Benchmarking short-, long- and hybrid-read assemblers for metagenome sequencing of complex microbial communities.

ABSTRACT: Metagenome community analyses, driven by the continued development in sequencing technology, is rapidly providing insights in many aspects of microbiology and becoming a cornerstone tool. Illumina, Oxford Nanopore Technologies (ONT) and Pacific Biosciences (PacBio) are the leading technologies, each with their own advantages and drawbacks. Illumina provides accurate reads at a low cost, but their length is too short to close bacterial genomes. Long reads overcome this limitation, but these technologies produce reads with lower accuracy (ONT) or with lower throughput (PacBio high-fidelity reads). In a critical first analysis step, reads are assembled to reconstruct genomes or individual genes within the community. However, to date, the performance of existing assemblers has never been chall

SUBMITTER: Goussarov G 

PROVIDER: S-EPMC11261854 | biostudies-literature | 2024 Jun

REPOSITORIES: biostudies-literature