimentally contaminated with metals Soil Biol Biochem 28 55 63
18. B Gerdes R Brinkmeyer G Dieckmann E Helmke 2005 Influence of crude oil on changes of bacterial communities in Arctic sea-ice FEMS Microbiol Ecol 53 129 139
19. IJ Good 1953 The population frequencies of species and the estimation of population parameters Biometrika 40 237 264
20. JB Guckert MA Hood DC White 1986 Phospholipid ester-linked fatty acid profile changes during nutrient deprivation of Vibrio cholerae: increases in the trans/cis ratio and proportions of cyclopropyl fatty acids Appl Environ Microbiol 52 794 801
21. JB Guckert DB Ringelberg DC White RS Hanson BJ Bratina 1991 Membrane fatty acids as phenotypic markers in the polyphasic taxonomy of methylotrophs within the Proteobacteria J Gen Microbiol 137 2631 2641
22. BL Hall TE Lachmar RR Dupont 2000 Field monitoring and performance evaluation of an in situ air sparging system at a gasoline-contaminated site J Hazard Mater 74 165 186
23. HJ Heipieper JAM de Bont 1994 Adaptation of Pseudomonas putida S12 to ethanol and toluene at the level of the fatty acid composition of membranes Appl Environ Microbiol 60 4440 4444
24. HJ Heipieper R Diefenbach H Keweloh 1992 Conversion of cis-unsaturated fatty acids to trans, a possible mechanism for the protection of phenol-degrading Pseudomonas putida P8 from substrate toxicity Appl Environ Microbiol 58 1847 1852
25. HJ Heipieper G Meulenbeld Q van Oirschot JAM de Bont 1996 Effect of environmental factors on the trans/cis ratio of unsaturated fatty acids in Pseudomonas putida S12 Appl Environ Microbiol 62 2773 2777
26. G Heron JS Gierke B Faulkner S Mravik L Wood CG Enfield 2002 Pulsed air sparging in aquifers contaminated with dense nonaqueous phase liquids Ground Water Monit Remediat 22 73 82
27. PH Janssen 2006 Identifying the dominant soil bacterial taxa in libraries of 16S rRNA and 16S rRNA genes Appl Environ Microbiol 72 1719 1728
28. H Junca DH Pieper 2004 Functional gene diversity analysis in BTEX contaminated soils by means of PCR-SSCP DNA fingerprinting: comparative diversity assessment against bacterial isolates and PCR-DNA clone libraries Environ Microbiol 6 95 110
29. CW Kaplan CL Kitts 2004 Bacterial succession in a petroleum land treatment unit Appl Environ Microbiol 70 1777 1786
30. Y Kasai Y Takahata T Hoaki K Watanabe 2005 Physiological and molecular characterization of a microbial community established in unsaturated, petroleum-contaminated soil Environ Microbiol 7 806 818
31. H Keweloh HJ Heipieper 1996 Trans unsaturated fatty acids in bacteria Lipids 31 129 137
32. R Kindler A Miltner HH Richnow M Kastner 2006 Fate of gram-negative bacterial biomass in soil-mineralization and contribution to SOM Soil Biol Biochem 38 2860 2870
33. S Kumar K Tamura M Nei 2004 MEGA3: integrated software for molecular evolutionary genetics analysis and sequence alignment Brief Bioinform 5 150 163
34. DJ Lane 1991
35. NM Leys A Ryngaert L Bastiaens W Verstraete EM Top D Springael 2004 Occurrence and phylogenetic diversity of Sphingomonas strains in soils contaminated with polycyclic aromatic hydrocarbons Appl Environ Microbiol 70 1944 1955
36. NM Leys A Ryngaert L Bastiaens EM Top W Verstraete D Springael 2005 Culture independent detection of Sphingomonas sp EPA 505 related strains in soils contaminated with polycyclic aromatic hydrocarbons (PAHs) Microb Ecol 49 443 450
37. Machackova J, Hercik F, Proksova S (2005) In situ bioremediation of jet fuel at the former soviet Hradčany Air Force Base. In: Proceedings of the Eight International In Situ and On Site Bioremediation Symposium, Battelle Memorial Institute, Baltimore, USA
38. SJ MacNaughton JR Stephen AD Venosa GA Davis YJ Chang DC White 1999 Microbial population changes during bioremediation of an experimental oil spill Appl Environ Microbiol 65 3566 3574
39. JR Marchesi T Sato AJ Weightman TA Martin JC Fry SJ Hiom D Dymock WG Wade 1998 Design and evaluation of useful bacterium-specific PCR primers that amplify genes coding for bacterial 16S rRNA Appl Environ Microbiol 64 2333
40. R Margesin M Hammerle D Tscherko 2007 Microbial activity and community composition during bioremediation of diesel-oil-contaminated soil: effects of hydrocarbon concentration, fertilizers, and incubation time Microb Ecol 53 259 269
