Global Analysis of Photosynthesis Transcriptional Regulatory Networks

Imam, Saheed; Noguera, Daniel R.; Donohue, Timothy J.

doi:10.1371/journal.pgen.1004837

Global Analysis of Photosynthesis Transcriptional Regulatory Networks

Journal Article · Thu Dec 11 00:00:00 EST 2014 · PLoS Genetics

DOI:https://doi.org/10.1371/journal.pgen.1004837· OSTI ID:1904712

Imam, Saheed ^[1]; Noguera, Daniel R. ^[2]; Donohue, Timothy J. ^[2]

University of Wisconsin, Madison, WI (United States); Univ. of Wisconsin, Madison, WI (United States)
University of Wisconsin, Madison, WI (United States)

Photosynthesis is a crucial biological process that depends on the interplay of many components. This work analyzed the gene targets for 4 transcription factors: FnrL, PrrA, CrpK and MppG (RSP_2888), which are known or predicted to control photosynthesis in Rhodobacter sphaeroides. Chromatin immunoprecipitation followed by high-throughput sequencing (ChIP-seq) identified 52 operons under direct control of FnrL, illustrating its regulatory role in photosynthesis, iron homeostasis, nitrogen metabolism and regulation of sRNA synthesis. Using global gene expression analysis combined with ChIP-seq, we mapped the regulons of PrrA, CrpK and MppG. PrrA regulates ~34 operons encoding mainly photosynthesis and electron transport functions, while CrpK, a previously uncharacterized Crp-family protein, regulates genes involved in photosynthesis and maintenance of iron homeostasis. Furthermore, CrpK and FnrL share similar DNA binding determinants, possibly explaining our observation of the ability of CrpK to partially compensate for the growth defects of a ΔFnrL mutant. We show that the Rrf2 family protein, MppG, plays an important role in photopigment biosynthesis, as part of an incoherent feed-forward loop with PrrA. Our results reveal a previously unrealized, high degree of combinatorial regulation of photosynthetic genes and significant cross-talk between their transcriptional regulators, while illustrating previously unidentified links between photosynthesis and the maintenance of iron homeostasis.

View Accepted Manuscript (DOE)

Research Organization:: University of Wisconsin, Madison, WI (United States)

Sponsoring Organization:: USDOE Office of Science (SC), Biological and Environmental Research (BER)

Grant/Contract Number:: FC02-07ER64494

OSTI ID:: 1904712

Journal Information:: PLoS Genetics, Journal Name: PLoS Genetics Journal Issue: 12 Vol. 10; ISSN 1553-7404

Publisher:: Public Library of ScienceCopyright Statement

Country of Publication:: United States

Language:: English

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An Integrated Approach to Reconstructing Genome-Scale Transcriptional Regulatory Networks Imam, Saheed; Noguera, Daniel R.; Donohue, Timothy J. PLOS Computational Biology, Vol. 11, Issue 2 https://doi.org/10.1371/journal.pcbi.1004103	journal	February 2015

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