Transcriptional regulation of NAD metabolism in bacteria

Genomic reconstruction of NiaR (YrxA) regulon

Dmitry A. Rodionov, Xiaoqing Li, Irina A. Rodionova, Chen Yang, Leonardo Sorci, Etienne Dervyn, Dariusz Martynowski, Hong Zhang, Mikhail S. Gelfand, Andrei L. Osterman

Research output: Contribution to journalArticle

42 Citations (Scopus)

Abstract

A comparative genomic approach was used to reconstruct transcriptional regulation of NAD biosynthesis in bacteria containing orthologs of Bacillus subtilis gene yrxA, a previously identified niacin-responsive repressor of NAD de novo synthesis. Members of YrxA family (re-named here NiaR) are broadly conserved in the Bacillus/Clostridium group and in the deeply branching Fusobacteria and Thermotogales lineages. We analyzed upstream regions of genes associated with NAD biosynthesis to identify candidate NiaR-binding DNA motifs and assess the NiaR regulon content in these species. Representatives of the two distinct types of candidate NiaR-binding sites, characteristic of the Firmicutes and Thermotogales, were verified by an electrophoretic mobility shift assay. In addition to transcriptional control of the nadABC genes, the NiaR regulon in some species extends to niacin salvage (the pncAB genes) and includes uncharacterized membrane proteins possibly involved in niacin transport. The involvement in niacin uptake proposed for one of these proteins (re-named NiaP), encoded by the B. subtilis gene yceI, was experimentally verified. In addition to bacteria, members of the NiaP family are conserved in multicellular eukaryotes, including human, pointing to possible NaiP involvement in niacin utilization in these organisms. Overall, the analysis of the NiaR and NrtR regulons (described in the accompanying paper) revealed mechanisms of transcriptional regulation of NAD metabolism in nearly a hundred diverse bacteria.

Original languageEnglish (US)
Pages (from-to)2032-2046
Number of pages15
JournalNucleic Acids Research
Volume36
Issue number6
DOIs
StatePublished - Apr 2008

Fingerprint

Regulon
Niacin
NAD
Bacteria
Genes
Bacillus subtilis
Fusobacteria
Nucleotide Motifs
Clostridium
Electrophoretic Mobility Shift Assay
Eukaryota
Bacillus
Membrane Proteins
Binding Sites
Proteins

ASJC Scopus subject areas

  • Genetics

Cite this

Rodionov, D. A., Li, X., Rodionova, I. A., Yang, C., Sorci, L., Dervyn, E., ... Osterman, A. L. (2008). Transcriptional regulation of NAD metabolism in bacteria: Genomic reconstruction of NiaR (YrxA) regulon. Nucleic Acids Research, 36(6), 2032-2046. https://doi.org/10.1093/nar/gkn046

Transcriptional regulation of NAD metabolism in bacteria : Genomic reconstruction of NiaR (YrxA) regulon. / Rodionov, Dmitry A.; Li, Xiaoqing; Rodionova, Irina A.; Yang, Chen; Sorci, Leonardo; Dervyn, Etienne; Martynowski, Dariusz; Zhang, Hong; Gelfand, Mikhail S.; Osterman, Andrei L.

In: Nucleic Acids Research, Vol. 36, No. 6, 04.2008, p. 2032-2046.

Research output: Contribution to journalArticle

Rodionov, DA, Li, X, Rodionova, IA, Yang, C, Sorci, L, Dervyn, E, Martynowski, D, Zhang, H, Gelfand, MS & Osterman, AL 2008, 'Transcriptional regulation of NAD metabolism in bacteria: Genomic reconstruction of NiaR (YrxA) regulon', Nucleic Acids Research, vol. 36, no. 6, pp. 2032-2046. https://doi.org/10.1093/nar/gkn046
Rodionov, Dmitry A. ; Li, Xiaoqing ; Rodionova, Irina A. ; Yang, Chen ; Sorci, Leonardo ; Dervyn, Etienne ; Martynowski, Dariusz ; Zhang, Hong ; Gelfand, Mikhail S. ; Osterman, Andrei L. / Transcriptional regulation of NAD metabolism in bacteria : Genomic reconstruction of NiaR (YrxA) regulon. In: Nucleic Acids Research. 2008 ; Vol. 36, No. 6. pp. 2032-2046.
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