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Title: MiDAS 4: a global catalogue of full-length 16S rRNA gene sequences and taxonomy for studies of bacterial communities in wastewater treatment plants
Authors: Dueholm, Morten Kam Dahl
Nierychlo, Marta
Andersen, Kasper Skytte
Rudkjøbing, Vibeke
Knutsson, Simon
Arriaga, Sonia
Bakke, Rune
Boon, Nico
Bux, Faizal
Christensson, Magnus
Chua, Adeline Seak May
Curtis, Thomas P.
Cytryn, Eddie
Erijman, Leonardo
Etchebehere, Claudia
Fatta-Kassinos, Despo
Frigon, Dominic
Garcia-Chaves, Maria Carolina
Gu, April Z.
Horn, Harald
Jenkins, David
Kreuzinger, Norbert
Kumari, Sheena
Lanham, Ana
Law, Yingyu
Leiknes, TorOve
Morgenroth, Eberhard
Muszyński, Adam
Petrovski, Steve
Pijuan, Maite
Pillai, Suraj Babu
Reis, Maria A. M.
Rong, Qi
Rossetti, Simona
Seviour, Robert
Tooker, Nick
Vainio, Pirjo
van Loosdrecht, Mark
Vikraman, R.
Wanner, Jiří
Weissbrodt, David
Wen, Xianghua
Zhang, Tong
Nielsen, Per H.
Albertsen, Mads
Nielsen, Per Halkjær
Keywords: Engineering::Environmental engineering
Issue Date: 2022
Source: Dueholm, M. K. D., Nierychlo, M., Andersen, K. S., Rudkjøbing, V., Knutsson, S., Arriaga, S., Bakke, R., Boon, N., Bux, F., Christensson, M., Chua, A. S. M., Curtis, T. P., Cytryn, E., Erijman, L., Etchebehere, C., Fatta-Kassinos, D., Frigon, D., Garcia-Chaves, M. C., Gu, A. Z., ...Nielsen, P. H. (2022). MiDAS 4: a global catalogue of full-length 16S rRNA gene sequences and taxonomy for studies of bacterial communities in wastewater treatment plants. Nature Communications, 13(1), 1908-.
Journal: Nature Communications 
Abstract: Microbial communities are responsible for biological wastewater treatment, but our knowledge of their diversity and function is still poor. Here, we sequence more than 5 million high-quality, full-length 16S rRNA gene sequences from 740 wastewater treatment plants (WWTPs) across the world and use the sequences to construct the 'MiDAS 4' database. MiDAS 4 is an amplicon sequence variant resolved, full-length 16S rRNA gene reference database with a comprehensive taxonomy from domain to species level for all sequences. We use an independent dataset (269 WWTPs) to show that MiDAS 4, compared to commonly used universal reference databases, provides a better coverage for WWTP bacteria and an improved rate of genus and species level classification. Taking advantage of MiDAS 4, we carry out an amplicon-based, global-scale microbial community profiling of activated sludge plants using two common sets of primers targeting regions of the 16S rRNA gene, revealing how environmental conditions and biogeography shape the activated sludge microbiota. We also identify core and conditionally rare or abundant taxa, encompassing 966 genera and 1530 species that represent approximately 80% and 50% of the accumulated read abundance, respectively. Finally, we show that for well-studied functional guilds, such as nitrifiers or polyphosphate-accumulating organisms, the same genera are prevalent worldwide, with only a few abundant species in each genus.
ISSN: 2041-1723
DOI: 10.1038/s41467-022-29438-7
Research Centres: Singapore Centre for Environmental Life Sciences and Engineering 
Rights: © The Author(s) 2022, corrected publication 2022. Open Access. This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit licenses/by/4.0/.
Fulltext Permission: open
Fulltext Availability: With Fulltext
Appears in Collections:SCELSE Journal Articles

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