Inferring Species Compositions of Complex Fungal Communities from Long- and Short-Read Sequence Data.

ABSTRACT: The kingdom Fungi is highly diverse in morphology and ecosystem function. Yet fungi are challenging to characterize as they can be difficult to culture and morphologically indistinct. Overall, their description and analysis lag far behind other microbes such as bacteria. Classification of species via high-throughput sequencing is increasingly becoming the norm for pathogen detection, microbiome studies, and environmental monitoring. With the rapid development of sequencing technologies, however, standardized procedures for taxonomic assignment of long sequence reads have not yet been well established. Focusing on nanopore sequencing technology, we compared classification and community composition analysis pipelines using shotgun and amplicon sequencing data generated from mock communities

SUBMITTER: Hu Y 

PROVIDER: S-EPMC9040722 | biostudies-literature | 2022 Apr

REPOSITORIES: biostudies-literature