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By Henrik Deber Dahlerup

Contact: henrik@d-dahlerup.com


!! INSTRUCTIONS HOW TO USE THIS SCCmecKey !!


 

Before you use this SCCmecKey for the first time, you have to change your booting-settings on your PC-computer to boot from a USBkey and keep this setting. Ask some trained PC-personal to do that for you (It takes 1 minute).


You can do the rest on your own by following these steps:

  1. Print this protocol on a piece of paper.
  1. Shut down your PC-computer.
  1. Pluck the SCCmecKey into your computer.
  1. Turn on your computer.
  1. Wait until you see different SCCmec-types on the screen. NB: Use always all the functions you know from Windows, when you are using the different tools in your SCCmecKey.
  1. Now pluck also your normal USBkey into your computer and in the appearing display you will find your fasta-file containing the MRSA-DNA sequence(s). Drag, like in Windows, your fasta-file outside the display. Your fasta-file will appear on the left side of the screen. Now close the display.

 Your fasta-filename shall not contain space and it must end with “.fna”.

           Wrong:   fantastic DNA.fna

           Right:    fantastic-DNA.fna

           Right:    fantasticDNA.fna

  1. On the left side of the screen, press the button named “Determine SCCmec-type” and wait until a SCCmec_report_1.tab appears on the left side of the screen.
  1. This SCCmec_report_1.tab is a report containing the analysis-results of your analysis. Unpluck and pluck in again your normal USBkey and now the display appears on the screen again.
  1. Copy-paste the SCCmec_report_1.tab into this display for your normal USBkey.
  1. You can view your results right away if you like by a double-click on the SCCmec_report_1.tab.
  1. Before the next analysis, delete the old fasta-file from the screen. Only one fasta-file can be present on the screen, otherwise you will not know which of the fasta-files you are analyzing.
  1. When your work is done, shut down the SCCmecKey by pointing at the very upper right corner on your screen and push the shut down button.
  1. Unpluck the SCCmecKey.
  1. Start up your computer normally. Read your SCCmec_report_1.tab in Windows by using for instance Notesblock.

 

 NB: Don’t be afraid to do it the wrong way. The SCCmecKey has no contact at any time with the hard disks on your computer. Nothing can go wrong!

 

 

Reference list:

Hiramatsu, K., Cui, L., Kuroda, M., Ito, T. (2001) The emergence and evolution of methicillin-resistant Staphylococcus aureus. Trends in Microbiol., Vol.9, pp. 486-493.

IWG (2009) Classification of staphylococcal cassette chromosome mec (SCCmec): Guidelines for reporting novel SCCmec elements. Antimicrob. Agents Chemother., Vol. 53, pp. 4961–4967.


©2019 Henrik Deber Dahlerup