Print Email Facebook Twitter Metaproteomics, metagenomics and 16S rRNA sequencing provide different perspectives on the aerobic granular sludge microbiome Title Metaproteomics, metagenomics and 16S rRNA sequencing provide different perspectives on the aerobic granular sludge microbiome Author Kleikamp, H.B.C. (TU Delft BT/Environmental Biotechnology) Grouzdev, Denis (SciBear OU, Tallinn) Schaasberg, P. (TU Delft BT/Environmental Biotechnology) van Valderen, R.D. (TU Delft BT/Bioprocess Engineering) van der Zwaan, R. (TU Delft BT/Environmental Biotechnology) van de Wijgaart, R. (TU Delft BT/Environmental Biotechnology) Lin, Y. (TU Delft Environmental Fluid Mechanics) Abbas, B.A. (TU Delft BT/Environmental Biotechnology) Pronk, M. (TU Delft BT/Environmental Biotechnology) van Loosdrecht, Mark C.M. (TU Delft BT/Environmental Biotechnology) Pabst, Martin (TU Delft BT/Environmental Biotechnology) Date 2023 Abstract The tremendous progress in sequencing technologies has made DNA sequencing routine for microbiome studies. Additionally, advances in mass spectrometric techniques have extended conventional proteomics into the field of microbial ecology. However, systematic studies that provide a better understanding of the complementary nature of these 'omics' approaches, particularly for complex environments such as wastewater treatment sludge, are urgently needed. Here, we describe a comparative metaomics study on aerobic granular sludge from three different wastewater treatment plants. For this, we employed metaproteomics, whole metagenome, and 16S rRNA amplicon sequencing to study the same granule material with uniform size. We furthermore compare the taxonomic profiles using the Genome Taxonomy Database (GTDB) to enhance the comparability between the different approaches. Though the major taxonomies were consistently identified in the different aerobic granular sludge samples, the taxonomic composition obtained by the different omics techniques varied significantly at the lower taxonomic levels, which impacts the interpretation of the nutrient removal processes. Nevertheless, as demonstrated by metaproteomics, the genera that were consistently identified in all techniques cover the majority of the protein biomass. The established metaomics data and the contig classification pipeline are publicly available, which provides a valuable resource for further studies on metabolic processes in aerobic granular sludge. Subject 16S rRNA amplicon sequencingAerobic granular sludgemetagenomicsMetaproteomicsWastewater treatment To reference this document use: http://resolver.tudelft.nl/uuid:ae94ee8d-0acb-4803-925f-547f3d263d07 DOI https://doi.org/10.1016/j.watres.2023.120700 ISSN 0043-1354 Source Water Research, 246 Part of collection Institutional Repository Document type journal article Rights © 2023 H.B.C. Kleikamp, Denis Grouzdev, P. Schaasberg, R.D. van Valderen, R. van der Zwaan, R. van de Wijgaart, Y. Lin, B.A. Abbas, M. Pronk, Mark C.M. van Loosdrecht, Martin Pabst Files PDF 1_s2.0_S0043135423011405_main.pdf 4.34 MB Close viewer /islandora/object/uuid:ae94ee8d-0acb-4803-925f-547f3d263d07/datastream/OBJ/view