Technical Papers
Aug 12, 2021

Evaluating Quantitative PCR Assays to Enumerate Several Bacterial Populations of Importance in Different Municipal Wastewater Treatment Designs

Publication: Journal of Environmental Engineering
Volume 147, Issue 10

Abstract

This study evaluated the efficacy of quantitative polymerase chain reaction (qPCR) to monitor several pertinent bacterial populations in 25 different full-scale wastewater treatment bioreactors across 9 different system designs. All the bioreactors contained a substantial quantity of total bacterial biomass and denitrifying bacteria, independent of system design. In contrast, the quantities of ammonia oxidizing bacteria (AOB) and phosphate accumulating organisms (PAOs) measured by qPCR targeting the amoA gene and the 16S rRNA genes, respectively, from the Candidatus Accumulibacter lineage significantly correlated with system design. Bioreactors with short mean cell residence time (<2  days) had significantly lower AOB abundance than most of the other bioreactors (all pairwise comparisons P<0.0001, except for a membrane-coupled bioreactor). Similarly, bioreactors designed for enhanced biological phosphorus removal had significantly higher relative quantities of PAOs than did conventional systems (P<1018). In conclusion, these qPCR assays should be practically useful for monitoring full-scale wastewater treatment bioreactors, thereby helping to improve process performance.

Get full access to this article

View all available purchase options and get full access to this article.

Data Availability Statement

All qPCR data are available from the corresponding author upon reasonable request.

Acknowledgments

Financial support was provided by the Minnesota Environment and Natural Resources Trust Fund. We thank the operators at the treatment facilities for collecting samples, and Elizabeth Hill for technical assistance.

