Biofilm community dynamics in bench-scale annular reactors simulating arrestment of chloraminated drinking water nitrification

Environmental Science and Technology

Volumn 48, Issue 10, 2014, Pages 5448-5457

  Gomez Alvarez, Vicente ^a   Schrantz, Karen A ^a   Pressman, Jonathan G ^a   Wahman, David G ^a  

^a U S ENVIRONMENTAL PROTECTION AGENCY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIA; BIOFILMS; ECOLOGY; NITRATION; NITRIFICATION; RNA;

ALTERNATIVE STABLE STATE; BACTERIAL COMMUNITY STRUCTURE; CUMULATIVE DISTRIBUTION; MICROBIAL COMMUNITIES; NITRITE ACCUMULATION; NITRITE-OXIDIZING BACTERIA; OPERATIONAL PARAMETERS; OPERATIONAL PERIODS;

CHLORINE;

ACTIVATED CARBON; AMMONIA; CHLORINE; DRINKING WATER; MONOCHLORAMINE; NITROGEN; RNA 16S;

BACTERIUM; BIOFILM; BIOREACTOR; CHLORIDE; COMMUNITY DYNAMICS; DRINKING WATER; MICROBIAL COMMUNITY; NITRIFICATION; OXIDATION; SUCCESSION;

ACTINOBACTERIA; ALPHAPROTEOBACTERIA; ANNULAR REACTOR; ARTICLE; BETAPROTEOBACTERIA; BIOFILM; BIOREACTOR; BRADYRHIZOBIUM; COMMUNITY SUCCESSION; DNA ISOLATION; GAMMAPROTEOBACTERIA; GENE SEQUENCE; LEGIONELLA; METHYLOBACTERIUM; MICROBIAL COMMUNITY; MICROBIAL DIVERSITY; NITRIFICATION; NITROSOMONADACEAE; NITROSPIRA MOSCOVIENSIS; NONHUMAN; OXIDATION; PROTEOBACTERIA; PYROSEQUENCING; REACTOR OPERATION; SIMULATION;

BACTERIA; BIODEGRADATION, ENVIRONMENTAL; BIOFILMS; BIOREACTORS; CHLORAMINES; DRINKING WATER; GENES, RRNA; NITRIFICATION; OXIDATION-REDUCTION; POLYMERASE CHAIN REACTION; RNA, RIBOSOMAL, 16S; TIME FACTORS; WATER SUPPLY;

EID: 84901036345     PISSN: 0013936X     EISSN: 15205851     Source Type: Journal    
DOI: 10.1021/es5005208     Document Type: Article

References (68)