41. MC Marley DJ Hazebrouck MT Walsh 1992 The application of in situ air sparging as an innovative soils and ground-water remediation technology Ground Water Monit Remediat 12 137 145
42. J Masak J Machackova M Siglova A Cejkova V Jirku 2003 Capacity of the bioremediation technology for clean-up of soil and groundwater contaminated with petroleum hydrocarbons J Environ Sci Health A 38 2447 2452
43. JA McGarvey WG Miller RH Zhang YG Ma F Mitloehner 2007 Bacterial population dynamics in dairy waste during aerobic and anaerobic treatment and subsequent storage Appl Environ Microbiol 73 193 202
44. E Moore B Tindall V Santos D Pieper JL Ramos N Palleroni 2006
45. JM Neefs Y Vandepeer P Derijk S Chapelle R Dewachter 1993 Compilation of small ribosomal subunit RNA structures Nucleic Acids Res 21 3025 3049
46. Nicolas KB (1997) GeneDoc 2.6.02. Available at http://www.psc.edu/biomed/ genedoc/
47. A Peix R Rivas PF Mateos E Martinez-Molina C Rodriguez-Barrueco E Velazquez 2003 Pseudomonas rhizosphaerae sp nov., a novel species that actively solubilizes phosphate in vitro Int J Syst Evol Microbiol 53 2067 2072
48. T Pennanen A Frostegard H Fritze E Baath 1996 Phospholipid fatty acid composition and heavy metal tolerance of soil microbial communities along two heavy metal-polluted gradients in coniferous forests Appl Environ Microbiol 62 420 428
49. J Pett-Ridge MK Firestone 2005 Redox fluctuation structures microbial communities in a wet tropical soil Appl Environ Microbiol 71 6998 7007
50. N Popp M Schlomann M Mau 2006 Bacterial diversity in the active stage of a bioremediation system for mineral oil hydrocarbon-contaminated soils Microbiology 152 3291 3304
51. KR Reddy S Kosgi JN Zhou 1995 A Review of in-situ air sparging for the remediation of voc-contaminated saturated soils and groundwater Hazard Waste Hazard Mater 12 97 118
52. Sambrook J, Fritsch EF, Maniatis T (1989) Molecular cloning: a laboratory manual, 2nd edn. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY
53. DJ Saul JM Aislabie CE Brown L Harris JM Foght 2005 Hydrocarbon contamination changes the bacterial diversity of soil from around Scott Base, Antarctica FEMS Microbiol Ecol 53 141 155
54. PD Schloss J Handelsman 2004 Status of the microbial census Microbiol Mol Biol Rev 68 686 691
55. PD Schloss J Handelsman 2005 Introducing DOTUR, a computer program for defining operational taxonomic units and estimating species richness Appl Environ Microbiol 71 1501 1506
56. PD Schloss J Handelsman 2006 Toward a census of bacteria in soil PLoS Comput Biol 2 786 793
57. J Sikkema JA de Bont B Poolman 1995 Mechanisms of membrane toxicity of hydrocarbons Microbiol Rev 59 201 222
58. E Smit P Leeflang S Gommans J van den Broek S van Mil K Wernars 2001 Diversity and seasonal fluctuations of the dominant members of the bacterial soil community in a wheat field as determined by cultivation and molecular methods Appl Environ Microbiol 67 2284 2291
59. JD Thompson DG Higgins TJ Gibson 1994 CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice Nucleic Acids Res 22 4673 4680
60. V Torsvik L Ovreas 2002 Microbial diversity and function in soil: from genes to ecosystems Curr Opin Microbiol 5 240 245
61. M Watt P Hugenholtz R White K Vinall 2006 Numbers and locations of native bacteria on field-grown wheat roots quantified by fluorescence in situ hybridization (FISH) Environ Microbiol 8 871 884
62. DC White 1993 In-situ measurement of microbial biomass, community structure and nutritional-status Philos Trans R Soc Lond Ser A Math Phys Sci 344 59 67
63. DC White JO Stair DB Ringelberg 1996 Quantitative comparisons of in situ microbial biodiversity by signature biomarker analysis J Ind Microbiol Biotech 17 185 196
64. XM Yang D Beckmann S Fiorenza C Niedermeier 2005 Field study of pulsed air sparging for remediation of petroleum hydrocarbon contaminated soil and groundwater Environ Sci Technol 39 7279 7286
65. CP Yu R Ahuja G Sayler KH Chu 2005 Quantitative molecular assay for fingerprinting microbial communities of wastewater and estrogen-degrading consortia Appl Environ Microbiol 71 1433 1444
66. L Zelles 1997 Phospholipid fatty acid profiles in selected members of soil microbial communities Chemosphere 35 275 294