Table 3.
Gene pair (“tandem”) analysis reveals enriched occurrences of NLR-ID and MIC-1 tandems
| Tandems | NLRs | NLR-IDs | Other NLRs | |||||||||
| Total | +NLR-ID | -NLR-ID | MIC1/NLR-ID | Total | NLR-IDs | Other | Tandem | Single | Tandem | Single | p value (Fisher’s exact) | |
| A. tauschii | 13 | 8 (1a) | 4 | 3 | 738 | 83 | 655 | 10 | 73 | 16 | 639 | 2.24E-04 |
| B. distachyon | 22 | 5 | 17 | 4 | 372 | 19 | 353 | 5 | 14 | 39 | 314 | 6.01E-02 |
| H. vulgare | 10 | 3 | 7 | 2 | 462 | 27 | 435 | 3 | 24 | 17 | 418 | 1.04E-01 |
| O. sativa | 25 | 4 | 21 | 2 | 518 | 19 | 499 | 4 | 15 | 46 | 453 | 1.00E-01 |
| S. bicolor | 15 | 3 (1a) | 11 | 1 | 341 | 24 | 317 | 5 | 19 | 25 | 292 | 4.79E-02 |
| S. italica | 11 | 1 | 10 | 1 | 438 | 12 | 426 | 1 | 11 | 21 | 405 | 4.66E-01 |
| T. aestivum | 48 | 17 | 31 | 10 | 2596 | 176 | 2420 | 17 | 159 | 79 | 2341 | 1.70E-04 |
| T. urartu | 13 | 5 | 8 | 3 | 558 | 43 | 515 | 5 | 38 | 21 | 494 | 4.17E-02 |
| Z. mays | 2 | 0 | 2 | 0 | 171 | 12 | 159 | 0 | 12 | 4 | 155 | 1.00E + 00 |
| All | 159 | 48 | 111 | 26 | 6194 | 415 | 5779 | 50 | 365 | 268 | 5511 | 1.02E-08 |
| Tandems | NLRs | MIC1-NLRs | Other NLRs | |||||||||
| Total | +MIC1 | -MIC1 | MIC1/NLR-ID | Total | MIC1-NLRs | Other | Tandem | Single | Tandem | Single | p value (Fisher’s exact) | |
| A. tauschii | 13 | 4 | 9 | 3 | 738 | 47 | 691 | 4 | 43 | 22 | 669 | 7.66E-02 |
| B. distachyon | 22 | 8 | 14 | 4 | 372 | 25 | 347 | 8 | 17 | 36 | 311 | 4.69E-03 |
| H. vulgare | 10 | 4 | 6 | 2 | 462 | 36 | 426 | 4 | 32 | 16 | 410 | 6.11E-02 |
| O. sativa | 25 | 5 | 20 | 2 | 518 | 17 | 501 | 5 | 12 | 45 | 456 | 1.74E-02 |
| S. bicolor | 15 | 2 | 13 | 1 | 341 | 19 | 322 | 2 | 17 | 28 | 294 | 6.78E-01 |
| S. italica | 11 | 5 | 6 | 1 | 438 | 13 | 425 | 5 | 8 | 17 | 408 | 1.98E-04 |
| T. aestivum | 48 | 16 (1b) | 31 | 10 (1c) | 2596 | 166 | 2430 | 17 | 149 | 79 | 2351 | 8.13E-05 |
| T. urartu | 13 | 6 | 7 | 3 | 558 | 38 | 520 | 6 | 32 | 20 | 500 | 5.60E-03 |
| Z. mays | 2 | 0 | 2 | 0 | 171 | 1 | 170 | 0 | 1 | 4 | 166 | 1.00E + 00 |
| All | 159 | 51 | 108 | 26 | 6194 | 362 | 5832 | 52 | 310 | 266 | 5566 | 4.12E-12 |
Contingency table of discovered NLR tandems (head-to-head gene pairs within 15-kbp distance). Top: tandems involving NLR-IDs; bottom: tandems involving members of MIC1
MIC1- NLR-ID/NLR tandems generally consist of a MIC1-NLR-ID and a non-MIC1 NLR
aA. tauschii and S. bicolor have the only NLR-ID/NLR-ID tandems
bT.aestivum has one intra-MIC1 (outer clade) NLR/NLR tandem
cT. aestivum has the only NLR/NLR-ID tandem with the NLR (and not the NLR-ID) being a member of MIC1