1. Economic Analysis for the Final Stage 2 Disinfectants and Disinfection Byproducts Rule, EPA 815-R-05-010; United States Environmental Protection Agency: Washington, DC, 2005.
2. Fundamentals and Control of Nitrification in Chloraminated Drinking Water Distribution Systems, 1 st ed.; AWWA Manual M56; American Water Works Association: Denver, CO, 2006.
3. Seidel, C. J.; McGuire, M. J.; Summers, R. S.; Via, S. Have utilities switched to chloramines? J. Am. Water Works Assoc. 2005, 97, 87-97
4. Fleming, K. K.; Harrington, G. W.; Noguera, D. R. Nitrification potential curves: a new strategy for nitrification prevention J. Am. Water Works Assoc. 2005, 97, 90-99
5. Speitel, G. E., Jr.; Kannappan, R.; Bayer, B. M. Nitrification index: a unified concept for quantifying the risk of distribution system nitrification J. Am. Water Works Assoc. 2011, 103, 69-80
6. Schrantz, K. A.; Pressman, J. G.; Wahman, D. G. Simulated distribution nitrification: Nitrification Index evaluation and viable ammonia-oxidizing bacteria J. Am. Water Works Assoc. 2013, 105, E242-E254
7. Kasuga, I.; Nakagaki, H.; Kurisu, F.; Furumai, H. Predominance of ammonia-oxidizing archaea on granular activated carbon used in a full-scale advanced drinking water treatment plant Water Res. 2010, 44, 5039-5049
8. van der Wielen, P. W. J. J.; Voost, S.; van der Kooij, D. Ammonia-oxidizing bacteria and archaea in groundwater treatment and drinking water distribution systems Appl. Environ. Microbiol. 2009, 75, 4687-4695
9. Horner-Devine, M. C.; Lage, M.; Hughes, J. B.; Bohannan, B. J. A taxa-area relationship for bacteria Nature 2004, 432, 750-753
10. Oliver, A.; Lilley, A. K.; van der Gast, C. J. Species-time relationships for bacteria. In Microbial Ecological Theory: Current Perspectives; Ogilvie, L. A.; Hirsch, P. R., Eds.; Caister Academic Press: Norfolk, UK, 2012; pp 71-86.
11. Shade, A.; Peter, H.; Allison, S. D.; Baho, D. L.; Berga, M.; Bürgmann, H.; Huber, D. H.; Langenheder, S.; Lennon, J. T.; Martiny, J. B.; Matulich, K. L.; Schmidt, T. M.; Handelsman, J. Fundamentals of microbial community resistance and resilience Front. Microbiol. 2012, 3, 417
12. Andersen, T.; Carstensen, J.; Hernández-García, E.; Duarte, C. M. Ecological thresholds and regime shifts: approaches to identification Trends Ecol. Evol. 2009, 24, 49-57
13. Scheffer, M.; Carpenter, S. Catastrophic regime shifts in ecosystems: linking theory to observation Trends Ecol. Evol. 2003, 18, 648-656
14. Allison, S. D.; Martiny, J. B. H. Resistance, resilience, and redundancy in microbial communities Proc. Natl. Acad. Sci. U.S.A. 2008, 12, 11512-11519
15. Kinzig, A. P.; Ryan, P. A.; Etienne, M.; Allison, H. E.; Elmqvist, T.; Walker, B. H. Resilience and regime shifts: Assessing cascading effects. In Exploring Resilience in Social-Ecological Systems: Comparative Studies and Theory Development; Walker, B. H.; Anderies, J. M.; Kinzig, A. P.; Ryan, P. A., Eds.; CSIRO Publishing: Collingwood, 2006; pp 139-162.
16. Treseder, K. K.; Balser, T. C.; Bradford, M. A.; Brodie, E. L.; Dubinsky, E. A.; Eviner, V. T.; Hofmockel, K. S.; Lennon, J. T.; Levine, U. Y.; MacGregor, B. J.; Pett-Ridge, J.; Waldrop, M. P. Integrating microbial ecology into ecosystem models: challenges and priorities Biogeochemistry 2012, 109, 7-18
17. Konopka, A. What is microbial community ecology? ISME J. 2009, 3, 1223-1230
