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Abstract Protocols and pipelines for SARS-CoV-2 genome sequencing were rapidly established when the COVID-19 outbreak was declared a pandemic. The most widely used approach for sequencing SARS-CoV-2 includes targeted enrichment by PCR, followed by shotgun sequencing and reference-based genome assembly.
Public and Environmental Health Microbiology Mattia Pirolo, Raphael N. Sieber, Arshnee Moodley, Daniela Visaggio, Irene Artuso, Angela Gioffrè, Francesco Casalinuovo, Giovanna Spatari, Luca Guardabassi, Marc Stegger, Paolo Visca DOI: 10.1128/AEM.00430-20 ABSTRACT Livestock-associated methicillin-resistant Staphylococcus aureus sequence type (ST) 398 (LA-MRSA ST398) is a genetic lineage for which pigs are regarded as the main reservoir.
ABSTRACT The spread of livestock-associated methicillin-resistant Staphylococcus aureus clonal complex 398 (LA-MRSA CC398) within the Danish pig production system has been linked to an increased number of human infections. Yet, the population structure and transmission dynamics of this important pathogen remain poorly understood. In this study, whole-genome sequences from 371 LA-MRSA CC398 isolates collected between 2004 and 2015 were subjected to bioinformatic analyses.
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