Complete the PARE-Seq short course. Review antibiotics and antimicrobial resistance (Chapter 20), bacterial gene transfer (Chapter 8) and epidemiology (Chapter 19). Write a report on your soil and water sample findings.
Analyzing the Prevalence of Antibiotic Resistance in the Environment: Sequencing & Bioinformatics of Soil & Water Samples
Overview: For your final project of the PARE-Seq short course, you will be completing a lab report on your findings from the Galaxy bioinformatics activity and your subsequent research into antibiotic resistance.
The Galaxy taxonomy pie chart and antimicrobial resistance gene (ARG) table you produced in samples. For this lab report, you are tasked with choosing EITHER (a) one species of interest (that may carry multiple resistance genes, for example), OR (b) one ARG, such as a specific type of Tet resistance.
Investigate this ARG or bacteria in greater detail using Google Scholar, NCBI PubMed research database, or the CARD database (used for antibiotic resistance gene research), and be sure to record your sources.
• Define antibiotics, antibiotic resistance, and trace the pathways of resistance genes through the environment and into our bodies
• Explain the public health implications of antibiotic resistance in the environment
• Describe the role of sequencing, specifically Nanopore, in environmental surveillance for antibiotic resistance
• Give ‘real-world’ examples of AMR work and improve self-efficacy of taking part in bioinformatics research
• Demonstrate your knowledge of antibiotics, resistance mechanisms, acquisition of resistance and bacterial mechanisms of gene transfer, bacterial diversity and public health from Chapters 8,11,19 & 20.