18. Wahman, D. G.; Wulfeck-Kleier, K. A.; Pressman, J. G. Monochloramine disinfection kinetics of Nitrosomonas europaea by propidium monoazide quantitative PCR and Live/Dead BacLight methods Appl. Environ. Microbiol. 2009, 75, 5555-5562
19. Gomez-Alvarez, V.; Schrantz, K. A.; Pressman, J. G.; Speitel, G. E., Jr.; Wahman, D. G. Pyrosequencing analysis of bench-scale nitrifying biofilters removing trihalomethanes Environ. Eng. Sci. 2013, 30, 582-588
20. RDP Pyrosequencing pipeline help. http://pyro.cme.msu.edu/pyro/help.jsp (accessed April 21, 2014).
21. Gantner, S.; Andersson, A. F.; Alonso-Sáez, L.; Bertilsson, S. Novel primers for 16S rRNA-based archaeal community analyses in environmental samples J. Microbiol. Methods 2011, 84, 12-18
22. Schloss, P. D.; Westcott, S. L.; Ryabin, T.; Hall, J. R.; Hartmann, M.; Hollister, E. B.; Lesniewski, R. A.; Oakley, B. B.; Parks, D. H.; Robinson, C. J.; Sahl, J. W.; Stres, B.; Thallinger, G. G.; Van Horn, D. J.; Weber, C. F. Introducing mothur: open-source, platform-independent, community-supported software for describing and comparing microbial communities Appl. Environ. Microbiol. 2009, 75, 7537-7541
23. Edgar, R. C.; Haas, B. J.; Clemente, J. C.; Quince, C.; Knight, R. UCHIME improves sensitivity and speed of chimera detection Bioinformatics 2011, 27, 2194-2200
24. Schloss, P. D.; Gevers, D.; Westcott, S. L. Reducing the Effects of PCR Amplification and Sequencing Artifacts on 16S rRNA-Based Studies PLoS One 2011, 6, e27310
25. Lee, C. K.; Herbold, C. W.; Polson, S. W.; Wommack, K. E.; Williamson, S. J.; McDonald, I. R.; Cary, S. C. Groundtruthing Next-Gen sequencing for microbial ecology-biases and errors in community structure estimates from PCR amplicon pyrosequencing PLoS One 2012, 7, e44224
26. Cole, J. R.; Wang, Q.; Cardenas, E.; Fish, J.; Chai, B.; Farris, R. J.; Kulam-Syed-Mohideen, A. S.; McGarrell, D. M.; Marsh, T.; Garrity, G. M.; Tiedje, J. M. The Ribosomal Database Project: improved alignments and new tools for rRNA analysis Nucleic Acids Res. 2009, 37, 141-145
27. Altschul, S. F.; Madden, T. L.; Schaffer, A. A.; Zhang, J.; Zhang, Z.; Miller, W.; Lipman, D. J. Gapped BLAST and PSI-BLAST: a new generation of protein database search programs Nucleic Acids Res. 1997, 25, 3389-3402
28. Tamura, K.; Peterson, D.; Peterson, N.; Stecher, G.; Nei, M.; Kumar, S. MEGA5: Molecular Evolutionary Genetics Analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods Mol. Biol. Evol. 2011, 28, 2731-2739
29. Tamura, K.; Nei, M.; Kumar, S. Prospects for inferring very large phylogenies by using the neighbor-joining method Proc. Natl. Acad. Sci. U.S.A. 2004, 101, 11030-11035
30. Hughes, J. B.; Hellmann, J. J.; Ricketts, T. H.; Bohannan, B. J. Counting the uncountable: statistical approaches to estimating microbial diversity Appl. Environ. Microbiol. 2001, 67, 4399-4406
31. An introduction to MDS: Reports from the Sound Quality Research Unit (SQRU) No. 7; Sound Quality Research Unit; Aalborg University: Denmark, 2003. http://homepages.uni-tuebingen.de/florian.wickelmaier/pubs/Wickelmaier2003SQRU. pdf (accessed April 21 2014).
32. Clarke, K. R. Non-parametric multivariate analyses of changes in community structure Aust. J. Ecol. 1993, 18, 117-143
33. Fierer, N. Microbial biogeography: patterns in microbial diversity across space and time. In Accessing Uncultivated Microorganisms: from the Environment to Organisms and Genomes and Back; Zengler, K., Ed.; ASM Press: Washington, DC, 2008; pp 95-115.