References

Cole, A. C., M. J. Semmens, and T. M. LaPara. 2004. “Stratification of activity and bacterial community structure in biofilms grown on membranes transferring oxygen.” Appl. Environ. Microbiol. 70 (4): 1982–1989. https://doi.org/10.1128/AEM.70.4.1982-1989.2004.
Costa, E., J. Pérez, and J.-U. Kreft. 2006. “Why is metabolic labour divided in nitrification?” Trends Microbiol. 14 (5): 213–219. https://doi.org/10.1016/j.tim.2006.03.006.
Daims, H., et al. 2015. “Complete nitrification by Nitrospira bacteria.” Nature 528 (7583): 504. https://doi.org/10.1038/nature16461.
Gernaey, K., L. Verschuere, L. Luyten, and W. Verstraete. 1997. “Fast and sensitive acute toxicity detection with an enrichment nitrifying culture.” Water Environ. Res. 69 (6): 1163–1169. https://doi.org/10.2175/106143097X125911.
Gibson, D. G., L. Young, R.-Y. Chuang, J. C. Venter, C. A. Hutchison III, and H. O. Smith. 2009. “Enzymatic assembly of DNA molecules up to several hundred kilobases.” Nat. Methods 6 (5): 343. https://doi.org/10.1038/nmeth.1318.
Harms, G., A. C. Layton, H. M. Dionisi, I. R. Gregory, V. M. Garrett, S. A. Hawkins, K. G. Robinson, and G. S. Sayler. 2003. “Real-time PCR quantification of nitrifying bacteria in a municipal wastewater treatment plant.” Environ. Sci. Technol. 37 (2): 343–351. https://doi.org/10.1021/es0257164.
He, S., D. L. Gall, and K. D. McMahon. 2007. “‘Candidatus Accumulibacter’ population structure in enhanced biological phosphorus removal sludges as revealed by polyphosphate kinase genes.” Appl. Environ. Microbiol. 73 (18): 5865–5874. https://doi.org/10.1128/AEM.01207-07.
Johnston, J., T. LaPara, and S. Behrens. 2019. “Composition and dynamics of the activated sludge microbiome during seasonal nitrification failure.” Sci. Rep. 9 (1): 4565. https://doi.org/10.1038/s41598-019-40872-4.
Ju, F., and T. Zhang. 2015. “Bacterial assembly and temporal dynamics in activated sludge of a full-scale municipal wastewater treatment plant.” ISME J. 9 (3): 683. https://doi.org/10.1038/ismej.2014.162.
Klappenbach, J. A., J. M. Dunbar, and T. M. Schmidt. 2000. “rRNA operon copy number reflects ecological strategies of bacteria.” Appl. Environ. Microbiol. 66 (4): 1328–1333. https://doi.org/10.1128/AEM.66.4.1328-1333.2000.
Klappenbach, J. A., P. R. Saxman, J. R. Cole, and T. M. Schmidt. 2001. “rrndb: The ribosomal RNA operon copy number database.” Nucleic Acids Res. 29 (1): 181–184. https://doi.org/10.1093/nar/29.1.181.
Koops, H.-P., and A. Pommerening-Röser. 2001. “Distribution and ecophysiology of the nitrifying bacteria emphasizing cultured species.” FEMS Microbiol. Ecol. 37 (1): 1–9. https://doi.org/10.1111/j.1574-6941.2001.tb00847.x.
LaPara, T. M., M. Madson, S. Borchardt, K. S. Lang, and T. J. Johnson. 2015. “Multiple discharges of treated municipal wastewater have a small effect on the quantities of numerous antibiotic resistance determinants in the Upper Mississippi river.” Environ. Sci. Technol. 49 (19): 11509–11515. https://doi.org/10.1021/acs.est.5b02803.
May, T., M. Koch-Singenstreu, J. Ebling, R. Stantscheff, L. Müller, F. Jacobi, D. Polag, F. Keppler, and H. König. 2015. “Design and application of a synthetic DNA standard for real-time PCR analysis of microbial communities in a biogas digester.” Appl. Microbiol. Biotechnol. 99 (16): 6855–6863. https://doi.org/10.1007/s00253-015-6721-z.
Meinhardt, K. A., A. Bertagnolli, M. W. Pannu, S. E. Strand, S. L. Brown, and D. A. Stahl. 2015. “Evaluation of revised polymerase chain reaction primers for more inclusive quantification of ammonia-oxidizing archaea and bacteria.” Environ. Microbiol. Rep. 7 (2): 354–363. https://doi.org/10.1111/1758-2229.12259.
Metcalf & Eddy, G. Tchobanoglous, F. L. Burton, and H. D. Stensel. 2003. Wastewater engineering: Treatment and reuse. Boston: McGraw-Hill.
Rotthauwe, J.-H., K.-P. Witzel, and W. Liesack. 1997. “The ammonia monooxygenase structural gene amoA as a functional marker: Molecular fine-scale analysis of natural ammonia-oxidizing populations.” Appl. Environ. Microbiol. 63 (12): 4704–4712. https://doi.org/10.1128/aem.63.12.4704-4712.1997.
Saunders, A. M., M. Albertsen, J. Vollertsen, and P. H. Nielsen. 2016. “The activated sludge ecosystem contains a core community of abundant organisms.” ISME J. 10 (1): 11. https://doi.org/10.1038/ismej.2015.117.
van Kessel, M. A. H. J., D. R. Speth, M. Albertsen, P. H. Nielsen, H. J. M. Op den Camp, B. Kartal, M. S. M. Jetten, and S. Lücker. 2015. “Complete nitrification by a single microorganism.” Nature 528 (7583): 555. https://doi.org/10.1038/nature16459.
Waak, M. B., R. M. Hozalski, C. Hallé, and T. M. LaPara. 2019. “Comparison of the microbiomes of two drinking water distribution systems—With and without residual chloramine disinfection.” Microbiome 7 (1): 87. https://doi.org/10.1186/s40168-019-0707-5.
Winkler, M. K., J. P. Bassin, R. Kleerebezem, D. Y. Sorokin, and M. C. M. van Loosdrecht. 2012. “Unravelling the reasons for disproportion in the ratio of AOB and NOB in aerobic granular sludge.” Appl. Microbiol. Biotechnol. 94 (6): 1657–1666. https://doi.org/10.1007/s00253-012-4126-9.
Woese, C. R. 1987. “Bacterial evolution.” Microbiol. Rev. 51 (2): 221. https://doi.org/10.1128/mr.51.2.221-271.1987.

