Global diversity and biogeography of bacterial communities in wastewater treatment plants

Abstract

Microorganisms in wastewater treatment plants (WWTPs) are essential for water purification to protect public and environmental health. However, the diversity of microorganisms and the factors that control it are poorly understood. Using a systematic global-sampling effort, we analysed the 16S ribosomal RNA gene sequences from ~1,200 activated sludge samples taken from 269 WWTPs in 23 countries on 6 continents. Our analyses revealed that the global activated sludge bacterial communities contain ~1 billion bacterial phylotypes with a Poisson lognormal diversity distribution. Despite this high diversity, activated sludge has a small, global core bacterial community (n = 28 operational taxonomic units) that is strongly linked to activated sludge performance. Meta-analyses with global datasets associate the activated sludge microbiomes most closely to freshwater populations. In contrast to macroorganism diversity, activated sludge bacterial communities show no latitudinal gradient. Furthermore, their spatial turnover is scale-dependent and appears to be largely driven by stochastic processes (dispersal and drift), although deterministic factors (temperature and organic input) are also important. Our findings enhance our mechanistic understanding of the global diversity and biogeography of activated sludge bacterial communities within a theoretical ecology framework and have important implications for microbial ecology and wastewater treatment processes.

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Fig. 1: The GWMC captures microbial diversity of globally distributed WWTPs.
Fig. 2: Abundance, composition and functional importance of the global core OTUs in activated sludge.
Fig. 3: Comparing bacterial community compositions across continents and with other habitats.
Fig. 4: Spatial turnover of the activated sludge bacterial communities.
Fig. 5: Environmental drivers of the activated sludge community composition.

Data availability

The sample metadata are available in Supplementary Table 1. Sequences are available from the NCBI Sequence Read Archive with accession number PRJNA509305. OTU tables and representative sequences of the OTUs are available on the GWMC website (http://gwmc.ou.edu/data-disclose.html).

Code availability

R codes on the statistical analyses are available at https://github.com/Linwei-Wu/Global-bacterial-diversity-in-WWTPs.

Change history

  • 14 November 2019

    An amendment to this paper has been published and can be accessed via a link at the top of the paper.

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Acknowledgements

The authors thank T. Allen, A. Al-Omari, R. Bart, D. Crowley, G. Harwood, T. Hensley, S.-J. Huitric, M. M. L. Martins, A. Mena, B. Pathak, S. Pereira, D. E. Sauble, M. Taylor, P. Truong, D. VanderSchuur, A. Vieira and D. Zambrano for helping with sampling and metadata collection. This work was supported by the Tsinghua University Initiative Scientific Research Program (No. 20161080112), the National Scientific Foundation in China (51678335), the State Key Joint Laboratory of Environmental Simulation and Pollution Control (18L02ESPC) in China, and the Office of the Vice President for Research at the University of Oklahoma. Lin.W. and B.Z. were generously supported by the China Scholarship Council (CSC). J.Z. (jzhou@ou.edu) and D.N. (ningdaliang@ou.edu) serve as GWMC contacts.

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All authors contributed experimental assistance and intellectual input to this study. The original concept was conceived by J.Z. Experimental strategies and sampling design were developed by J.Z., X.W., T.P.C., Q.H., Z. He. and D.N. Sample collections were coordinated by Q.H., D.N., X.W., T.P.C., B.Z., M.R.B., G.F.W., J.Z. and other GWMC members. J.D.V.N and D.N. managed shipping. Y. Li., B.Z., ZX.L., D.N. and some GWMC members (F.B., S.K., J.V., A.N., D.D.C.V., C.E., L.C., J.C.A., C.D.L., L.C.M-H., A.C., P. Bovio. and D.A.) did DNA extraction. P.Z. performed DNA sequencing with the help from Liy.W. Data analyses were performed by Lin.W., D.N., J.Z., B.Z., X.S., Q.Z., F.L., N.X. and R.T. with help from Y.D., Q.T., T.Z., Ya.Z and A.W. The manuscript was written by Lin.W., J.Z. and D.N. with the help from B.E.R., L.A.-C., M.W., C.S.C., D.A.S., G.F.W., J.M.T., P.J.J.A., J.K., J.V., P.H.N., R.G.L., X.W., Z. He. and Y.Y.

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Correspondence to Qiang He or Thomas P. Curtis or Xianghua Wen or Jizhong Zhou.

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Supplementary information

Supplementary Information

Supplementary Figures 1–7, Supplementary Table 2, Supplementary Tables 4–10, Supplementary Table 13 and Supplementary References.

Reporting Summary

Supplementary Table 1

Summary of metadata.

Supplementary Table 3

OTUs identified as core community at the global scale or within each continent.

Supplementary Table 11

Diversity of Nitrosomonas species across WWTPs.

Supplementary Table 12

The diversity of Candidatus Accumulimonas, Candidatus Accumulibacter and Tetrasphaera species across WWTPs.

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Wu, L., Ning, D., Zhang, B. et al. Global diversity and biogeography of bacterial communities in wastewater treatment plants. Nat Microbiol 4, 1183–1195 (2019). https://doi.org/10.1038/s41564-019-0426-5

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