34. White, E. P.; Adler, P. B.; Lauenroth, W. K.; Gill, R. A.; Greenberg, D.; Kaufman, D. M.; Rassweiler, A.; Rusak, J. A.; Smith, M. D.; Steinbeck, J. R.; Waide, R. B.; Yao, J. A comparison of the species-time relationship across ecosystems and taxonomic groups Oikos 2006, 112, 185-195
35. van der Gast, C. J.; Ager, D.; Lilley, A. K. Temporal scaling of bacterial taxa is influenced by both stochastic and deterministic ecological factors Environ. Microbiol. 2008, 10, 1411-1418
36. Shade, A.; Caporaso, J. G.; Handelsman, J.; Knight, R.; Fierer, N. A meta-analysis of changes in bacterial and archaeal communities with time ISME J. 2013, 7, 1493-4506
37. Guilhaumon, F.; Mouillot, D.; Gimenez, O. mmSAR: an R-package for multimodel species-area relationship inference Ecography 2010, 33, 420-424
38. Rodionov, S. N. A sequential algorithm for testing climate regime shifts Geophys. Res. Lett. 2004, 31, L09204
39. Hatzenpichler, R. Diversity, physiology, and niche differentiation of ammonia-oxidizing archaea Appl. Environ. Microbiol. 2012, 78, 7501-7510
40. French, E.; Kozlowski, J. A.; Mukherjee, M.; Bullerjahn, G.; Bollmann, A. Ecophysiological characterization of ammonia-oxidizing archaea and bacteria from freshwater Appl. Environ. Microbiol. 2012, 78, 5773-5780
41. Berry, D.; Xi, C.; Raskin, L. Microbial ecology of drinking water distribution systems Curr. Opin. Biotechnol. 2006, 17, 297-302
42. Eichler, S.; Christen, R.; Höltje, C.; Westphal, P.; Bötel, J.; Brettar, I.; Mehling, A.; Höfle, M. G. Composition and dynamics of bacterial communities of a drinking water supply system as assessed by RNA- and DNA-based 16S rRNA gene fingerprinting Appl. Environ. Microbiol. 2006, 72, 1858-1872
43. Hwang, C.; Ling, F.; Andersen, G. L.; LeChevallier, M. W.; Liu, W. T. Microbial community dynamics of an urban drinking water distribution system subjected to phases of chloramination and chlorination treatments Appl. Environ. Microbiol. 2012, 78, 7856-7865
44. Pinto, A. J.; Xi, C.; Raskin, L. Bacterial community structure in the drinking water microbiome is governed by filtration processes Environ. Sci. Technol. 2012, 46, 8851-8859
45. Gupta, R. S. The phylogeny of proteobacteria: relationships to other eubacterial phyla and eukaryotes FEMS Microbiol. Rev. 2000, 24, 367-402
46. Revetta, R. P.; Gomez-Alvarez, V.; Gerke, T. L.; Curioso, C.; Santo Domingo, J. W.; Ashbolt, N. J. Establishment and early succession of bacterial communities in monochloramine-treated drinking water biofilms FEMS Microbiol. Ecol. 2013, 86, 404-414
47. Henne, K.; Kahlisch, L.; Brettar, I.; Höfle, M. G. Analysis of structure and composition of bacterial core communities in mature drinking water biofilms and bulk water of a citywide network in Germany Appl. Environ. Microbiol. 2012, 78, 3530-3538
48. Andrew, D. R.; Fitak, R. R.; Munguia-Vega, A.; Racolta, A.; Martinson, V. G.; Dontsova, K. Abiotic factors shape microbial diversity in Sonoran Desert soils Appl. Environ. Microbiol. 2012, 78, 7527-7537
49. The Human Microbiome Project Consortium Structure, function and diversity of the healthy human microbiome Nature 2012, 486, 207-214
50. Shiro, S.; Matsuura, S.; Saiki, R.; Sigua, G. C.; Yamamoto, A.; Umehara, Y.; Hayashi, M.; Saeki, Y. Genetic diversity and geographical distribution of indigenous soybean-nodulating bradyrhizobia in the United States Appl. Environ. Microbiol. 2013, 79, 3610-3618
