Abstract
A nearly complete genome sequence of a dengue virus serotype 2 strain detected in the serum of a patient in 2019 during the largest outbreak of dengue fever in Bangladesh is reported.
Highlights
All protocols were approved by the ethical review board of the Bangladesh Institute of Child Health
Raw fastq files were uploaded to the IDseq portal to identify the pathogenic organisms, as described elsewhere (4, 5)
A series of quality control steps were performed to exclude low-quality reads, duplicates, and lowcomplexity reads with the help of the Paired-Read Iterative Contig Extension (PRICE) package, the CD-HIT-DUP tool (v4.6.8), and the Lempel-Ziv-Welch (LZW) algorithm
Summary
The library generated 7,688,000 reads, and 2,467,976 reads passed the default filter of BaseSpace (Illumina). Raw fastq files were uploaded to the IDseq portal to identify the pathogenic organisms, as described elsewhere (4, 5). The human reads were filtered out from the fastq file by alignment with a reference database using the Spliced Transcripts Alignment to a Reference (STAR) algorithm. A series of quality control steps were performed to exclude low-quality reads, duplicates, and lowcomplexity reads with the help of the Paired-Read Iterative Contig Extension (PRICE) package, the CD-HIT-DUP tool (v4.6.8), and the Lempel-Ziv-Welch (LZW) algorithm.
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