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Urbanization promotes specific bacteria in freshwater microbiomes including potential pathogens

View ORCID ProfileDaniela Numberger, View ORCID ProfileLuca Zoccarato, View ORCID ProfileJason Woodhouse, View ORCID ProfileLars Ganzert, Sascha Sauer, View ORCID ProfileHans-Peter Grossart, Alex Greenwood
doi: https://doi.org/10.1101/2020.06.26.173328
Daniela Numberger
1Leibniz Institute for Zoo and Wildlife Research, Alfred-Kowalke-Strasse 17, 10315 Berlin, Germany
2Leibniz Institute of Freshwater Ecology and Inland Fisheries, Alte Fischerhütte 2, 16775 Stechlin, Germany
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Luca Zoccarato
2Leibniz Institute of Freshwater Ecology and Inland Fisheries, Alte Fischerhütte 2, 16775 Stechlin, Germany
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Jason Woodhouse
2Leibniz Institute of Freshwater Ecology and Inland Fisheries, Alte Fischerhütte 2, 16775 Stechlin, Germany
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Lars Ganzert
2Leibniz Institute of Freshwater Ecology and Inland Fisheries, Alte Fischerhütte 2, 16775 Stechlin, Germany
3GFZ German Research Centre for Geosciences, Helmholtz Centre Potsdam, Section 3.7 Geomicrobiology, Telegrafenberg C-422, 14473 Potsdam, Germany
4UiT - The Arctic University of Norway, Faculty of Biosciences, Fisheries and Economics, Marbio, Breivika, N-9037 Tromsø, Norway
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Sascha Sauer
5Max Delbrück Center for Molecular Medicine in the Helmholtz Association, 16775, 13125 Berlin, Germany
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Hans-Peter Grossart
2Leibniz Institute of Freshwater Ecology and Inland Fisheries, Alte Fischerhütte 2, 16775 Stechlin, Germany
6University of Potsdam, Institute of Biochemistry and Biology, Karl-Liebknecht-Strasse 24-25, 14476 Potsdam, Germany
7Berlin-Brandenburg Institute of Advanced Biodiversity Research (BBIB), Altensteinstrasse 32, 14195 Berlin, Germany
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  • For correspondence: hgrossart@igb-berlin.de
Alex Greenwood
1Leibniz Institute for Zoo and Wildlife Research, Alfred-Kowalke-Strasse 17, 10315 Berlin, Germany
8Freie Universität Berlin, Department of Veterinary Medicine, Institute for Virology, Robert von Ostertag-Strasse 7-13, 14163 Berlin, Germany
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ABSTRACT

Freshwater ecosystems are characterized by complex and highly dynamic microbial communities that are strongly structured by their local environment and biota. Growing city populations and the process of urbanization substantially alter freshwater environments. To determine the changes in freshwater microbial communities associated with urbanization, full-length 16S rRNA gene PacBio sequencing was performed from surface water and sediments from a wastewater treatment plant, urban and rural lakes in the Berlin-Brandenburg region, Northeast Germany. Water samples exhibited highly habitat specific bacterial communities with multiple genera showing clear urban signatures. We identified potentially harmful bacterial groups associated with environmental parameters specific to urban habitats such as Alistipes, Escherichia/Shigella, Rickettsia and Streptococcus. We demonstrate that urbanization alters natural microbial communities in lakes and, via simultaneous eutrophication, creates favorable conditions that promote specific bacterial genera including potential pathogens. Our findings are of global relevance highlighting a long-term health risk in urbanized waterbodies, at a time of accelerated global urbanization. The results demonstrate the urgency for undertaking mitigation measures such as targeted lake restoration projects and sustainable water management efforts.

Competing Interest Statement

The authors have declared no competing interest.

Footnotes

  • Due to a very high diversity in sequences (obtained by full-length 16S rRNA sequenceing by using the sequel system of PacBio) we have reanalyzed the raw data to reduce the number of single sequences.

Copyright 
The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. All rights reserved. No reuse allowed without permission.
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Posted November 08, 2021.
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Urbanization promotes specific bacteria in freshwater microbiomes including potential pathogens
Daniela Numberger, Luca Zoccarato, Jason Woodhouse, Lars Ganzert, Sascha Sauer, Hans-Peter Grossart, Alex Greenwood
bioRxiv 2020.06.26.173328; doi: https://doi.org/10.1101/2020.06.26.173328
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Urbanization promotes specific bacteria in freshwater microbiomes including potential pathogens
Daniela Numberger, Luca Zoccarato, Jason Woodhouse, Lars Ganzert, Sascha Sauer, Hans-Peter Grossart, Alex Greenwood
bioRxiv 2020.06.26.173328; doi: https://doi.org/10.1101/2020.06.26.173328

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