Enhanced Recovery of Microbial Genes and Genomes From a Marine Water Column Using Long-Read Metagenomics.

ABSTRACT: Third-generation sequencing has penetrated little in metagenomics due to the high error rate and dependence for assembly on short-read designed bioinformatics. However, second-generation sequencing metagenomics (mostly Illumina) suffers from limitations, particularly in the assembly of microbes with high microdiversity and retrieval of the flexible (adaptive) fraction of prokaryotic genomes. Here, we have used a third-generation technique to study the metagenome of a well-known marine sample from the mixed epipelagic water column of the winter Mediterranean. We have compared PacBio Sequel II with the classical approach using Illumina Nextseq short reads followed by assembly to study the metagenome. Long reads allow for efficient direct retrieval of complete genes avoiding the bias of the a

SUBMITTER: Haro-Moreno JM 

PROVIDER: S-EPMC8430335 | biostudies-literature | 2021

REPOSITORIES: biostudies-literature