Whole-genome enrichment provides deep insights into vibrio cholerae metagenome from an African river
- Vezzulli, L.
- Grande, C.
- Tassistro, G.
- Brettar, I.
- Höfle, M. G.
- Pereira, Rui P. A.
- Mushi, D.
- Pallavicini, A.
- Vassallo, P.
- Pruzzo, C.
DOIAbstract
The detection and typing of Vibrio cholerae in natural aquatic environments encounter major methodological challenges related to the fact that the bacterium is often present in environmental matrices at very low abundance in nonculturable state. This study applied, for the first time to our knowledge, a whole-genome enrichment (WGE) and next-generation sequencing (NGS) approach for direct genotyping and metagenomic analysis of low abundant V. cholerae DNA (<50 genome unit/L) from natural water collected in the Morogoro river (Tanzania). The protocol is based on the use of biotinylated RNA baits for target enrichment of V. cholerae metagenomic DNA via hybridization. An enriched V. cholerae metagenome library was generated and sequenced on an...
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