Integrating microbial ecology in bioprocess understanding: The case of gas biofiltration

Applied Microbiology and Biotechnology

Volumn 90, Issue 3, 2011, Pages 837-849

  Cabrol, Léa ^a,b   Malhautier, Luc ^a  

^a ECOLE DES MINES D ALÈS   (France)

^b Veolia Environnement Recherche et Innovation   (France)

Author keywords

Biofiltration; Community structure; Diversity; Microbial ecology; Resilience; Stability

Indexed keywords

BIOPROCESSES; COMMUNITY STRUCTURE; DISTURBANCE REGIME; DIVERSITY; ECOLOGICAL INDICATORS; ECOSYSTEM FUNCTIONS; ENVIRONMENTAL SYSTEMS; FUNCTIONAL APPROACH; FUNCTIONAL PARAMETERS; GAS BIOFILTRATION; GASPHASE; LITERATURE REVIEWS; MICROBIAL COMMUNITIES; MICROBIAL COMMUNITY STRUCTURES; MICROBIAL ECOLOGY; PACKED-BED BIOREACTORS; RESILIENCE; SPATIAL STRATIFICATIONS; TEMPORAL AND SPATIAL DYNAMICS; TEMPORAL DYNAMICS; TEMPORAL INSTABILITY;

BIODIVERSITY; BIOFILTERS; BIOFILTRATION; IMPACT RESISTANCE; MICROBIOLOGY; SOCIAL SCIENCES; WASTEWATER; WASTEWATER TREATMENT;

ECOSYSTEMS;

BIOENGINEERING; BIOFILM; BIOFILTRATION; BIOREACTOR; COMMUNITY STRUCTURE; DISTURBANCE; ECOSYSTEM FUNCTION; ECOSYSTEM RESILIENCE; GAS; LITERATURE REVIEW; MICROBIAL COMMUNITY; MICROBIAL ECOLOGY; OXIDATION; SPATIOTEMPORAL ANALYSIS; WASTEWATER; WATER TREATMENT;

BIODEGRADATION; BIODIVERSITY; BIOFILTER; BIOFILTRATION; BIOMASS SUPPORT; BIOPROCESS; CELL DENSITY; ECOSYSTEM; GAS; MICROBIAL COMMUNITY; MICROBIAL DIVERSITY; REVIEW; WASTE WATER MANAGEMENT;

BACTERIA; BIODIVERSITY; BIOREACTORS; FILTRATION; GASES;

EID: 79954824352     PISSN: 01757598     EISSN: None     Source Type: Journal    
DOI: 10.1007/s00253-011-3191-9     Document Type: Review

References (139)

