Affiliation:
1. School of Natural Sciences Macquarie University Sydney New South Wales Australia
2. ARC Centre of Excellence in Synthetic Biology Macquarie University Sydney Australia
3. Australian Centre for Ecogenomics, School of Chemistry and Molecular Biosciences University of Queensland Brisbane Queensland Australia
Abstract
AbstractWith the global increase of infections caused by antibiotic‐resistant bacterial strains, there is an urgent need for new methods of tackling the issue. Genomic analysis of bacterial strains can help to understand their virulence and antibiotic resistance profile. Bioinformatic skills are in great demand across the biological sciences. We designed a workshop that allows university students to learn the process of genome assembly using command‐line tools within a virtual machine on a Linux operating system. We use Illumina and Nanopore short and long‐read raw sequences to reveal the advantages and disadvantages of short, long, and hybrid assembly methods. The workshop teaches how to assess read and assembly quality, perform genome annotation, and analyze pathogenicity, antibiotic and phage resistance. The workshop is intended for a five‐week teaching period and is concluded by a student poster presentation assessment.
Funder
National Health and Medical Research Council
Subject
Molecular Biology,Biochemistry