Taxonomic classification method for metagenomics based on core protein families with Core-Kaiju.

ABSTRACT: Characterizing species diversity and composition of bacteria hosted by biota is revolutionizing our understanding of the role of symbiotic interactions in ecosystems. Determining microbiomes diversity implies the assignment of individual reads to taxa by comparison to reference databases. Although computational methods aimed at identifying the microbe(s) taxa are available, it is well known that inferences using different methods can vary widely depending on various biases. In this study, we first apply and compare different bioinformatics methods based on 16S ribosomal RNA gene and shotgun sequencing to three mock communities of bacteria, of which the compositions are known. We show that none of these methods can infer both the true number of taxa and their abundances. We thus propose a n

SUBMITTER: Tovo A 

PROVIDER: S-EPMC7498351 | biostudies-literature | 2020 Sep

REPOSITORIES: biostudies-literature