Association of biodiversity with the rates of micropollutant biotransformations among full-scale wastewater treatment plant communities

Applied and Environmental Microbiology

Volumn 81, Issue 2, 2015, Pages 666-675

  Johnson, David R ^a,b   Helbling, Damian E ^b,c   Lee, Tae Kwon ^d   Park, Joonhong ^d   Fenner, Kathrin ^a,b   Kohler, Hans Peter E ^b   Ackermann, Martin ^a,b  

^a ETH ZURICH   (Switzerland)

^b Department of Environmental Microbiology ^*  (Switzerland)

^c School of Operations Research and Industrial Engineering   (United States)

^d Yonsei University   (South Korea)

Author keywords

[No Author keywords available]

Indexed keywords

ECOLOGY; ECOSYSTEMS; SEWAGE PUMPING PLANTS; WASTEWATER TREATMENT; WATER TREATMENT PLANTS;

ECOSYSTEM FUNCTIONS; ECOSYSTEM SERVICES; FUNCTIONAL BIODIVERSITY; MICROPOLLUTANTS; WASTEWATER TREATMENT PLANTS; WHETHER DIFFERENCES;

BIODIVERSITY;

BIODIVERSITY; BIOTRANSFORMATION; COMMUNITY STRUCTURE; ECOSYSTEM FUNCTION; ECOSYSTEM SERVICE; POLLUTANT; TAXONOMY; WASTEWATER; WATER TREATMENT;

BACTERIAL DNA; WASTE WATER; WATER POLLUTANT;

BACTERIUM; BIODIVERSITY; BIOTRANSFORMATION; CHEMISTRY; CLASSIFICATION; DNA SEQUENCE; GENETICS; METABOLISM; MICROBIOLOGY; MOLECULAR GENETICS; WASTE WATER; WATER MANAGEMENT; WATER POLLUTANT;

BACTERIA; BIODIVERSITY; BIOTRANSFORMATION; DNA, BACTERIAL; MOLECULAR SEQUENCE DATA; SEQUENCE ANALYSIS, DNA; WASTE WATER; WATER POLLUTANTS; WATER PURIFICATION;

EID: 84920736176     PISSN: 00992240     EISSN: 10985336     Source Type: Journal    
DOI: 10.1128/AEM.03286-14     Document Type: Article

References (43)