1. ME Acuña F Perez R Auria S Revah 1999 Microbiological and kinetic aspects of a biofilter for the removal of toluene from waste gases Biotechnol Bioeng 63 175 184 (Pubitemid 29095627)
2. M Alexandrino C Knief A Lipski 2001 Stable-isotope-based labeling of styrene-degrading microorganisms in biofilters Appl Environ Microbiol 67 9 4796 4804 1:CAS:528:DC%2BD3MXns1Wit7k%3D (Pubitemid 33646115)
3. SD Allison JBH Martiny 2008 Resistance, resilience, and redundancy in microbial communities Proc Nat Acad Sci 105 11512 11519 1:CAS:528: DC%2BD1cXhtVSjtrzO
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 1:CAS:528:DyaK2MXkvVGmurk%3D
5. H Ayala-del-Río SJ Callister CS Criddle JI Tiedje 2004 Correspondence between community structure and function during succession in phenol- and phenol-plus-trichloroethene-fed sequencing batch reactors Appl Environ Microbiol 70 4950 4960 (Pubitemid 39095525)
6. JM Ayarza LD Guerrero L Erijman 2010 Nonrandom assembly of bacterial populations in activated sludge flocs Microb Ecol 59 436 444
7. IIR Baptista NY Zhou EAC Emanuelsson LG Peeva DJ Leak A Mantalaris AG Livingston 2008 Evidence of species succession during chlorobenzene biodegradation Biotechnol Bioeng 99 68 74 1:CAS:528:DC%2BD2sXhsVOrsLvE
8. S Bayle L Malhautier V Degrange JJ Godon JL Fanlo 2009 Structural and functional responses of sewage microbial communities used for the treatment of a complex mixture of volatile organic compounds (VOCs) J Appl Microbiol 107 85 96 1:CAS:528:DC%2BD1MXosl2jtr4%3D
9. T Bell JA Newman BW Silverman SL Turner AK Lilley 2005 The contribution of species richness and composition to bacterial services Nature 436 1157 1160 1:CAS:528:DC%2BD2MXovVOgtro%3D (Pubitemid 41232293)
10. N Boon EM Top W Verstraete SD Siciliano 2003 Bioaugmentation as a tool to protect the structure and function of an activated-sludge microbial community against a 3-chloroaniline shock load Appl Environ Microbiol 69 3 1511 1520 1:CAS:528:DC%2BD3sXitlCls7w%3D (Pubitemid 36314289)
11. S Borin M Marzorati L Brusetti M Zilli H Cherif A Hassen A Converti C Sorlini D Daffonchio 2006 Microbial succession in a compost-packed biofilter treating benzene-contaminated air Biodegradation 17 79 89 1:CAS:528: DC%2BD28XivVensr0%3D
12. S Botton M van Heusden JR Parsons H Smidt N van Straalen 2006 Resilience of microbial systems towards disturbances Crit Rev Microbiol 32 101 112 1:STN:280:DC%2BD28vivVGjtQ%3D%3D
13. NJ Bouskill J Barker-Finkel TS Galloway RD Handy TE Ford 2010 Temporal bacterial diversity associated with metal-contaminated river sediments Ecotoxicol 19 2 317 328 1:CAS:528:DC%2BC3cXhtVSmtr8%3D
14. M Bressan C Mougel S Dequiedt PA Maron P Lemanceau L Ranjard 2008 Response of soil bacterial community structure to successive perturbations of different types and intensities Environ Microbiol 10 8 2184 2187
15. AM Briones L Raskin 2003 Diversity and dynamics of microbial communities in engineered environments and their implications for process stability Curr Opin Biotechnol 14 270 276 1:CAS:528:DC%2BD3sXltVSqsrY%3D (Pubitemid 36782655)
16. AM Briones BJ Daugherty LT Angenent KD Rausch ME Tumbleson L Raskin 2007 Microbial diversity and dynamics in multi- and single-compartment anaerobic bioreactors processing sulfate-rich waste streams Environ Microbiol 9 1 93 106 1:CAS:528:DC%2BD2sXis1SltLk%3D (Pubitemid 46059002)
17. Cabrol L (2010) Evaluation de la robustesse d'un système de biofiltration d'effluent de compostage: Approche structurelle et fonctionnelle. PhD dissertation, University of Montpellier II
18. L Cabrol L Malhautier F Poly AS Lepeuple JL Fanlo 2009 Shock loading in biofilters: impact on biodegradation activity distribution and resilience capacity Water Sci Technol 59 1307 1314 1:CAS:528:DC%2BD1MXntFehs70%3D
19. L Cabrol L Malhautier F Poly AS Lepeuple JL Fanlo 2010 Assessing the bias linked to DNA recovery from biofiltration woodchips for microbial community investigation by fingerprinting Appl Microbiol Biotechnol 85 779 790 1:CAS:528:DC%2BC3cXit1yhug%3D%3D
20. SJ Callister JJ Parnell ME Pfrender SA Hashsham 2009 Relating perturbation magnitude to temporal gene expression in biological systems BMC Res Notes 2 43 55
