Testing the limits of short-reads metagenomic classifications programs in wastewater treating microbial communities.

ABSTRACT: Biological wastewater treatment processes, such as activated sludge (AS) and aerobic granular sludge (AGS), have proven to be crucial systems for achieving both efficient waste purification and the recovery of valuable resources like poly-hydroxy-alkanoates. Gaining a deeper understanding of the microbial communities underpinning these technologies would enable their optimization, ultimately reducing costs and increasing efficiency. To support this research, we quantitatively compared classification methods differing in read length (raw reads, contigs and MAGs), overall search approach (Kaiju, Kraken2, RiboFrame and kMetaShot), as well as source databases to assess the classification performances at both the genus and species levels using an in silico-generated mock community designed to p

SUBMITTER: Di Gloria L 

PROVIDER: S-EPMC12227777 | biostudies-literature | 2025 Jul

REPOSITORIES: biostudies-literature