2023
DOI: 10.1101/2023.02.16.527874
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Dancing the Nanopore limbo – Nanopore metagenomics from small DNA quantities for bacterial genome reconstruction

Abstract: Background: While genome-resolved metagenomics has revolutionized our understanding of microbial and genetic diversity in environmental samples, assemblies of short-reads often result in incomplete and/or highly fragmented metagenome-assembled genomes (MAGs), hampering in-depth genomics. Although Nanopore sequencing has increasingly been used in microbial metagenomics as long reads greatly improve the assembly quality of MAGs, the recommended DNA quantity usually exceeds the recoverable amount of DNA of enviro… Show more

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Cited by 2 publications
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“…-DNA quantity, the most evident, yet the most important characteristics, especially for Oxford Nanopore platform that, according to manufacturer recommendations, requires at least 1 μg of DNA (although in some reports this quantity was lowered to just 1 ng 16 . Obtaining sufficient quantities of DNA is also particularly important for Arctic Ocean samples given comparatively low numbers of prokaryotic cells in cold waters 17 .…”
Section: Introductionmentioning
confidence: 99%
“…-DNA quantity, the most evident, yet the most important characteristics, especially for Oxford Nanopore platform that, according to manufacturer recommendations, requires at least 1 μg of DNA (although in some reports this quantity was lowered to just 1 ng 16 . Obtaining sufficient quantities of DNA is also particularly important for Arctic Ocean samples given comparatively low numbers of prokaryotic cells in cold waters 17 .…”
Section: Introductionmentioning
confidence: 99%