21. LA Calvo-Bado TR Pettitt N Parsons GM Petch JAW Morgan JM Whipps 2003 Spatial and temporal analysis of the microbial community in slow sand filters used for treating horticultural irrigation water Appl Environ Microbiol 69 2116 2125 1:CAS:528:DC%2BD3sXivFKqs70%3D (Pubitemid 36443628)
22. S Carpenter B Walker JM Anderies N Abel 2001 From metaphor to measurement: resilience of what to what? Ecosyst 4 765 781 (Pubitemid 34067894)
23. MM Carreiro RL Sinsabaugh DA Repert DF Parkhurst 2000 Microbial enzyme shifts explain litter decay responses to simulated nitrogen deposition Ecology 81 2359 2365
24. M Carrero-Colón CH Nakatsu A Konopka 2006 Effect of nutrient periodicity on microbial community dynamics Appl Environ Microbiol 72 3175 3183 (Pubitemid 43727964)
25. MF Carvalho R Ferreira Jorge CC Pacheco P De Marco IS Henriques A Correia PML Castro 2006 Long-term performance and microbial dynamics of an up-flow fixed bed reactor established for the biodegradation of fluorobenzene Appl Microbiol Biotechnol 71 555 562 1:CAS:528:DC%2BD28XmvVart70%3D (Pubitemid 44060960)
26. GM Chaer MF Fernandes DD Myrold PJ Bottomley 2009 Shifts in microbial community composition and physiological profiles across a gradient of induced soil degradation Soil Sci Soc Am J 73 4 1327 1334 1:CAS:528:DC%2BD1MXos1Ggsb0%3D
27. P Chesson RLE Gebauer S Schwinning N Huntly K Wiegand MSK Ernest A Sher A Novoplansky JF Weltzin 2004 Resource pulses, species interactions, and diversity maintenance in arid and semi-arid environments Oecologia 141 236 253 (Pubitemid 39379405)
28. KL Cook JL Garland AC Layton HM Dionisi LH Levine GS Sayler 2006 Effect of microbial species richness on community stability and community function in a model plant-based wastewater processing system Microb Ecol 52 725 737 1:STN:280:DC%2BD28jhtlOrtg%3D%3D (Pubitemid 44924010)
29. TP Curtis WT Sloan 2004 Prokaryotic diversity and its limits: microbial community structure in nature and implications for microbial ecology Curr Opin Microbiol 7 221 226 (Pubitemid 38758062)
30. Devinny JS, Deshusses MA, Webster TS (1999) Biofiltration for air pollution control. Lewis Publishers, CRC Press, Boca Raton, Florida
31. Y Ding W Wu Z Han Y Chen 2008 Correlation of reactor performance and bacterial community composition during the removal of trimethylamine in three-stage biofilters Biochem Eng J 38 248 258 1:CAS:528:DC%2BD1cXhtlWmtQ%3D%3D (Pubitemid 350298937)
32. SL Dollhopf SA Hashsham JM Tiedje 2001 Interpreting 16S rDNA T-RFLP data: application of self-organizing maps and principal component analysis to describe community dynamics and convergence Microb Ecol 42 495 505 1:CAS:528:DC%2BD38XntFWrtg%3D%3D (Pubitemid 34045790)
33. K Egli C Langer HR Siegrist AJB Zehnder M Wagner JR van der Meer 2003 Community analysis of ammonia and nitrite oxidizers during start-up of nitritation reactors Appl Environ Microbiol 69 6 3213 3222 1:CAS:528: DC%2BD3sXks1Gltrc%3D (Pubitemid 36693324)
34. CA Eichner RW Erb KN Timmis I Wagner-Döbler 1999 Thermal gradient gel electrophoresis analysis of bioprotection from pollutant shocks in the activated sludge microbial community Appl Environ Microbiol 65 102 109 1:CAS:528:DyaK1MXjvVyhsg%3D%3D (Pubitemid 29029625)
35. T Elmqvist C Folke M Nyström G Peterson J Bengtsson B Walker J Norberg 2003 Response diversity, ecosystem change, and resilience Front Ecol Environ 1 488 494
36. KAM Engelhardt JA Kadlec 2001 Species traits, species richness and the resilience of wetlands after disturbance J Aquat Plant Manag 39 36 39
37. T Ergon X Lambin NC Stenseth 2001 Life-history traits of voles in fluctuating population respond to the immediate environment Nature 411 1043 1045 1:CAS:528:DC%2BD3MXltVCku7c%3D (Pubitemid 32612327)
38. MW Falk KG Song MG Matiasek S Wuertz 2009 Microbial community dynamics in replicate membrane bioreactors-natural reproducible fluctuations Water Res 43 842 852 1:CAS:528:DC%2BD1MXhsFeltro%3D
39. A Fernandez S Huang S Seston J Xing R Hickey C Criddle J Tiedje 1999 How stable is stable? Function versus community composition Appl Environ Microbiol 65 3697 3704 1:CAS:528:DyaK1MXltVOltL8%3D (Pubitemid 29399005)
40. A Fernandez SA Hashsham SL Dollhopf L Raskin O Glagoleva FB Dazzo RF Hickey CS Criddle JM Tiedje 2000 Flexible community structure correlates with stable community function in methanogenic bioreactor communities perturbed by glucose Appl Environ Microbiol 66 4058 4067 1:CAS:528:DC%2BD3cXmsVajsb0%3D
