Identification of viral pathogen diversity in sewage sludge by metagenome analysis

Environmental Science and Technology

Volumn 47, Issue 4, 2013, Pages 1945-1951

  Bibby, Kyle ^a,b   Peccia, Jordan ^a  

^a Yale University   (United States)

^b PA 15260   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

AGRICULTURAL LAND; CLASS B BIOSOLIDS; CORONAVIRUSES; CRITICAL INFORMATION; EMERGING VIRUS; ENVIRONMENTAL SCIENTISTS; HUMAN POPULATION; HUMAN VIRUS; LAND APPLICATIONS; METAGENOMES; METAGENOMICS; SEWAGE COLLECTION SYSTEMS; SLUDGE SAMPLES; SOIL AMENDMENT; WASTEWATER SAMPLES; WASTEWATER TREATMENT PLANTS;

BIOLOGICAL MATERIALS; BIOSOLIDS; POLYMERASE CHAIN REACTION; RNA; SEWAGE SLUDGE; SOILS;

VIRUSES;

DNA;

AGRICULTURAL LAND; BIOSOLID; GENOME; INFECTIVITY; PATHOGEN; POLYMERASE CHAIN REACTION; RISK ASSESSMENT; SEWAGE; SLUDGE; SOIL AMENDMENT; SPECIES DIVERSITY; VIRUS; WATER TREATMENT;

ARTICLE; BIOSOLID; CORONAVIRUS; COSAVIRUS; DNA SEQUENCE; DNA VIRUS; ENTEROVIRUS; ENVIRONMENTAL IMPACT; KLASSEVIRUS; METAGENOME; NONHUMAN; POLYMERASE CHAIN REACTION; RESPIRATORY VIRUS; RNA VIRUS; SEWAGE TREATMENT; SLUDGE; VIRUS IDENTIFICATION; VIRUS VIRULENCE; WASTE WATER MANAGEMENT;

DNA, VIRAL; HUMANS; METAGENOME; POLYMERASE CHAIN REACTION; REPRODUCIBILITY OF RESULTS; RNA, VIRAL; SEQUENCE ANALYSIS; SEWAGE;

UNITED STATES;

EID: 84874052823     PISSN: 0013936X     EISSN: 15205851     Source Type: Journal    
DOI: 10.1021/es305181x     Document Type: Article

References (31)

