After assembling bacterial WGS reads from an Illumina 2 x 300 sequencing, how do I know if the contigs cover the most part of the whole genome?
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You can align your contigs to the genome sequence and check. A program like Mauve also comes in handy to check the coverage visually.
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NGS has revolutionized clinical microbiology by offering new ways to identify and surveil pathogens without prior knowledge of the target. One popular approach is 16S rRNA and ITS amplicon sequencing, which targets specific microbial markers. But studies are increasingly incorporating shotgun metagenomics, a technique that sequences all DNA from a sample without targeting specific microbial markers. This approach allows more detailed taxonomic classification,...10-30-2026, 06:46 AM
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