41. S Flöder U Sommer 1999 Diversity in planktonic communities: an experimental test of the intermediate disturbance hypothesis Limnolog Oceanogr 44 4 1114 1119 (Pubitemid 29273336)
42. RB Franklin AL Mills 2006 Structural and functional responses of a sewage microbial community to dilution-induced reductions in diversity Microb Ecol 52 280 288 (Pubitemid 44392982)
43. U Friedrich H Van Langenhove K Altendorf A Lipski 2003 Microbial community and physicochemical analysis of an industrial waste gas biofilter and design of 16S rRNA-targeting oligonucleotide probes Environ Microbiol 5 183 201 1:CAS:528:DC%2BD3sXitlehsrk%3D (Pubitemid 36357466)
44. I García-Peña S Hernández R Auria S Revah 2005 Correlation of biological activity and reactor performance in biofiltration of toluene with the fungus Paecilomyces variotii CBS115145 Appl Environ Microbiol 71 4280 4285 (Pubitemid 41129478)
45. M Gentile T Yan SM Tiquia MW Fields J Nyman J Zhou CS Criddle 2006 Stability in a denitrifying fluidized bed reactor Microb Ecol 52 311 321 1:CAS:528:DC%2BD28XpsVais7s%3D (Pubitemid 44392985)
46. M Gentile CM Jessup JL Nyman CS Criddle 2007 Correlation of functional instability and community dynamics in denitrifying dispersed-growth reactors Appl Environ Microbiol 76 680 690 (Pubitemid 46233482)
47. PS Giller H Hillebrand UG Berninger MO Gessner S Hawkins P Inchausti C Inglis H Leslie B Malmqvist MT Monaghan PJ Morin G O'Mullan 2004 Biodiversity effects on ecosystem functioning: emerging issues and their experimental test in aquatic environments Oikos 104 423 436 (Pubitemid 38300453)
48. MS Girvan CD Campbell K Killham JI Prosser LA Glover 2005 Bacterial diversity promotes community stability and functional resilience after perturbation Environ Microbiol 7 301 313 1:STN:280:DC%2BD2M7gvVOktw%3D%3D (Pubitemid 40290119)
49. DW Graham CW Knapp ES Van Vleck K Bloor TB Lane CE Graham 2007 Experimental demonstration of chaotic instability in biological nitrification ISME J 1 385 393 1:CAS:528:DC%2BD2sXht1Kht7bE (Pubitemid 47373245)
50. BS Griffiths K Ritz RD Bardgett R Cook S Christensen F Ekelund SJ Sørensen E Bååth J Bloem PC De Ruiter J Dolfing B Nicolardot 2000 Ecosystem response of pasture soil communities to fumigation-induced microbial diversity reductions: an examination of the biodiversity-ecosystem function relationship Oikos 90 2 279 294
51. V Grimm C Wissel 1997 Babel, or the ecological stability discussions: an inventory and analysis of terminology and a guide for avoiding confusion Oecologia 109 3 323 334
52. JA Grove H Kautola S Javadpour M Moo-Young WA Anderson 2004 Assessment of changes in the microorganism community in a biofilter Biochem Eng J 18 111 114 1:CAS:528:DC%2BD2cXitFehsLw%3D (Pubitemid 38369006)
53. CK Gunsch KA Kinney PJ Szaniszlo CP Whitman 2007 Relative gene expression quantification in a fungal gas-phase biofilter Biotech Bioeng 98 1 101 111 1:CAS:528:DC%2BD2sXptlSjsbo%3D (Pubitemid 47325827)
54. AC Hayes Y Zhang SN Liss D Grant Allen 2010 Linking performance to microbiology in biofilters treating dimethyl sulphide in the presence and absence of methanol Appl Microbiol Biotechnol 85 1151 1166 1:CAS:528: DC%2BC3cXjslWlsA%3D%3D
55. D Hekmat A Feuchtinger M Stephan D Vortmeyer 2004 Biofilm population dynamics in a trickle-bed bioreactor used for the biodegradation of aromatic hydrocarbons from waste gas under transient conditions Biodegradation 15 133 144 1:CAS:528:DC%2BD2cXhtlWntbk%3D (Pubitemid 38337520)
56. H Hillebrand DM Bennett MW Cadotte 2008 Consequences of dominance: a review of evenness effects on local and regional ecosystem processes Ecology 89 1510 1520
57. KL Ho YC Chung YH Lin CP Tseng 2008 Microbial populations analysis and field application of biofilter for the removal of volatile-sulfur compounds from swine wastewater treatment system J Hazard Mater 152 580 588 1:CAS:528:DC%2BD1cXivFKms78%3D
58. CS Holling 1973 Resilience and stability of ecological systems Annu Rev Ecol Syst 4 1 23
59. RD Holt 2008 Theoretical perspectives on resource pulses Ecology 89 3 671 681 (Pubitemid 351550003)
60. DU Hooper FS Chapin JJ Ewel A Hector P Inchausti S Lavorel JH Lawton DM Lodge M Loreau S Naeem B Schmid H Setälä AJ Symstad J Vandermeer DA Wardle 2005 Effects of biodiversity on ecosystem functioning: a consensus of current knowledge Ecol Monogr 75 3 35 (Pubitemid 40301269)
