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Table 2 List of the genes located in the GlnR-binding regions detected by ChIP-on-Chip

From: Revisiting the in vivo GlnR-binding sites at the genome scale in Bacillus subtilis

Genes Product
Common genes to GlnR and TnrA regulons
 glnR Nitrogen sensing transcriptional regulator
 tnrA Nitrogen sensing transcriptional regulator
 ureA Urease
Genes in the TnrA primary regulon
 alsT* Putative amino acid carrier protein; unknown
 amtB* Ammonium transporter
 dtpT Peptide transporter
 nasA Nitrate reductase
 nasD Assimilatory nitrite reductase subunit
 oppA Oligopeptide ABC transporter
 pucI* Allantoin permease
 pucJ Uric acid permease
 pucR* Transcriptional regulator of the purine degradation operon
 ycsF Putative nitrogen-containing heterocycle degradation enzyme
 ycsI Conserved hypothetical protein
 yoyD Putative exported protein
 ysnD Spore coat protein
 yxkC Unknown
 yycC Conserved hypothetical protein
Genes in the TnrA secondary regulon
 braB* Branched-chain amino acid-Na+ symporter
 codV* Site-specific tyrosine recombinase
Genes containing a putative GlnR/TnrA box motif
 bceA* Bacitracin ABC efflux transporter (ATP-binding protein)
 yjcN* Unknown
 yraH* Putative lyase
Other genes located in GlnR-binding regions
 bdhA Acetoin reductase/2,3-butanediol dehydrogenase
 cotY;cotX Spore coat protein; spore coat protein
 dhbF Iderophore 2,3-dihydroxybenzoate-glycine-threonine trimeric ester bacillibactin synthetase
 gpsA NAD(P)H-dependent glycerol-3-phosphate dehydrogenase
 hmp Flavohemoglobin
 lysC Aspartokinase II alpha and beta subunit
 mmsA;iolR Methylmalonate-semialdehyde dehydrogenase; transcriptional repressor
 mntH Manganese transporter
 mutM Formamidopyrimidine-DNA glycosidase
 parA;yyaB Chromosome partitioning protein; putative membrane protein
 pksL Polyketide synthase of type I
 ppsA Plipastatin synthetase
 proS Prolyl-tRNA synthetase
 pucE Xanthine dehydrogenase, iron-sulfur subunit
 rghR Transcriptional repressor in sporulation initiation
 ylyB Similar to pseudouridylate synthase
 rocA Delta-1-pyrroline-5 carboxylate dehydrogenase
 rok Transcriptional repressor of genetic competence
 rasP Control of cell division, and SigV and SigW activity
 sinR Transcriptional regulator for post-exponential-phase response
 speE;speB Spermidine synthase; polyamine metabolism; agmatinase
 tyrS Tyrosyl-tRNA synthetase
 xlyB N-acetylmuramoyl-l-alanine amidase; bacteriophage PBSX protein
 ybxG Putative amino acid permease
 ycxD Putative transcriptional regulator
 yddJ Putative lipoprotein
 yddM Putative helicase
 yerO Putative transcriptional regulator
 yhdP Potential magnesium efflux pump
 yisK Putative catabolic enzyme
 yknU Putative ABC transporter (ATP-binding protein)
 ykoH Two-component sensor histidine kinase [YkoG]
 yktD Conserved hypothetical protein
 yobI Putative NTPase with transmembrane helices
 yobU Putative effector of transcriptional regulator
 yopQ Conserved hypothetical protein; phage Spbeta
 ypqP C-terminal part of the split gene spsM
 yrkK Putative integral inner membrane protein
  1. In the ChIP-on-Chip experiments, 61 regions were detected as GlnR-binding targets. The GlnR-binding sites located near genes belonging to the GlnR and TnrA regulons are indicated. The asterisks indicate genes whose expression has been compared in the wild-type strain and in the ΔglnR mutant in this study