Table 9.
Transcriptional details of the czcP gene and its environmenta.
| Element | start | strand | stop | Length | Locus Tag/Prom. | Signal C0 | Signal CM |
|---|---|---|---|---|---|---|---|
| TSS_88714 + 4 | 88714 | + | NotPub , CH34_M | n.f. | 46 ± 7 | ||
| STP_AST_101723-4 | 88625 | - | 88625 | 13098 | 560 ± 54 | ||
| STP_AST_89550-4 | 88711 | - | 88711 | 839 | 7 ± 2 | ||
| 5UTR_5970 | 89415 | + | 89604 | 189 | Rmet_5970, czcP | 6 ± 1 | n.f. |
| TSS_89553+4 | 89553 | + | NotPub , CH34_M | 24 ± 6 | 1202 ± 179 | ||
| TSS_89563+4 | 89563 | + | Pub, no ass. | 129 ± 15 | 2639 ± 271 | ||
| TSS_89441-4 | 89441 | - | Pub, RpoD | n.f. | 478 ± 426 | ||
| AST_89550-4 | 89550 | - | 88711 | 839 | 7 ± 2 | ||
| TSS_92052-4 | 92052 | - | NotPub , CH34_0 | 23 ± 3 | n.f. | ||
| NPKM_5970 | 89604 | + | 92094 | 2490 | Rmet_5970, czcP | 8 ± 2 | 75 ± 1 |
| STP_AST_92956-4 | 90958 | - | 90958 | 1998 | 14 ± 2 | ||
| RT-PCR_czcP | 91841 | 91978 | 137 | ||||
| 3UTR_5970 | 92095 | + | 92869 | 774 | Rmet_5970, czcP | 6 ± 1 | 32 ± 2 |
| TSS_92062-4 | 92062 | - | NotPub , CH34_0 | 27 ± 6 | n.f. | ||
| TSS_92535-4 | 92535 | - | Pub, RpoD | 277 ± 12 | 167358 ± 14211 | ||
| AST_92956-4 | 92956 | - | 90958 | 1998 | 14 ± 2 | . | |
| TSS_96132-4 | 96132 | - | Pub, no ass. | 280 ± 49 | 1168 ± 150 | ||
| TSS_97054-4 | 97054 | - | Pub, no ass. | 669 ± 206 | 2395 ± 828 | ||
| TSS_97146-4 | 97146 | - | NotPub , CH34_M | 74 ± 4 | 125 ± 12 | ||
| TSS_97206-4 | 97206 | - | Pub, RpoD | 2718 ± 642 | 12288 ± 1457 | ||
| TSS_98167-4 | 98167 | - | NotPub , CH34_M | 129 ± 12 | 380 ± 30 | ||
| TSS_98671-4 | 98671 | - | Pub, no ass. | 149 ± 76 | 319 ± 35 | ||
| TSS_98681-4 | 98681 | - | NotPub , CH34_M | 21 ± 1 | 80 ± 14 | ||
| TSS_99109-4 | 99109 | - | NotPub , CH34_M | 33 ± 4 | 18 ± 1 | ||
| TSS_100199-4 | 100199 | - | Pub, no ass. | 1437 ± 309 | 3355 ± 308 | ||
| TSS_100887-4 | 100887 | - | Pub, (RpoD) | 368 ± 43 | 881 ± 112 | ||
| TSS_101020-4 | 101020 | - | Pub, no ass. | 270 ± 92 | 2898 ± 91 | ||
| TSS_101042-4 | 101042 | - | NotPub , CH34_M | 77 ± 11 | 319 ± 27 | ||
| AST_101723-4 | 101723 | - | 88625 | 13098 | 560 ± 54 | ||
| TSS_103614-4 | 103614 | - | NotPub , CH34_E | 23 ± 5 | n.f. | ||
The table gives the details of the transcripts of the czcP region on plasmid pMOL30 as determined by RNASeq. The elements are the transcriptional start sites TSS, the asRNAs AST and their respective stop position STP_AST, the genes NPKM and 3UTR for an untranslated region. Bold indicates transcripts from the ‘+’ strand, italics from the “-” strand. The boxed area indicates the RT-PCR product from the asRNA of that region. Shaded asRNAs were measured in RNA isolated from metal-induced cells of C. metallidurans CH34, others from cells not treated with metals. The locus tag and names of the genes are also provided. Published TSS (REF) are given with the sigma factor responsible for transcription initiation, here RpoD when the promoter was strongly correlated with the RpoD model, otherwise (RpoD), ‘no ass.’ means no association with the RpoD model. The last two rows contain the intensity of the signals, NPKM values for the genes, 3UTR and asRNAs and scores for the TSSs in non-treated C. metallidurans cells C0 or metal-treated cells CM; n.f. no signal found. Three determinations. When for a TSS one value is given, this means that only one signal appeared in the three experiments.