61. MA Huston 1997 Hidden treatments in ecological experiments: re-evaluating the ecosystem function of biodiversity Oecologia 110 449 460
62. RL Irvine WM Moe 2001 Period biofilter operation for enhanced performance during unsteady-state loading conditions Water Sci Technol 43 3 231 239 1:CAS:528:DC%2BD3MXjtlKgtro%3D (Pubitemid 32243533)
63. S Juhler NP Revsbech A Schramm M Herrmann LDM Ottosen LP Nielsen 2009 Distribution and rate of microbial processes in an ammonia-loaded air filter biofilm Appl Environ Microbiol 75 3705 3713 1:CAS:528:DC%2BD1MXntlSgsbc%3D
64. P Juteau R Larocque D Rho A LeDuy 1999 Analysis of the relative abundance of different types of bacteria capable of toluene degradation in a compost biofilter Appl Microbiol Biotechnol 52 863 868 1:CAS:528:DyaK1MXotFeisbo%3D
65. K Kaewpipat CPL Grady Jr. 2002 Microbial population dynamics in laboratory-scale activated sludge reactors Water Sci Technol 46 19 27 1:CAS:528:DC%2BD3sXhsFaisg%3D%3D (Pubitemid 34975595)
66. N Khammar L Malhautier V Degrange R Lensi JJ Godon JL Fanlo 2005 Link between spatial structure of bacterial communities and degradation of a complex mixture of volatile organic compounds in peat biofilters J Appl Microbiol 98 476 490 1:CAS:528:DC%2BD2MXhvVGjsb0%3D (Pubitemid 40188165)
67. HS Kim PR Jaffé 2007 Spatial distribution and physiological state of bacteria in a sand column experiment during the biodegradation of toluene Water Res 41 2089 2100 1:CAS:528:DC%2BD2sXksVegu7w%3D (Pubitemid 46601564)
68. D Kim GA Sorial 2007 Role of biological activity and biomass distribution in air biofilter performance Chemosphere 66 1758 1764 1:CAS:528: DC%2BD28XhtlSiu7vL (Pubitemid 44855068)
69. A Konopka M Carrero-Colón CH Nakatsu 2007 Community dynamics and heterogeneities in mixed bacterial communities subjected to nutrient periodicities Environ Microbiol 9 1584 1590 1:CAS:528:DC%2BD2sXnt1Glsbw%3D (Pubitemid 46763540)
70. 2 emissions Environ Prog 22 2 79 85 1:CAS:528: DC%2BD3sXltlSru7g%3D
71. TM LaPara CH Nakatsu LM Pantea JE Alleman 2002 Stability of the bacterial communities supported by a seven-stage biological process treating pharmaceutical wastewater as revealed by PCR-DGGE Water Res 36 638 646 1:CAS:528:DC%2BD3MXovFCntL8%3D (Pubitemid 33103754)
72. TH Larsen NM Williams C Kremen 2005 Extinction order and altered community structure rapidly disrupt ecosystem functioning Ecol Lett 8 5 538 547 (Pubitemid 40641143)
73. CL Lehman D Tilman 2001 Biodiversity, stability, and productivity in competitive communities Am Nat 156 534 552
74. C Li WM Moe 2004 Assessment of microbial populations in methyl ethyl ketone degrading biofilters by denaturing gradient gel electrophoresis Appl Microbiol Biotechnol 64 568 575 1:CAS:528:DC%2BD2cXjtFyisrY%3D (Pubitemid 38686168)
75. H Li Y Zhang I Kravchenko H Xu C Zhang 2007 Dynamic changes in microbial activity and community structure during biodegradation of petroleum compounds: a laboratory experiment J Environ Sci 19 1003 1013
76. M Loreau S Naeem P Inchausti J Bengtsson JP Grime A Hector DU Hooper MA Huston D Raffaelli B Schmid D Tilman DA Wardle 2001 Biodiversity and ecosystem functioning: current knowledge and future challenges Science 294 804 808 1:CAS:528:DC%2BD3MXotVCitLw%3D (Pubitemid 33032089)
77. M Lozada ELM Figuerola RF Itria L Erijman 2006 Replicability of dominant bacterial populations after long-term surfactant-enrichment in lab-scale activated sludge Environ Microbiol 8 625 638 1:CAS:528:DC%2BD28Xkt1KqurY%3D (Pubitemid 43363319)
78. M Lozada L Basile L Erijman 2007 Impact of non-ionic surfactant on the long-term development of lab-scale activated sludge bacterial communities Res Microbiol 158 712 717 1:CAS:528:DC%2BD2sXhsVWjtLrF (Pubitemid 350213381)
79. JM Lynch A Benedetti H Insam MP Nuti K Smalla V Torsvik P Nannipieri 2004 Microbial diversity in soil: ecological theories, the contribution of molecular techniques and the impact of transgenic plants and transgenic microorganisms Biol Fertil Soils 40 6 363 385 1:CAS:528:DC%2BD2cXhtVWjt73I (Pubitemid 40059320)
80. JP Maestre R Rovira FJ Álvarez-Hornos M Fortuny J Lafuente X Gamisans D Gabriel 2010 Bacterial community analysis of a gas-phase biotrickling filter for biogas mimics desulfurization through the rRNA approach Chemosphere 80 872 880 1:CAS:528:DC%2BC3cXptVCnsrw%3D
