Table 2. Genotype of transconjugants that escape CRISPR immunity.
| Transconjugant(a) | Genotype |
| R1 | csm2(ΔA297). Frameshift(b) |
| R2 | Δspc1,2,3 |
| R3, R4, R11, R13 | csm6(617)::IS256-d (c) |
| R5, R8, R18, R30, R42 | cas10(ΔA979). Frameshift |
| R6 | csm4(ΔA57). Frameshift |
| R7, R24, R32, R50, R56, R65, R70 | Δ2387081–2520252 (IS256)(d) |
| R9, R12, R25, R27, R39, R41, R45, R59 | Δ2470979–2553341 (SERP2409&SERP2493) |
| R10, R19, R28, R34, R47, R58, R63, B32 | Δspc1,2 |
| R14 | Δ2515497–2581208 (IS431) |
| R15 | Δ2488334–2581208 (IS431) |
| R16, R33, R37, R40, R49, R54, R55, R57, R61, R62, R67, B3, B6, B9, B18 | Δ2399891–2551562 (SERP2353&SERP2491) |
| R17 | cas6(193)::IS256-d |
| R20 | spc1(ΔA1)(e) |
| R22 | Δ2493652–2584194 (OrfX) |
| R23, R31, R46, B7, B19 | Δspc1 |
| R29 | Δ2496588–2581208 (IS431) |
| R35 | Δ2295499–2535027 (IS256) |
| R36, R48 | cas6(199)::IS256-d |
| R38, R44, R68 | csm6(1059)::IS256-d |
| R43 | csm4(G566T; G189V)(f) |
| R51 | Δ2515497–2581208 (IS431) |
| R52 | cas10(C1411T; Q471Stop) |
| R53, R69, B8, B12 | csm2(ΔA297). Frameshift |
| R60, R64 | csm5(558)::IS256-i |
| R66 | cas10(G1017A; W339Stop) |
| R71 | cas6(269)::IS256-d |
| B1 | Δ2433266–2581208 (IS431) |
| B2, B10, B11, B21, B25, B27, B31, B40, B42 | Δ2437916–2581208 (IS431) |
| B4, B5, B29, B38 | Δ2440320–2582329 (IS256) |
| B13, B14, B22 | csm6(1172)::IS256-i |
| B15, B16, B33 | csm6(953)::IS256-d |
| B17 | Δ2359213–2581208 (IS431) |
| B20 | csm6(ΔA1238). Frameshift |
| B23 | Δ2401725–2562431 (Tn554) |
| B24 | csm6(844)::IS256-i |
| B26 | cas6(ΔA172). Frameshift |
| B28 | Δ2447777–2581208 (IS431) |
| B30 | Δ2495387–2581208 (IS431) |
| B34, B35, B36 | csm5(583)::IS256-i |
| B37 | cas6(G484T; E162Stop) |
| B39 | Δ2274721–2581208 (IS256) |
| B41 | csm6(1163)::IS256-i |
Transconjugants obtained in two independent experiments (R and B) are shown. Transconjugants R21 and R26 are not reported as genotypic analysis indicated these were S. aureus RN4220/pG0400 donors that acquired neomycin resistance. Highlighted and underlined are transconjugants that were chosen for the pairwise competition experiments estimating fitness.
The number indicates the adenine residue deleted relative to the start codon of the gene.
The number indicates the position of insertion of the IS256 element relative to the start codon of the gene. Direct, d, or inverted, i, refer to the orientation of the transposase gene of the IS256 element with respect to the direction of transcription of the cas/csm operon.
The numbers indicate the chromosomal coordinates of the S. epidermidis RP62a genome that are deleted. The elements that are believed to have mediated the deletion are shown in parenthesis.
Deletion of the adenine in the first position of the spc1 sequence.
The nucleotide mutation followed by the amino acid mutation are indicated, the numbers indicated nucleotide or amino acid position of the gene or encoded protein, relative to the start codon or initial methionine residue, respectively.
Highlighted and underlined are transconjugants that were chosen for the pairwise competition experiments estimating fitness.