Information & Authors

Information

Published In

Go to Journal of Environmental Engineering
Journal of Environmental Engineering
Volume 147Issue 10October 2021

History

Received: Jan 6, 2021
Accepted: Jun 9, 2021
Published online: Aug 12, 2021
Published in print: Oct 1, 2021
Discussion open until: Jan 12, 2022

Permissions

Request permissions for this article.

Authors

Affiliations

Postdoctoral Research Associate, Dept. of Civil, Environmental, and Geo-Engineering, Univ. of Minnesota Twin Cities, 500 Pillsbury Dr. S.E., Minneapolis, MN 55455. ORCID: https://orcid.org/0000-0002-6310-5323
Emma O’ Leary
Graduate Student, Dept. of Civil, Environmental, and Geo-Engineering, Univ. of Minnesota Twin Cities, 500 Pillsbury Dr. S.E., Minneapolis, MN 55455.
Sebastian Behrens
Associate Professor, Dept. of Civil, Environmental, and Geo-Engineering and the Biotechnology Institute, Univ. of Minnesota Twin Cities, 500 Pillsbury Dr. S.E., Minneapolis, MN 55455.
Professor, Dept. of Civil, Environmental, and Geo-Engineering and the Biotechnology Institute, Univ. of Minnesota Twin Cities, 500 Pillsbury Dr. S.E., Minneapolis, MN 55455 (corresponding author). ORCID: https://orcid.org/0000-0002-5653-5309. Email: [email protected]

Metrics & Citations

Metrics

Citations

Download citation

If you have the appropriate software installed, you can download article citation data to the citation manager of your choice. Simply select your manager software from the list below and click Download.

Cited by

  • Dynamics of PHA-Accumulating Bacterial Communities Fed with Lipid-Rich Liquid Effluents from Fish-Canning Industries, Polymers, 10.3390/polym14071396, 14, 7, (1396), (2022).

View Options

Get Access

Access content

Please select your options to get access

Log in/Register Log in via your institution (Shibboleth)
ASCE Members: Please log in to see member pricing

Purchase

Save for later Information on ASCE Library Cards
ASCE Library Cards let you download journal articles, proceedings papers, and available book chapters across the entire ASCE Library platform. ASCE Library Cards remain active for 24 months or until all downloads are used. Note: This content will be debited as one download at time of checkout.

Terms of Use: ASCE Library Cards are for individual, personal use only. Reselling, republishing, or forwarding the materials to libraries or reading rooms is prohibited.
ASCE Library Card (5 downloads)
$105.00
Add to cart
ASCE Library Card (20 downloads)
$280.00
Add to cart
Buy Single Article
$35.00
Add to cart

Get Access

Access content

Please select your options to get access

Log in/Register Log in via your institution (Shibboleth)
ASCE Members: Please log in to see member pricing

Purchase

Save for later Information on ASCE Library Cards
ASCE Library Cards let you download journal articles, proceedings papers, and available book chapters across the entire ASCE Library platform. ASCE Library Cards remain active for 24 months or until all downloads are used. Note: This content will be debited as one download at time of checkout.

Terms of Use: ASCE Library Cards are for individual, personal use only. Reselling, republishing, or forwarding the materials to libraries or reading rooms is prohibited.
ASCE Library Card (5 downloads)
$105.00
Add to cart
ASCE Library Card (20 downloads)
$280.00
Add to cart
Buy Single Article
$35.00
Add to cart

Media

Figures

Other

Tables

Share

Share

Copy the content Link

Share with email

Email a colleague

Share