Table 1.
Overview of the Ss-LrpB-specific ChIP-enriched regions that are also enriched in LysM-specific ChIP-chip analysis
| Target name | Genomic coordinate peak start | Genomic coordinate peak stop | Relative position to LysM-specific peak | Presence of Ss-LrpB binding motif | Presence of LysM binding motif | Class |
|---|---|---|---|---|---|---|
| Sso0154 | 129616 | 130620 | Inside | - | - | III |
| Sso5317 | 131930 | 133008 | Including | - | + | II |
| Ssot18 | 290428 | 291131 | Inside | + | - | I |
| Ssot28 | 589572 | 590362 | overlap (89%) | - | + | II |
| Sso6904 | 835210 | 835839 | Inside | - | + | II |
| Sso1027 | 885479 | 886771 | Inside | + | - | I |
| Sso1114 | 960343 | 961574 | Including | - | -* | III |
| Sso1118 | 964702 | 966378 | Including | - | -* | III |
| Sso1135 | 974250 | 975551 | overlap (99%) | + | -* | I |
| Sso1272 | 1095398 | 1097098 | Inside | + | -* | I |
| Sso1371 | 1206614 | 1207226 | overlap (97%) | + | -* | I |
| Sso1389 | 1232759 | 1233642 | overlap (99%) | + | -* | I |
| CRISPR4 | 1260282 | 1261337 | Including | + | -* | I |
| Sso1433 | 1286420 | 1286928 | Inside | + | -* | I |
| Sso1463 | 1321798 | 1323084 | overlap (98%) | - | -* | III |
| Sso1890 | 1705187 | 1705830 | Inside | - | -* | III |
| Sso2043 | 1859092 | 1860291 | overlap (75%) | - | + | II |
| Sso2159 | 1985046 | 1985784 | Inside | - | -* | III |
| Sso2233 | 2050931 | 2052374 | Including | + | -* | I |
| Sso2289 | 2099312 | 2099902 | Inside | - | -* | III |
| Sso2309 | 2111358 | 2112389 | Inside | - | -* | III |
| Sso2310 | 2113136 | 2114378 | overlap (93% ) | - | -* | III |
| Sso2334 | 2132622 | 2134455 | Including | - | + | II |
| Sso2404 | 2187776 | 2188318 | Inside | - | -* | III |
| Sso2678 | 2437317 | 2437768 | overlap (96%) | - | -* | III |
| Sso2801 | 2561656 | 2562152 | overlap (57%) | - | -* | III |
| Sso2833 | 2594520 | 2595831 | overlap (96%) | - | -* | III |
| Sso3002 | 2742947 | 2743947 | Including | - | -* | III |
| Sso3072 | 2827204 | 2828448 | overlap (94%) | + | -* | I |
The presence of an Ss-LrpB binding motif (measured by EMSA) or a LysM binding motif (either measured by EMSA or predicted in silico (indicated by an asterisk) [16]) is indicated. Classes are defined as follows: class I: binding region that contains an Ss-LrpB binding motif and exhibits binding to Ss-LrpB but not LysM in vitro; class II: binding region that contains a LysM binding motif and exhibits binding to LysM but not Ss-LrpB in vitro; class III: binding region that does not contain an Ss-LrpB or LysM binding motif and does not interact with any of the two proteins in vitro. Ranking is according to genomic location.