81. A Massol-Deyá R Weller L Ríos-Hernández JZ Zhou RF Hickey JM Tiedje 1997 Succession and convergence of biofilm communities in fixed-film reactors treating aromatic hydrocarbons in groundwater Appl Environ Microbiol 63 270 276 (Pubitemid 27020400)
82. LM McGuinness M Salganik L Vega KD Pickering LJ Kerkhof 2006 Replicability of bacterial communities in denitrifying bioreactors as measured by PCR/T-RFLP analysis Environ Sci Technol 40 509 515 1:CAS:528: DC%2BD2MXht1ygu73N (Pubitemid 43134017)
83. KD McMahon D Zheng AJM Stams RI Mackie L Raskin 2004 Microbial population dynamics during start-up and overload conditions of anaerobic digesters treating municipal solid waste and sewage sludge Biotechnol Bioeng 87 7 823 834 1:CAS:528:DC%2BD2cXns1alu7k%3D (Pubitemid 39265079)
84. Y Miura MN Hiraiwa T Ito T Itonaga Y Watanabe S Okabe 2007 Bacterial community structure in MBRs treating municipal wastewater: relationship between community stability and reactor performance Water Res 41 627 637 1:CAS:528:DC%2BD2sXktlKgsQ%3D%3D (Pubitemid 46072666)
85. S Møller AR Pedersen LK Poulsen E Arvin S Molin 1996 Activity and three-dimensional distribution of toluene-degrading Pseudomonas putida in a multispecies biofilm assessed by quantitative in situ hybridization and scanning confocal laser microscopy Appl Environ Microbiol 62 4632 4640
86. S Møller C Sternberg JB Andersen BB Christensen JL Ramos M Givskov S Molin 1998 In situ gene expression in mixed-culture biofilms: evidence of metabolic interactions between community members Appl Environ Microbiol 64 2 721 732 (Pubitemid 28079847)
87. C Mota MA Head JA Ridenoure JJ Cheng FL de los Reyes III 2005 Effects of aeration cycles on nitrifying bacterial populations and nitrogen removal in intermittently aerated reactors Appl Environ Microbiol 71 8565 8572 1:CAS:528:DC%2BD2MXhtlehtbvN (Pubitemid 41803989)
88. N Nadarajah D Grant Allen RR Fulthorpe 2007 Effects of transient temperature conditions on the divergence of activated sludge bacterial community structure and function Water Res 41 2563 2571 1:CAS:528:DC%2BD2sXlslWjtLc%3D (Pubitemid 46770814)
89. S Naeem LJ Thompson SP Lawler JH Lawton RM Woodfin 1994 Declining biodiversity can alter the performance of ecosystems Nature 368 734 737 (Pubitemid 24153411)
90. G Peterson CR Allen CS Holling 1998 Ecological resilience, biodiversity, and scale Ecosyst 1 6 18 (Pubitemid 128664031)
91. L Philippot M Cregut D Chèneby M Bressan S Dequiet F Martin-Laurent L Ranjard P Lemanceau 2008 Effect of primary mild stresses on resilience and resistance of the nitrate reducer community to a subsequent severe stress FEMS Microbiol Lett 285 1 51 57 1:CAS:528:DC%2BD1cXpt12hurs%3D (Pubitemid 352000212)
92. MK Pholchan J Baptista RJ Davenport TP Curtis 2010 Systematic study of the effect of operating variables on reactor performance and microbial diversity in laboratory-scale activated sludge reactors Water Res 44 1341 1352 1:CAS:528:DC%2BC3cXitFyksb4%3D
93. R Pineda J Alba F Thalasso T Ponce-Noyola 2004 Microbial characterization of organic carrier colonization during a model biofiltration experiment Lett Appl Microbiol 38 522 526 1:CAS:528:DC%2BD2cXlsVWitLc%3D (Pubitemid 38716519)
94. R Ptacnik AG Solimini T Andersen T Tamminen P Brettum L Lepistö E Willén S Rekolainen 2008 Diversity predicts stability and resource use efficiency in natural phytoplankton communities PNAS 105 5134 5138 1:CAS:528:DC%2BD1cXksVCkt7Y%3D (Pubitemid 351738522)
95. L Ranjard V Nowak A Echairi V Faloya R Chaussod 2008 The dynamics of soil bacterial community structure in response to yearly repeated agricultural copper treatments Res Microbiol 159 4 251 254 1:CAS:528:DC%2BD1cXmvV2lsbg%3D
96. G Roeselers B Zippel M Staal M van Loosdrecht G Muyzer 2006 On the reproducibility of microcosm experiments: different community composition in parallel phototrophic biofilm microcosms FEMS Microbiol Ecol 58 2 169 178 1:CAS:528:DC%2BD28XhtF2rtrvI (Pubitemid 44583801)
97. AK Rowan JR Snape D Fearnside MR Barer TP Curtis IM Head 2003 Composition and diversity of ammonia-oxidising bacterial communities in wastewater treatment reactors of different design treating identical wastewater FEMS Microbiol Ecol 43 195 206 1:CAS:528:DC%2BD3sXht1Kmtro%3D (Pubitemid 36204033)
