In this study, the genome of Microcystis aeruginosa was sequenced and assembled from isolates obtained from the El Loto wetland, located in Llanquihue, Chile. High-throughput sequencing followed by de novo assembly facilitated the initial reconstruction of the genome. Subsequently, a reference-based mapping approach was employed, which significantly enhanced and refined the quality of the assembled genome. The publication includes the consesus assembled genome (genoma_cns_NoN.fasta), the 48 assembled scaffolds (mapped_scaffolds.fasta), and the functional annotation file obtained from Prokka characterization (Maeuroginosa.GFF and Maeuroginosa.FAA).

This study presents the genome assembly of M. aeruginosa isolated from the urban wetland namely El Loto, located in Llanquihue City, Chile.