Author: 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
Title: Freshwater monitoring by nanopore sequencing Document date: 2020_2_7
ID: 77nsidzc_24
Snippet: A number of experimental intricacies should be addressed towards future nanopore freshwater sequencing studies, mostly by scrutinising water DNA extraction yields, PCR biases and molar imbalances in barcode multiplexing ( Figure 2a ; Extended Data Figure 8 ). Yet, our results show that it would be theoretically feasible to obtain meaningful river microbiota from >100 barcoded samples on a single nanopore flow cell, thereby enabling water monitori.....
Document: A number of experimental intricacies should be addressed towards future nanopore freshwater sequencing studies, mostly by scrutinising water DNA extraction yields, PCR biases and molar imbalances in barcode multiplexing ( Figure 2a ; Extended Data Figure 8 ). Yet, our results show that it would be theoretically feasible to obtain meaningful river microbiota from >100 barcoded samples on a single nanopore flow cell, thereby enabling water monitoring projects involving large collections at costs below £20 per sample (Supplementary Table 6 ). Barcoded shotgun nanopore sequencing protocols may pose a viable alternative strategy to bypass pitfalls often observed in amplicon-based workflows, namely taxon-specific primer biases 14 Competing interests: All authors of this manuscript declare no competing interest.
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