98. CS Roy G Talbot E Topp C Beaulieu MF Palin DI Massé 2009 Bacterial community dynamics in an anaerobic plug-flow type bioreactor treating swine manure Water Res 43 21 32 1:CAS:528:DC%2BD1cXhsFCjtrvO
99. Y Sakano L Kerkhof 1998 Assessment of changes in microbiol community structure Turing operation of an ammonia biofilter with molecular tools Appl Environ Microbiol 64 4877 4882 1:CAS:528:DyaK1cXnvF2htrg%3D (Pubitemid 28557854)
100. Y Sakano KD Pickering PF Strom LJ Kerkhof 2002 Spatial distribution of total, ammonia-oxidizing, and denitrifying bacteria in biological wastewater treatment reactors for bioregenearuve life support Appl Environ Microbiol 68 2285 2293 1:CAS:528:DC%2BD38XjsFGqt74%3D (Pubitemid 34477823)
101. J Schimel TC Balser M Wallenstein 2007 Microbial stress-response physiology and its implications for ecosystem function Ecology 88 6 1386 1394 (Pubitemid 351345214)
102. F Schläpfer B Schmid 1999 Ecosystem effects of biodiversity: a classification of hypotheses and exploration of empirical results Ecol Appl 9 893 912 (Pubitemid 29388397)
103. K Sei D Inoue K Wada K Mori M Ike T Kohno M Fujita 2004 Monitoring behaviour of catabolic genes and change of microbial community structures in seawater microcosms Turing aromatic compound degradation Water Res 38 4405 4414 1:CAS:528:DC%2BD2cXhtVSiurzN (Pubitemid 39534941)
104. B Sercu D Nuñez G Aroca N Boon W Verstraete H Van Langenhove 2005 Inoculation and startup of a biotrickling filter removing dimethyl sulphide Chem Eng J 113 127 134 1:CAS:528:DC%2BD2MXhtFegsLbL (Pubitemid 41501801)
105. B Sercu D Nuñez H Van Langenhove G Aroca W Verstraete 2005 Operational and microbiological aspects of a bioaugmented two-stage biotrickling filter removing hydrogen sulphide and dimethyl sulphide Biotechnol Bioeng 90 259 269 1:CAS:528:DC%2BD2MXivFGltLw%3D (Pubitemid 40571484)
106. 2S degradation is reflected by both the activity and composition of the microbial community in a compost biofilter. Appl Microbiol Biotechnol 72:1090-1098 (Pubitemid 44477389)
107. EH Shim J Kim KS Cho HW Ryu 2006 Biofiltration and inhibitory interactions of gaseous benzene, toluene, xylene, and methyl tert-butyl ether Environ Sci Technol 40 3089 3094 1:CAS:528:DC%2BD28XjtVaqs7w%3D (Pubitemid 43673316)
108. NR Smith Z Yu WW Mohn 2003 Stability of the bacterial community in a pulp mill effluent treatment system during normal operation and a system shutdown Water Res 37 4873 4884 1:CAS:528:DC%2BD3sXosFOrsLw%3D (Pubitemid 37353023)
109. JH Song KA Kinney 2000 Effect of vapor-phase bioreactor operation on biomass accumulation, distribution, and activity: linking biofilm properties to bioreactor performance Biotechnol Bioeng 68 508 516 1:CAS:528: DC%2BD3cXjt1GrtLc%3D (Pubitemid 30307720)
110. JH Song KA Kinney 2005 Microbial response and elimination capacity in biofilters subjected to high toluene loadings Appl Microbiol Biotechnol 68 554 559 1:CAS:528:DC%2BD2MXhtFansL%2FP (Pubitemid 41550000)
111. WP Sousa 1980 The responses of a community to disturbance: the importance of successional age and species' life histories Oecologia 45 1 72 81
112. JA Steele F Ozis JA Fuhrman JS Devinny 2005 Structure of microbial communities in ethanol biofilters Chem Eng J 113 135 143 1:CAS:528: DC%2BD2MXhtFegsLbE
113. FM Stewart BR Levin 1973 Partitioning of resources and the outcome of interspecific competition: a model and some general considerations Am Nat 107 171 198
114. M Stoffels R Amann W Ludwig D Hekmat KH Schleifer 1998 Bacterial community dynamics during start-up of a trickle-bed bioreactor degrading aromatic compounds Appl Environ Microbiol 64 930 939 1:CAS:528: DyaK1cXhs1artrg%3D (Pubitemid 28108467)
115. MS Strickland C Lauber N Fierer MA Bradford 2009 Testing the functional significance of microbial community composition Ecol 90 2 441 451
116. I Sundh H Carlsson Å Nordberg M Hansson B Mathisen 2003 Effects of glucose overloading on microbial community structure and biogas production in a laboratory-scale anaerobic digester Bioresour Technol 89 237 243 1:CAS:528:DC%2BD3sXkt1artrk%3D (Pubitemid 36668045)
117. KE Szabó POB Itor S Bertilsson L Tranvik A Eiler 2007 Importance of rare and abundant populations for the structure and functional potential of freshwater bacterial communities Aquat Microb Ecol 47 1 10 (Pubitemid 47343603)
