Mikhail Rayko

TL;DR: MetaFlye is presented, which addresses important long-read metagenomic assembly challenges, such as uneven bacterial composition and intra-species heterogeneity, and benchmarked metaFlye using simulated and mock bacterial communities and show that it consistently produces assemblies with better completeness and contiguity than state-of-the-art long- read assemblers.

TL;DR: In this paper, a search of human gut metagenomes for circular contigs encoding phage hallmark genes resulted in the identification of 3738 apparently complete phage genomes that represent 451 putative genera.

TL;DR: The metaFlye assembler is presented and it is demonstrated that it generates highly contiguous and accurate metagenome assemblies and captures many 16S RNA genes within long contigs, thus providing new opportunities for analyzing the microbial “dark matter of life”.

TL;DR: A significant number of variants that can be seen only in one submission (singletons) are found, and these singleton variants may influence the estimations of the viral mutation rate and tree topology.

TL;DR: In this paper , the authors describe the viralFlye tool for identification and analysis of metagenome-assembled viruses in long-read assemblies and demonstrate that long-reads result in a much larger array of predicted virus-host associations as compared to short-read assembly.