Rodent metagenome Viseu 7
Biological samples from wild rodents were collected during eco-epidemiological expeditions in the municipality of Viseu, located in the State of Para, in 2014. For RNA extraction, fragments of liver and viscera were used. The extraction products were standardized to a concentration of 0.2 ng/L, fragmented, and labeled with adapter sequences. The resulting genomic libraries were quantified and sequenced using the paired-end method (2 x 150) on the NextSeq 500 System platform. The sequencing files were demultiplexed using bcl2fastq v.2.20 and subjected to quality control using Fastp v.0.23.4, configured to remove adapter sequences and reads with a Phred base quality < 20 and a length shorter than 50 nt. Contigs were assembled de novo using MEGAHIT v.1.2.9 in its default configuration (k-mers of 21, 29, 39, 59, 79, 99, 119, and 141 nt), identified using DIAMOND v.2.1.9.163 (Blastx mode, e-value of 0.00001), and manually inspected using Geneious v.11.1.5.