Freshwater monitoring by nanopore sequencing

Lara Urban; Andre Holzer; J Jotautas Baronas; Michael Hall; Philipp Braeuninger-Weimer; Michael J Scherm; Daniel J Kunz; Surangi N Perera; Daniel E Martin-Herranz; Edward T Tipper; Susannah J Salter; Maximilian R Stammnitz

. CC-BY-ND 4.0 International license author/funder. It is made available under a The copyright holder for this preprint (which was not peer-reviewed) is the . https://doi.org/10.1101/2020.02.06.936302 doi: bioRxiv preprint The copyright holder for this preprint (which was not peer-reviewed) is the . https://doi.org/10.1101/2020.02.06.936302 doi: bioRxiv preprint The copyright holder for this preprint (which was not peer-reviewed) is the . https://doi.org/10.1101/2020.02.06.936302 doi: bioRxiv preprint The copyright holder for this preprint (which was not peer-reviewed) is the . https://doi.org/10.1101/2020.02.06.936302 doi: bioRxiv preprint Q1 -1.5*IQR (lower), and Q3 + 1.5*IQR (upper), respectively; Q1: first quartile, Q3: third quartile, IQR: interquartile range. The centre colour-scale table depicts the categorisation of subsets of genera as waterborne bacterial pathogens (WB), drinking water pathogens (DWP), potential drinking water pathogens (pDWP), human pathogens (HP) and core genera from wastewater treatment plants (WW) (dark grey: included, light grey: Table 3 ). The right-hand circle plot shows the distribution of bacterial genera across locations of the River Cam. Circle sizes represent overall read size fractions, while circle colours (sigma scheme) represent the standard deviation from the observed mean relative abundance within each genus. (d) Phylogenetic tree illustrating the multiple sequence alignment of all nanopore reads classified as Leptospira, together with known Leptospira reference sequences ranging from pathogenic to saprophytic species 29 (Supplementary Table 4a ). The copyright holder for this preprint (which was not peer-reviewed) is the . https://doi.org/10.1101/2020.02.06.936302 doi: bioRxiv preprint MATERIALS AND METHODS