51. Grigorescu, A. S.; Hozalski, R. M.; Lapara, T. M. Haloacetic acid-degrading bacterial communities in drinking water systems as determined by cultivation and by terminal restriction fragment length polymorphism of PCR-amplified haloacid dehalogenase gene fragments J. Appl. Microbiol. 2012, 112, 809-822
52. Kulakov, L. A.; McAlister, M. B.; Ogden, K. L.; Larkin, M. J.; OHanlon, J. F. Analysis of bacteria contaminating ultrapure water in industrial systems Appl. Environ. Microbiol. 2002, 68, 1548-1555
53. Moore, R. L. The biology of Hyphomicrobium and other prosthecate, budding bacteria Annu. Rev. Microbiol. 1981, 35, 567-594
54. Williams, M. M.; SantoDomingo, J. W.; Meckes, M. C.; Kelty, C. A.; Rochon, H. S. Phylogenetic diversity of drinking water bacteria in a distribution system simulator J. Appl. Microbiol. 2004, 96, 954-964
55. Bal Krishna, K. C.; Sathasivan, A.; Ginige, M. P. Microbial community changes with decaying chloramine residuals in a lab-scale system Water Res. 2013, 47, 4666-4679
56. Lau, H. Y.; Ashbolt, N. J. The role of biofilms and protozoa in Legionella pathogenesis: implications for drinking water J. Appl. Microbiol. 2009, 107, 368-378
57. Parthuisot, N.; West, N. J.; Lebaron, P.; Baudart, J. High diversity and abundance of Legionella spp. in a pristine river and impact of seasonal and anthropogenic effects Appl. Environ. Microbiol. 2010, 76, 8201-8210
58. Regan, J. M.; Harrington, G. W.; Baribeau, H.; Leon, R. D.; Noguera, D. R. Diversity of nitrifying bacteria in full-scale chloraminated distribution systems Water Res. 2003, 37, 197-205
59. Regan, J. M.; Harrington, G. W.; Noguera, D. R. Ammonia- and nitrite-oxidizing bacterial communities in a pilot-scale chloraminated drinking water distribution system Appl. Environ. Microbiol. 2002, 68, 73-81
60. Wahman, D. G.; Speitel, G. E. The relative importance of nitrite oxidation by hypochlorous acid under chloramination conditions Environ. Sci. Technol. 2012, 46, 6056-6064
61. Rice, E. W.; Reasoner, D. J.; Johnson, C. H.; DeMaria, L. A. Monitoring for Methylobacteria in water systems J. Clin. Microbiol. 2000, 38, 4296-4297
62. Hornei, B.; Lüneberg, E.; Schmidt-Rotte, H.; Maass, M.; Weber, K.; Heits, F.; Frosch, M.; Solbach, W. Systemic infection of an immunocompromised patient with Methylobacterium zatmanii J. Clin. Microbiol. 1999, 37, 248-250
63. Sanders, J. W.; Martin, J. W.; Hooke, M.; Hooke, J. Methylobacterium mesophilicum infection: case report and literature review of an unusual opportunistic pathogen Clin. Infect. Dis. 2000, 30, 936-938
64. Simões, L. C.; Simões, M.; Vieira, M. J. Influence of the diversity of bacterial isolates from drinking water on resistance of biofilms to disinfection Appl. Environ. Microbiol. 2010, 76, 6673-6679
65. Chuang, Y.-H.; Tung, H.-H. Isolation of HAA degrading bacteria from drinking water using complex media Sustain. Environ. Res. 2012, 22, 287-294
66. Zhang, P.; Hozalski, R. M.; Leach, L. H.; Camper, A. K.; Goslan, E. H.; Parsons, S. A.; Xie, Y. F.; LaPara, T. M. Isolation and characterization of haloacetic acid-degrading Afipia spp. from drinking water FEMS Microbiol. Lett. 2009, 297, 203-208
67. Bürgmann, H.; Jenni, S.; Vazquez, F.; Udert, K. M. Regime shift and microbial dynamics in a sequencing batch reactor for nitrification and anammox treatment of urine Appl. Environ. Microbiol. 2011, 77, 5897-5907
68. Valentín-Vargas, A.; Toro-Labrador, G.; Massol-Deyá, A. A. Bacterial community dynamics in full-scale activated sludge bioreactors: operational and ecological factors driving community assembly and performance PLoS One 2012, 7, e42524