bettercallsal: better calling of Salmonella serotypes from enrichment cultures using shotgun metagenomic profiling and its application in an outbreak setting

Most current Salmonella subtyping analyses rely on whole genome sequencing (WGS), which focuses on the high-resolution analysis of single genomes or multiple single genomes from the isolated colonies on microbiological agar plates. In this study, we introduce bioinformatics innovations for a metagen...

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Bibliographic Details

Published in:	Frontiers in Microbiology
Main Authors:	Kranti Konganti, Elizabeth Reed, Mark Mammel, Tunc Kayikcioglu, Rachel Binet, Karen Jarvis, Christina M. Ferreira, Rebecca L. Bell, Jie Zheng, Amanda M. Windsor, Andrea Ottesen, Christopher J. Grim, Padmini Ramachandran
Format:	Article
Language:	English
Published:	Frontiers Media S.A. 2023-08-01
Subjects:	metagenomics Salmonella BAM quasi-metagenomics foodborne
Online Access:	https://www.frontiersin.org/articles/10.3389/fmicb.2023.1200983/full