1. Oulton RL, Kohn T, Cwiertny DM. 2010. Pharmaceuticals and personal care products in effluent matrices: a survey of transformation and removal during wastewater treatment and implications for wastewater management. J Environ Monit 12:1956-1978. http://dx.doi.org/10.1039/c0em00068j.
2. Rittmann BE, McCarty PL. 2001. Environmental biotechnology: principles and applications. McGraw-Hill, New York, NY.
3. Hernandez-Raquet G, Durand E, Braun F, Cravo-Laureau C, Godon JJ. 2013. Impact of microbial diversity depletion on xenobiotic degradation by sewage-activated sludge. Environ Microbiol Rep 5:588-594. http://dx.doi.org/10.1111/1758-2229.12053.
4. Johnson DR, Lee TK, Park J, Fenner K, Helbling DE. The functional and taxonomic richness of wastewater treatment plant microbial communities are associated with each other and with ambient nitrogen and carbon availability. Environ Microbiol, in press. http://dx.doi.org/10.1111/1462 -2920.12429.
5. Wang X, Hu M, Xia Y, Wen X, Ding K. 2012. Pyrosequencing analysis of bacterial diversity in 14 wastewater treatment systems in China. Appl Environ Microbiol 78:7042-7047. http://dx.doi.org/10.1128/AEM.01617 -12.
6. Yu K, Zhang T. 2012. Metagenomic and metatranscriptomic analysis of microbial community structure and gene expression of activated sludge. PLoS One 7:e38183. http://dx.doi.org/10.1371/journal.pone.0038183.
7. Zhang T, Shao MF, Ye L. 2012. 454 pyrosequencing reveals bacterial diversity of activated sludge from 14 sewage treatment plants. ISME J 6:1137-1147. http://dx.doi.org/10.1038/ismej.2011.188.
8. Ju F, Xia Y, Guo F, Wang Z, Zhang T. 2014. Taxonomic relatedness shapes bacterial assembly in activated sludge of globally distributed wastewater treatment plants. Environ Microbiol 16:2421-2432. http://dx.doi.org/10.1111/1462-2920.12355.
9. Ju F, Guo F, Ye L, Xia Y, Zhang T. 2014. Metagenomic analysis on seasonal microbial variations of activated sludge from a full-scale wastewater treatment plant over 4 years. Environ Microbiol Rep 6:80-89. http://dx.doi.org/10.1111/1758-2229.12110.
10. Ofiteru ID, Lunn M, Curtis TP, Wells GF, Criddle CS, Francis CA, Sloan WT. 2010. Combined niche and neutral effects in a microbial wastewater treatment community. Proc Natl Acad Sci U S A 107:15345-15350. http://dx.doi.org/10.1073/pnas.1000604107.
11. Cardinale BJ, Duffy JE, Gonzalez A, Hooper DU, Perrings C, Venail P, Narwani A, Mace GM, Tilman D, Wardle DA, Kinzig AP, Daily GC, Loreau M, Grace JB, Larigauderie A, Srivastava DS, Naeem S. 2012. Biodiversity loss and its impact on humanity. Nature 486:59-67. http://dx.doi.org/10.1038/nature11148.
12. Duffy JE. 2009. Why biodiversity is important to the functioning of realworld ecosystems. Front Ecol Environ 7:437-444. http://dx.doi.org/10.1890/070195.
13. Cardinale BJ, Srivastava DS, Duffy JE, Wright JP, Downing AL, Sankaran M, Jouseau C. 2006. Effects of biodiversity on the functioning of trophic groups and ecosystems. Nature 443:989-992. http://dx.doi.org/10.1038/nature05202.
14. Loreau M, Naeem S, Inchausti P, Bengtsson J, Grime JP, Hector A, Hooper DU, Huston MA, Raffaelli D, Schmid B, Tilman D, Wardle DA. 2001. Biodiversity and ecosystem functioning: current knowledge and future challenges. Science 294:804-808. http://dx.doi.org/10.1126/science.1064088.
15. Bell T, Newman JA, Silverman BW, Turner SL, Lilley AK. 2005. The contribution of species richness and composition to bacterial services. Nature 436:1157-1160. http://dx.doi.org/10.1038/nature03891.
16. Bodelier PL, Meima-Franke M, Hordijk CA, Steenbergh AK, Hefting MM, Bodrossy L, von Bergen M, Seifert J. 2013. Microbial minorities modulate methane consumption through niche partitioning. ISME J 7:2214-2228. http://dx.doi.org/10.1038/ismej.2013.99.
17. Cardinale BJ. 2011. Biodiversity improves water quality through niche partitioning. Nature 472:86-89. http://dx.doi.org/10.1038/nature09904.
18. Wittebolle L, Marzorati M, Clement L, Balloi A, Daffonchio D, Heylen K, De Vos P, Verstraete W, Boon N. 2009. Initial community evenness favours functionality under selective stress. Nature 458:623-626. http://dx.doi.org/10.1038/nature07840.
19. Peter H, Beier S, Bertilsson S, Lindström ES, Langenheder S, Tranvik LJ. 2011. Function-specific response to depletion of microbial diversity. ISME J 5:351-361. http://dx.doi.org/10.1038/ismej.2010.119.
20. Pholchan MK, Baptista JC, Davenport RJ, Sloan WT, Curtis TP. 2013. Microbial community assembly, theory and rare functions. Front Microbiol 4:68. http://dx.doi.org/10.3389/fmicb.2013.00068.
21. Wertz S, Degrange V, Prosser JI, Poly F, Commeaux C, Freitag T, Guillaumaud N, Roux XL. 2006. Maintenance of soil functioning following erosion of microbial diversity. Environ Microbiol 8:2162-2169. http://dx.doi.org/10.1111/j.1462-2920.2006.01098.x.
22. Tylianakis JM, Rand TA, Kahmen A, Klein AM, Buchmann N, Perner J, Tscharntke T. 2008. Resource heterogeneity moderates the biodiversity-function relationship in real world ecosystems. PLoS Biol 6:e122. http://dx.doi.org/10.1371/journal.pbio.0060122.
23. Schwarzenbach RP, Escher BI, Fenner K, Hofstetter TB, Johnson CA, von Gunten U, Wehrli B. 2006. The challenge of micropollutants in aquatic systems. Science 313:1072-1077. http://dx.doi.org/10.1126/science.1127291.