1. Gerba, C. P.; Gramos, D. M.; Nwachuku, N. Comparative inactivation of Enteroviruses and Adenovirus 2 by UV Light Appl. Environ. Microbiol. 2002, 68, 5167-5169 (Pubitemid 35154831)
2. Greninger, A.; Runckel, C.; Chiu, C.; Haggerty, T.; Parsonnet, J.; Ganem, D.; DeRisi, J. The complete genome of Klassevirus-A novel picornavirus in pediatric stool Virol. J. 2009, 6, 82
3. USEPA, Ambient Water Quality Criteria forBacteria, EPA440/5-84-002. 1986.
4. Bibby, K.; Viau, E.; Peccia, J. Viral metagenome analysis to guide human pathogen monitoring in environmental samples Letters in Applied Microbiology 2011, 52, 386-392
5. Rosario, K.; Nilsson, C.; Lim, Y. W.; Ruan, Y.; Breitbart, M. Metagenomic analysis of viruses in reclaimed water Environ. Microbiol. 2009, 11, 2806-2820
6. Cantalupo, P. G.; Calgua, B.; Zhao, G.; Hundesa, A.; Wier, A. D.; Katz, J. P.; Grabe, M.; Hendrix, R. W.; Girones, R.; Wang, D.; Pipas, J. M. Raw sewage harbors diverse viral Populations mBio 2011, 2, 5
7. Beecher, N.; Crawford, K.; Goldstein, N.; Lono-Batura, M.; Dziezyk, E.. A National Biosolids Regulation, Quality, End Use, And Disposal Survey; Northeast Biosolids and Residuals Association: Tamworth, NH, 2007; http://www. nebiosolids.org/uploads/pdf/NtlBiosolidsReport-20July07.pdf.
8. Viau, E.; Peccia, J. Survey of wastewater indicators and human pathogen genomes in biosolids produced by class A and class B stabilization treatments Appl. Environ. Microbiol. 2009, 75, 164-174
9. Wong, K.; Onan, B. M.; Xagoraraki, I. Quantification of enteric viruses, pathogen indicators, and Salmonella bacteria in class B anaerobically digested biosolids by culture and molecular methods Appl. Environ. Microbiol. 2010, 76, 6441-6448
10. McLennan, S. D.; Peterson, L. A.; Rose, J. B. Comparison of point-of-use technologies for emergency disinfection of sewage-contaminated drinking water Appl. Environ. Microbiol. 2009, 75, 7283-7286
11. Santo Domingo, J. W.; Bambic, D. G.; Edge, T. A.; Wuertz, S. Quo vadis source tracking? Towards a strategic framework for environmental monitoring of fecal pollution Water Res. 2007, 41, 3539-3552 (Pubitemid 47176115)
12. Monpoeho, S.; Maul, A.; Mignotte-Cadiergues, B.; Schwartzbrod, L.; Billaudel, S.; Ferro, V. Best viral elution method available for quantification of Enteroviruses in sludge by both cell culture and reverse transcription-PCR Appl. Environ. Microbiol. 2001, 67, 2484-2488 (Pubitemid 33639717)
13. USEPA. Method 1602: Male-specific (F+) and Somatic Coliphage in Water by Single Agar Layer (SAL) Procedure, EPA 821-R-01-029. 2001.
14. Wang, D.; Coscoy, L.; Zylberberg, M.; Avila, P. C.; Boushey, H. A.; Ganem, D.; DeRisi, J. L. Microarray-based detection and genotyping of viral pathogens Proc. Natl. Acad. Sci. 2002, 99, 15687-15692 (Pubitemid 35403992)
15. Wylie, K. M.; Mihindukulasuriya, K. A.; Sodergren, E.; Weinstock, G. M.; Storch, G. A. Sequence analysis of the human virome in febrile and afebrile children PLoS ONE 2012, 7, e27735
16. Sorensen, T. A Method of Establishing Groups of Equal Amplitude in Plant Sociology Based on Similarity of Species Content; Biologiske Skrifter, 1948.
17. J, K.; S, R.; Y, J.; B, H.; A, N.; Zimet, G. D. Rates of human Papillomavirus vaccination, attitudes about vaccination, and human Papillomavirus prevalence in young women Obstet. Gynecol. 2008, 111, 8
18. Levy, J. A.; Ferro, F.; Greenspan, D.; Lennette, E. T. Frequent isolation of HHV-6 from saliva and high seroprevalence of the virus in the population Lancet 1990, 335, 1047-1050 (Pubitemid 20148646)
19. Arbuckle, J. H.; Medveczky, M. M.; Luka, J.; Hadley, S. H.; Luegmayr, A.; Ablashi, D.; Lund, T. C.; Tolar, J.; De Meirleir, K.; Montoya, J. G.; Komaroff, A. L.; Ambros, P. F.; Medveczky, P. G. The latent human herpesvirus-6A genome specifically integrates in telomeres of human chromosomes in vivo and in vitro Proc. Natl. Acad. Sci. 2010, 107, 5563-5568
20. Pipas, J. Personal Communication. 2012.
21. Bibby, K.; Peccia, J. Prevalence of respiratory adenovirus species B and C in sewage sludge Environ. Sci.: Processes Impacts 2013, 10.1039/C2EM30831B
22. Viau, E.; Bibby, K.; Paez-Rubio, T.; Peccia, J. Toward a consensus view on the infectious risks associated with land application of sewage sludge Environ. Sci. Technol. 2011, 45, 5459-5469
23. Blinkova, O.; Rosario, K.; Li, L.; Kapoor, A.; Slikas, B.; Bernardin, F.; Breitbart, M.; Delwart, E. Frequent detection of highly diverse variants of cardiovirus, cosavirus, bocavirus, and circovirus in sewage samples collected in the United States J. Clin. Microbiol. 2009, 47, 3507-3513
24. Woo, P.; Lau, S.; Yip, C.; Huang, Y.; Yuen, K.-Y. More and more coronaviruses: Human coronavirus HKU1 Viruses 2009, 1, 57-71
25. Lewis, D.; Gattie, D. K. Pathogen risks from applying sewage sludge to land Environ. Sci. Technol. 2002, 36, 286A-293A (Pubitemid 34747272)
26. Joki-Korpela, P.; Hyypia, T. Parechoviruses, a novel group of human picornaviruses Ann. Med. 2001, 33, 466-471 (Pubitemid 32959918)
27. Holtz, L.; Finkbeiner, S.; Zhao, G.; Kirkwood, C.; Girones, R.; Pipas, J.; Wang, D. Klassevirus 1, a previously undescribed member of the family Picornaviridae, is globally widespread Virol. J. 2009, 6, 86
28. Sedmak, G.; Nix, W. A.; Jentzen, J.; Haupt, T. E.; Davis, J. P.; Bhattacharyya, S.; Pallansch, M. A.; Oberste, M. S. Infant deaths associated with human Parechovirus infection in Wisconsin Clin. Infect. Dis. 2010, 50, 357-361
29. Shendure, J.; Ji, H. Next-generation DNA sequencing Nat. Biotechnol. 2008, 26, 1135-1145
30. Rohwer, F. Global phage diversity Cell 2003, 113, 141 (Pubitemid 36514964)
31. Sloots, T. P.; Whiley, D. M.; Lambert, S. B.; Nissen, M. D. Emerging respiratory agents: New viruses for old diseases? J. Clin. Virol. 2008, 42, 233-243