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UWRF Gomashi Annotation

This study presents detailed annotations for genes 18-27 of the Gomashi phage, including alignment with Halo and Liefie phages. Each gene's plausible start codon, SD scores, overlaps, and functional roles are described, emphasizing the importance of gene identification and proper annotation in enhancing understanding of phage biology. Our analysis demonstrates strong matches to existing G.phage mappings, indicating no missing genes. Collaboration and techniques for effective annotation were highlighted, and we reflect on our experiences in phage genome annotation.

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UWRF Gomashi Annotation

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  1. UWRF GomashiAnnotation Matt Sutter Gabby Field Megan Kreitzman

  2. Annotations • Table 3 genes 18-27 • Gabby Field 18-20, Matt Sutter 21-23, Megan Kreitzman 24-27 • All genes FWD and similar to Halo or Liefie

  3. Pham Map Genes 18-27 • Gomashi-draft • Hope • Liefie • Halo • Our map matches perfectly with the maps of other G phages. No genes are missing or added in this clip of genes. • Our section of genes enable Gomashi to attach to hosts.

  4. Confusion/Debate • Class -1 debate • LO- Listing length of longest • Good collaboration All C.P. included? LO? Multiple starts? Write annotation Good SD score Better blast match? OK overlap Change start = no = yes

  5. Gene 18 • Start Changed! • Possible start @ 16,650 SD score of 462 matches Liefie gp18 1:1 • Called start @ 16,641-18,404 (FWD) SD score of 378 and matches Liefie gp18 4:1 • Phamily: 4102, members: 38 • Pham shared with K1-K5 • Function: Minor tail protein

  6. Gene 19 • Possible start @ 18,359 with an overlap of 44, LO, SD score of 294 and a blast of 16:1 • Called start @ 18,404-18,865 (FWD) best SD score of 609, overlap of 1 bp, matches Halo gp19 1:1 • Phamily: 1333, members: 32 • Pham shared with K1-K5 • NKF

  7. Gene 20 • Possible start @ 18,658 with an overlap of 206 • Called start @ 18,862-19,998 (FWD) best SD score of 525, overlapof 2 bp, matches Halo gp20 1:1 • Phamily: 3204, members: 33 • Pham shared with K1-K5 • Function: Minor tail protein.

  8. Gene 21 • One plausible start. Called @ 20,009-20,443 (FWD) good SD score of 483, gapof 10, is LO, and 1:1 match with Halo gp21 • 48.1 % threshold shows that gene most likely originated from cluster K • phamily: 4430 members: 32 • Pham shared with K1-K5 • NKF

  9. Gene 22 • One plausible start called @ 20,442-22,836 (FWD) good SD score of 462, is LO, matches Halo gp22 1:1 • Phamily: 3208, members: 12 • Pham unique to G • NKF

  10. Gene 23 • One plausible start called @ 22,851-23,171 (FWD) good SD score of 735, L.O, matches Halo gp23 1:1 • Pham: 1371, members: 12 • Pham unique to G • NKF

  11. Gene 24 • Possible start @ 23,168 matches Halo 3:1 • Called start @ 23,174-23,356 (FWD) good SD score of 378, gap of 2, matches Halo gp24 1:1 • Phamily: 1372, members: 12 • Pham unique to G • NKF

  12. Gene 25 • Possible start @ 23,353 matches Halo 33:32, 38 bp overlap • Called start @ 23,356-23,631 (FWD) best SD score of 525, overlap of 1, matches 32:32 with Halo • Phamily: 1373, members: 12 • Pham unique to G • NKF

  13. Gene 26 • Possible start @ 23,643 may not include all c.p., matches Halo gp26 1:5. • Called start @ 23,631-23,825 (FWD) includes all c.p. is L.O, good SD score of 441, matches Halo gp26 1:1 • Phamily: 3209, members: 12 • Pham unique to G • NKF

  14. Gene 27 • Possible start @ 23,871 with a SD score of 180. • Called start @ 23,886-25,202 (FWD) better SD score of 378, matches Halo gp27 1:1 • Phamily: 4284, members: 423 • Pham shared with A1-A10, B1-B5, C, D, E, F1, F2, H1, H2, I1, I2, J, K1-K5, L1-L3, M, N, O, P, Q, R, S, and T • Function Lys A

  15. Similar G Locations • Gomashi-River Falls, Wisconsin • Halo- Pittsburgh, Pennsylvania • LieFie- Durban, South Africa • BPs- Pittsburgh, Pennsylvania • Hope- Atlanta, Georgia

  16. Impact • Gene 18 change • Few G phages are sequenced • Annotation Experience • Thank you!

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