1. Using Artemis to generate the genome Map: Demo 1

2. Download and Install Artemis http://www.sanger.ac.uk/Software/Artemis/ v9/artemis_v9.jar 2

3. Input files Download the input files from NCBI Input files –Genome sequence of A.baumannii chromosome –Genome sequence of pAB1 –Genome sequence of pAB2 33 Download the genome sequences of the A.Baumannii chromosome and the two plasmids

4. Input file example: A.baumannii chromosome 44

5. Load input file to Artemis 5

6. Clean up the display to what is required 6

7. Start annotating 7 This is where you annotate the name of the gene This is where you specify the position of the gene This is where you specify the colour of the gene to colour code it: 0 white ; 1 dark grey ; 2 red; 3 green ; 4 blue ; 5 cyan ; 6 magenta ; 7 yellow ; 8 pale green ; 9 light sky blue; 10 orange ; 11 brown ; 12 pale pink ; 13 light grey ; 14 black ; 15 mid red; 16 light red; 17 pink. For more info: http://www.sanger.ac.uk/Software/Artemis/v10/manual/options-descriptions.html Click on this if the gene is located on the reverse frame

8. Example: annotating on the reverse frame 8 Forward frame annotations will be on top of the scale Reverse frame annotations will be at the bottom of the scale.

9. Saving your annotations 9

10. Transferring your annotation to your report Zoom in/out to the appropriate level “Print Screen” to capture the image and then crop to the appropriate size 10

11. Zooming to the appropriate level 11 Scroll up and down to zoom in and out, respectively

12. Print screen and crop the image to the appropriate size Use the “Print Screen” button on the keyboard to capture the image Paste in MS Word or Paint programs to crop the image to the appropriate size 12

13. Example: Final product 13