24. Helbling DE, Johnson DR, Honti M, Fenner K. 2012. Micropollutant biotransformation kinetics associate with WWTP process performance parameters and microbial community characteristics. Environ Sci Technol 46:10579-10588. http://dx.doi.org/10.1021/es3019012.
25. Majewsky M, Gallé T, Yargeau V, Fischer K. 2011. Active heterotrophic biomass and sludge retention time (SRT) as determining factors for biodegradation kinetics of pharmaceuticals in activated sludge. Bioresour Technol 102:7415-7421. http://dx.doi.org/10.1016/j.biortech.2011.05.032.
26. Schloss PD, Westcott SL, Ryabin T, Hall JR, Hartmann M, Hollister EB, Lesniewski RA, Oakley BB, Parks DH, Robinson CJ, Sahl JW, Stres B, Thallinger GG, Van Horn DJ, Weber CF. 2009. Introducing mothur: open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol 75:7537-7541. http://dx.doi.org/10.1128/AEM.01541-09.
27. Meyer F, Paarmann D, D'Souza M, Olson R, Glass EM, Kubal M, Paczian T, Rodriguez A, Stevens R, Wilke A, Wilkening J, Edwards RA. 2008. The metagenomics RAST server-a public resource for the automatic phylogenetic and functional analysis of metagenomes. BMC Bioinformatics 9:386. http://dx.doi.org/10.1186/1471-2105-9-386.
28. Overbeek R, Begley T, Butler RM, Choudhuri JV, Chuang HY, Cohoon M, de Crécy-Lagard V, Diaz N, Disz T, Edwards R, Fonstein M, Frank ED, Gerdes S, Glass EM, Goesmann A, Hanson A, Iwata-Reuyl D, Jensen R, Jamshidi N, Krause L, Kubal M, Larsen N, Linke B, McHardy AC, Meyer F, Neuweger H, Olsen G, Olson R, Osterman A, Portnoy V, Pusch GD, Rodionov DA, Rückert C, Steiner J, Stevens R, Thiele I, Vassieva O, Ye Y, Zagnitko O, Vonstein V. 2005. The subsystems approach to genome annotation and its use in the project to annotate 1000 genomes. Nucleic Acids Res 33:5691-5702. http://dx.doi.org/10.1093/nar/gki866.
29. Chao A. 1987. Estimating the population size for capture-recapture data with unequal catchability. Biometrics 43:783-791. http://dx.doi.org/10.2307/2531532.
30. Chao A, Ma MC, Yang MCK. 1993. Stopping rules and estimation for recapture debugging with unequal failure rates. Biometrika 80:193-201. http://dx.doi.org/10.1093/biomet/80.1.193.
31. Hill MO. 1973. Diversity and evenness: a unifying notation and its consequences. Ecol 54:427-432. http://dx.doi.org/10.2307/1934352.
32. R Development Core Team. 2013. R: a language and environment for statistical computing, 3.0.1 ed. R Foundation for Statistical Computing, Vienna, Austria.
33. Oksanen J, Blanchet FG, Kindt R, Legendre P, Minchin PR, O'Hara RB, Simpson GL, Solymos P, Stevens MHH, Wagner H. 2013. Vegan: community ecology package, 2.0-7 ed. http://cran.r-project.org/web/packages/vegan/index.html.
34. Zavaleta ES, Pasari JR, Hulvey KB, Timan GD. 2010. Sustaining multiple ecosystem functions in grassland communities requires higher biodiversity. Proc Natl Acad Sci U S A 107:1443-1446. http://dx.doi.org/10.1073/pnas.0906829107.
35. Maestre FT, Quero JL, Gotelli NJ, Escudero A, Ochoa V, Delgado-Baquerizo M, García-Gómez M, Bowker MA, Soliveres S, Escolar C, García-Palacios P, Berdugo M, Valencia E, Gozalo B, Gallardo A, Aguilera L, Arredondo T, Blones J, Boeken B, Bran D, Conceição AA, Cabrera O, Chaieb M, Derak M, Eldridge DJ, Espinosa CI, Florentino A, Gaitán J, Gatica MG, Ghiloufi W, Gómez-González S, Gutiérrez JR, Hernández RM, Huang X, Huber-Sannwald E, Jankju M, Miriti M, Monerris J, Mau RL, Morici E, Naseri K, Ospina A, Polo V, Prina A, Pucheta E, Ramírez-Collantes DA, Romão R, Tighe M, Torres-Díaz C, Val J, Veiga JP, Wang D, Zaady E. 2012. Plant species richness and ecosystem multifunctionality in global drylands. Science 335:214-218. http://dx.doi.org/10.1126/science.1215442.
36. Ellis LB, Roe D, Wackett LB. 2006. The University of Minnesota Biocatalysis/ Biodegradation Database: the first decade. Nucleic Acids Res 34: D517-D521. http://dx.doi.org/10.1093/nar/gkj076.
37. Benjamini Y, Hochberg Y. 1995. Controlling the false discovery rate: a practical and powerful approach to multiple testing. J R Stat Soc B Methodol 57:289-300.
38. Deutscher MP. 2006. Degradation of RNA in bacteria: comparison of mRNA and stable RNA. Nucleic Acids Res 34:659-666. http://dx.doi.org/10.1093/nar/gkj472.
39. Kemp PF, Lee S, Laroche J. 1993. Estimating the growth rate of slowly growing marine bacteria from RNA content. Appl Environ Microbiol 59: 2594-2601.
40. Magurran AE. 2004. Measuring biological diversity. Blackwell Science, Oxford, United Kingdom.
41. Cadotte MW, Carscadden K, Mirotchnick N. 2011. Beyond species: functional diversity and the maintenance of ecological processes and services. J Appl Ecol 48:1079-1087. http://dx.doi.org/10.1111/j.1365-2664.2011.02048.x.
42. Miki T, Yokokawa T, Matsui K. 2013. Biodiversity and multifunctionality in a microbial community: a novel theoretical approach to quantify functional redundancy. Proc R Soc B 281:1776. http://dx.doi.org/10.1098/rspb.2013.2498.
43. Singh BK, Quince C, Macdonald CA, Khachane A, Thomas N, Al-Soud WA, Sørensen SJ, He Z, White D, Sinclair A, Crooks B, Zhou J, Campbell CD. 2014. Loss of microbial diversity in soils is consistent with reductions in some specialized functions. Environ Microbiol 16:2408- 2420. http://dx.doi.org/10.1111/1462-2920.12353.