Table 10.

Transcriptional details of the cnrH gene and its environmenta.

ElementStartStrandStopLengthLocus Tag/Prom.GeneSignal C0Signal CM
STP_AST_56260-543266-4326612994   1,083 ± 159
TSS_53286+553286+  Pub, RpoD 2,918 ± 1,6242,8233 ± 2,977
NPKM_620553309+53597288Rmet_6205cnrY171 ± 561,081 ± 178
STP_AST_54298-553435-53435863  3 
NPKM_620653593+54040447Rmet_6206cnrX99 ± 30726 ± 116
NPKM_620754036+54612576Rmet_6207cnrH61 ± 14466 ± 101
RT-PCR_cnrH54162 54287125    
AST_54298-554298-53435863  3n.f.
TSS_54822-554822-  NotPub, CH34_M n.f.50 ± 16
NPKM_620854684+559411257Rmet_6208cnrC48 ± 13255 ± 30
TSS_54955-554955-  NotPub, CH34_M n.f.23 ± 5
TSS_56237-556237-  Pub, RpoD 32n.f.
AST_56260-556260-4326612994   1,083 ± 159
NPKM_620955937+571251188Rmet_6209cnrB26 ± 5150 ± 20
NPKM_621057121+603523231Rmet_6210cnrA30 ± 5168 ± 10
TSS_57840-557840-  NotPub, CH34_E 30 ± 160 ± 0
TSS_58867-558867-  Pub, RpoD 158 ± 12212 ± 37
TSS_59074-559074-  NotPub, CH34_M 25 ± 6107 ± 24
TSS_60287-560287-  NotPub, CH34_M 81 ± 14231 ± 20
NPKM_621160397+614531056Rmet_6211cnrT47 ± 8230 ± 5
TSS_60510-560510-  NotPub, CH34_M 29 ± 6102 ± 24
TSS_60580-560580-  NotPub, CH34_M 45 ± 12109 ± 30
3UTR_621161454+634722018Rmet_6211cnrT12 ± 129 ± 5
TSS_63507-563507-  NotPub, CH34_M 35 ± 651 ± 7
ElementStartStrandStopLengthLocus Tag/Prom.GeneSignal C0Signal CM
STP_AST_56260-543266-4326612994   1,083 ± 159
TSS_53286+553286+  Pub, RpoD 2,918 ± 1,6242,8233 ± 2,977
NPKM_620553309+53597288Rmet_6205cnrY171 ± 561,081 ± 178
STP_AST_54298-553435-53435863  3 
NPKM_620653593+54040447Rmet_6206cnrX99 ± 30726 ± 116
NPKM_620754036+54612576Rmet_6207cnrH61 ± 14466 ± 101
RT-PCR_cnrH54162 54287125    
AST_54298-554298-53435863  3n.f.
TSS_54822-554822-  NotPub, CH34_M n.f.50 ± 16
NPKM_620854684+559411257Rmet_6208cnrC48 ± 13255 ± 30
TSS_54955-554955-  NotPub, CH34_M n.f.23 ± 5
TSS_56237-556237-  Pub, RpoD 32n.f.
AST_56260-556260-4326612994   1,083 ± 159
NPKM_620955937+571251188Rmet_6209cnrB26 ± 5150 ± 20
NPKM_621057121+603523231Rmet_6210cnrA30 ± 5168 ± 10
TSS_57840-557840-  NotPub, CH34_E 30 ± 160 ± 0
TSS_58867-558867-  Pub, RpoD 158 ± 12212 ± 37
TSS_59074-559074-  NotPub, CH34_M 25 ± 6107 ± 24
TSS_60287-560287-  NotPub, CH34_M 81 ± 14231 ± 20
NPKM_621160397+614531056Rmet_6211cnrT47 ± 8230 ± 5
TSS_60510-560510-  NotPub, CH34_M 29 ± 6102 ± 24
TSS_60580-560580-  NotPub, CH34_M 45 ± 12109 ± 30
3UTR_621161454+634722018Rmet_6211cnrT12 ± 129 ± 5
TSS_63507-563507-  NotPub, CH34_M 35 ± 651 ± 7
a

The table gives the details of the transcripts of the cnr region on plasmid pMOL28 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. 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.