118. G Talbot E Topp MF Palin DI Massé 2008 Evaluation of molecular methods used for establishing the interactions and functions of microorganisms in anaerobic bioreactors Water Res 42 513 537 1:CAS:528:DC%2BD1cXnvFWrtQ%3D%3D (Pubitemid 351625253)
119. Tilman D (2000) Causes, consequences and ethics of biodiversity. Nature 405:208-211 (Pubitemid 30313543)
120. D Tilman JA Downing 1994 Biodiversity and stability in grasslands Nature 367 165 175
121. MA Tobor-Kapłon J Bloem PFAM Römkens PC de Ruiter 2005 Functional stability of microbial communities in contaminated soils Oikos 111 1 119 129 (Pubitemid 41424057)
122. O Tresse MJ Lorrain D Rho 2002 Population dynamics of free-floating and attached bacteria in a styrene-degrading biotrickling filter analyzed by denaturing gradient gel electrophoresis Appl Microbiol Biotechnol 59 585 590 1:CAS:528:DC%2BD38Xmslygsbo%3D (Pubitemid 35002198)
123. O Tresse S Lescob D Rho 2003 Dynamics of living and dead bacterial cells within a mixed-species biofilm during toluene degradation in a biotrickling filter J Appl Microbiol 94 849 855 1:CAS:528:DC%2BD3sXktVSksLY%3D (Pubitemid 36555150)
124. CJ Van der Gast D Ager AK Lilley 2008 Temporal scaling of bacterial taxa is influenced by both stochastic and deterministic ecological factors Environ Microbiol 10 1411 1418 (Pubitemid 351670240)
125. HF von Canstein S Kelly Y Li I Wagner-Döbler 2002 Species diversity improves the efficiency of mercury-reducing biofilms under changing environmental conditions Appl Environ Microbiol 68 2829 2837 (Pubitemid 34602003)
126. V von Keitz A Schramm K Altendorf A Lipski 1999 Characterization of microbial communities of biofilters by phospholipid fatty acid analysis and rRNA targeted oligonucleotide probes Syst Appl Microbiol 22 626 634 (Pubitemid 30093267)
127. F von Wintzingerode UB Göbel E Stackebrandt 1997 Determination of microbial diversity in environmental samples: pitfalls of PCR-based rRNA analysis FEMS Microbiol Rev 21 213 229 (Pubitemid 28018202)
128. MP Waldrop MK Firestone 2006 Response of microbial community composition and function to soil climate change Microb Ecol 52 4 716 724 1:STN:280:DC%2BD28jhtlOrsg%3D%3D (Pubitemid 44924009)
129. DA Wardle MA Huston JP Grime F Berendse E Garnier WK Lauenroth H Setälä SD Wilson 2000 Biodiversity and ecosystem function: an issue in ecology Bull Ecol Soc Am 813 235 239
130. S Wertz V Degrange JI Prosser F Poly C Commeaux T Freitage N Guillaumaud X Le Roux 2006 Maintenance of soil functioning following erosion of microbial diversity Environ Microbiol 8 2162 2169 1:CAS:528:DC%2BD2sXisl2gsw%3D%3D (Pubitemid 44730246)
131. A Widenfalk S Bertilsson I Sundh W Goedkoop 2008 Effects of pesticides on community composition and activity of sediment microbes-responses at various levels of microbial community organization Environ Pollut 152 576 584 1:CAS:528:DC%2BD1cXktFens7k%3D (Pubitemid 351442827)
132. L Wittebolle H Vervaeren W Verstraete N Boon 2008 Quantifying community dynamics of nitrifiers in functionally stable reactors Appl Environ Microbiol 74 286 293 1:CAS:528:DC%2BD1cXnsVGqsw%3D%3D
133. L Wittebolle N Van Vooren W Verstraete N Boon 2009 High reproducibility of ammonia-oxidizing bacterial communities in parallel sequential batch reactors J Appl Microbiol 107 385 394 1:CAS:528:DC%2BD1MXhtVaisLfF
134. L Wittebolle M Marzorati L Clement A Balloi D Daffonchio K Heylen P De Vos W Verstraete N Boon 2009 Initial community evenness favours functionality under selective stress Nature 458 623 626 1:CAS:528:DC%2BD1MXivVKnsbY%3D
135. L Wittebolle W Verstraete N Boon 2009 The inoculum effect on the ammonia-oxidizing bacterial communities in parallel sequential batch reactors Water Res 43 4149 4158 1:CAS:528:DC%2BD1MXhtFWks7zO
136. WF Wright 2005 Transient response of vapor-phase biofilters Chem Eng J 113 161 173 1:CAS:528:DC%2BD2MXhtFegsLfN
137. T Yamamoto G Hatta 2004 Pulsed nutrient supply as a factor inducing phytoplankton diversity Ecol Model 171 247 270 (Pubitemid 38170882)
138. LH Yang JL Bastow KO Spence AN Wright 2008 What can we learn from resource pulses? Ecology 89 621 634 (Pubitemid 351549999)
139. Zemb O (2007) L'écosystème a-t-il une mémoire ? Importance de l'histoire sur la résilience fonctionnelle de communautés bactériennes hétérotrophes marines et anaérobies. PhD dissertation, University of Lyon I