Archives of Microbiology

, Volume 187, Issue 4, pp 265–279 | Cite as

Growth-phase dependent differential gene expression in Synechocystis sp. strain PCC 6803 and regulation by a group 2 sigma factor

  • Jamie S. Foster
  • Abhay K. Singh
  • Lynn J. Rothschild
  • Louis A. ShermanEmail author
Original Paper


Cyanobacteria must continually alter their physiological growth state in response to changes in light intensity and their nutritional and physical environment. Under typical laboratory batch growth conditions, cyanobacteria grow exponentially, then transition to a light-limited stage of linear growth before finally reaching a non-growth stationary phase. In this study, we utilized DNA microarrays to profile the expression of genes in the cyanobacterium Synechocystis sp. PCC 6803 to compare exponential and linear growth. We also studied the importance of SigB, a group 2 sigma factor in this cyanobacterium, during the different growth phases. The transcription of approximately 10% of the genes in the wild type were different in the linear, compared to the exponential phase, and our results showed that: (1) many photosynthesis and regulatory genes had lowered transcript levels; (2) individual genes, such as sigH, phrA, and isiA, which encode a group 4 sigma factor, a DNA photolyase, and a Chl-binding protein, respectively, were strongly induced; and, (3) the loss of SigB significantly impacted the differential expression of genes and modulated the changes seen in the wild type in regard to photosynthesis, regulatory and the unknown genes.


Cyanobacteria Light-limited growth Sigma factors Gene regulation Microarrays IsiA phrA 



We thank Dr. Lauren McIntyre, Department of Agronomy, Purdue University, for developing the ANOVA model for analysis of the microarray data and Lisa Bono for training us in its use. We also wish to thank Dr. Hong Li for her significant efforts during the initial stages of this project. This research was supported by grant DE FG02-99ER20342 from the Department of Energy. J.S.F. was supported, in part, by a National Research Service Award 5F32AI056967-02 from the National Institutes of Health.

Supplementary material

203_2006_193_MOESM1_ESM.pdf (314 kb)
Supplementary material


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Copyright information

© Springer-Verlag 2006

Authors and Affiliations

  • Jamie S. Foster
    • 1
    • 2
    • 3
  • Abhay K. Singh
    • 3
    • 4
  • Lynn J. Rothschild
    • 2
  • Louis A. Sherman
    • 3
    Email author
  1. 1.Department of Microbiology and Cell ScienceUniversity of Florida, Space Life Sciences LabKennedy Space CenterUSA
  2. 2.NASA Ames Research CenterEcosystem, Science and Technology BranchMoffett FieldUSA
  3. 3.Department of Biological SciencesPurdue UniversityWest LafayetteUSA
  4. 4.Department of BiologyWashington UniversitySt. LouisUSA

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