Table 10.

Transcriptional details of the cnrH gene and its environmenta.

ElementStartStrandStopLengthLocus Tag/Prom.GeneSignal C0Signal CM
STP_AST_56260-543266-4326612994   1,083 ± 159
TSS_53286+553286+  Pub, RpoD 2,918 ± 1,6242,8233 ± 2,977
NPKM_620553309+53597288Rmet_6205cnrY171 ± 561,081 ± 178
STP_AST_54298-553435-53435863  3 
NPKM_620653593+54040447Rmet_6206cnrX99 ± 30726 ± 116
NPKM_620754036+54612576Rmet_6207cnrH61 ± 14466 ± 101
RT-PCR_cnrH54162 54287125    
AST_54298-554298-53435863  3n.f.
TSS_54822-554822-  NotPub, CH34_M n.f.50 ± 16
NPKM_620854684+559411257Rmet_6208cnrC48 ± 13255 ± 30
TSS_54955-554955-  NotPub, CH34_M n.f.23 ± 5
TSS_56237-556237-  Pub, RpoD 32n.f.
AST_56260-556260-4326612994   1,083 ± 159
NPKM_620955937+571251188Rmet_6209cnrB26 ± 5150 ± 20
NPKM_621057121+603523231Rmet_6210cnrA30 ± 5168 ± 10
TSS_57840-557840-  NotPub, CH34_E 30 ± 160 ± 0
TSS_58867-558867-  Pub, RpoD 158 ± 12212 ± 37
TSS_59074-559074-  NotPub, CH34_M 25 ± 6107 ± 24
TSS_60287-560287-  NotPub, CH34_M 81 ± 14231 ± 20
NPKM_621160397+614531056Rmet_6211cnrT47 ± 8230 ± 5
TSS_60510-560510-  NotPub, CH34_M 29 ± 6102 ± 24
TSS_60580-560580-  NotPub, CH34_M 45 ± 12109 ± 30
3UTR_621161454+634722018Rmet_6211cnrT12 ± 129 ± 5
TSS_63507-563507-  NotPub, CH34_M 35 ± 651 ± 7
ElementStartStrandStopLengthLocus Tag/Prom.GeneSignal C0Signal CM
STP_AST_56260-543266-4326612994   1,083 ± 159
TSS_53286+553286+  Pub, RpoD 2,918 ± 1,6242,8233 ± 2,977
NPKM_620553309+53597288Rmet_6205cnrY171 ± 561,081 ± 178
STP_AST_54298-553435-53435863  3 
NPKM_620653593+54040447Rmet_6206cnrX99 ± 30726 ± 116
NPKM_620754036+54612576Rmet_6207cnrH61 ± 14466 ± 101
RT-PCR_cnrH54162 54287125    
AST_54298-554298-53435863  3n.f.
TSS_54822-554822-  NotPub, CH34_M n.f.50 ± 16
NPKM_620854684+559411257Rmet_6208cnrC48 ± 13255 ± 30
TSS_54955-554955-  NotPub, CH34_M n.f.23 ± 5
TSS_56237-556237-  Pub, RpoD 32n.f.
AST_56260-556260-4326612994   1,083 ± 159
NPKM_620955937+571251188Rmet_6209cnrB26 ± 5150 ± 20
NPKM_621057121+603523231Rmet_6210cnrA30 ± 5168 ± 10
TSS_57840-557840-  NotPub, CH34_E 30 ± 160 ± 0
TSS_58867-558867-  Pub, RpoD 158 ± 12212 ± 37
TSS_59074-559074-  NotPub, CH34_M 25 ± 6107 ± 24
TSS_60287-560287-  NotPub, CH34_M 81 ± 14231 ± 20
NPKM_621160397+614531056Rmet_6211cnrT47 ± 8230 ± 5
TSS_60510-560510-  NotPub, CH34_M 29 ± 6102 ± 24
TSS_60580-560580-  NotPub, CH34_M 45 ± 12109 ± 30
3UTR_621161454+634722018Rmet_6211cnrT12 ± 129 ± 5
TSS_63507-563507-  NotPub, CH34_M 35 ± 651 ± 7
a

The table gives the details of the transcripts of the cnr region on plasmid pMOL28 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. 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.

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