|
| Status |
Public on Jun 16, 2016 |
| Title |
6S RNA plays a role in recovery from nitrogen depletion in Synechocystis sp. PCC 6803 |
| Organism |
Synechocystis sp. PCC 6803 |
| Experiment type |
Expression profiling by array
|
| Summary |
Background: The 6S RNA is a global transcriptional riboregulator, which is exceptionally widespread among most bacterial phyla. While its role is well-characterized in some heterotrophic bacteria, we subjected a cyanobacterial homolog to functional analysis, thereby extending the scope of 6S RNA action to the special challenges of photoautotrophic lifestyles. Results: Physiological characterization of a 6S RNA deletion strain (ΔssaA) demonstrates a delay in the recovery from nitrogen starvation. Significantly decelerated phycobilisome reassembly and glycogen degradation are accompanied with reduced photosynthetic activity compared to the wild type. Transcriptome profiling further revealed that predominantly genes encoding photosystem components, ATP synthase, phycobilisomes and ribosomal proteins were negatively affected in ΔssaA. In vivo pull-down studies of the RNA polymerase complex indicated that the presence of 6S RNA promotes the recruitment of the cyanobacterial housekeeping σ factor SigA, concurrently supporting dissociation of group 2 σ factors during recovery from nitrogen starvation.
Conclusions: The combination of genetic, physiological and biochemical studies reveals the homologue of 6S RNA as an integral part of the cellular response of Synechocystis sp. PCC 6803 to changing nitrogen availability. According to these results, 6S RNA supports a rapid acclimation to changing nitrogen supply by accelerating the switch from group 2 σ factors SigB, SigC and SigE to SigA-dependent transcription. We therefore introduce the cyanobacterial 6S RNA as a novel candidate regulator of RNA polymerase sigma factor recruitment in Synechocystis sp. PCC 6803. Further studies on mechanistic features of the postulated interaction should shed additional light on the complexity of transcriptional regulation in cyanobacteria.
|
| |
|
| Overall design |
We performed microarray analysis of total RNA from wild-type and ∆ssaA cultures that were starved for nitrogen for seven days and recovered over a period of 48 hours. Sampling time points were t1 = 0h, 1h +N, t2 = 4h +N and t3 = 22h +N after nitrogen recovery. Samples were taken in biological replicates.
|
| |
|
| Contributor(s) |
Heilmann B, Hakkila K, Georg J, Tyystjärvi T, Hess WR, Axmann IM, Dienst D |
| Citation missing |
Has this study been published? Please login to update or notify GEO. |
| |
| Submission date |
Jun 15, 2016 |
| Last update date |
Dec 07, 2017 |
| Contact name |
Jens Georg |
| E-mail(s) |
jens.georg@biologie.uni-freiburg.de
|
| Organization name |
University of Freiburg
|
| Street address |
Schänzlestr. 1
|
| City |
Freiburg |
| ZIP/Postal code |
79104 |
| Country |
Germany |
| |
|
| Platforms (1) |
| GPL15867 |
Agilent-027432 Syn6803_expressions454_4-3probes |
|
| Samples (16)
|
| GSM2465128 |
Synechocystis_PCC6803_∆ssaA_0h_N_recovery_1 |
| GSM2465129 |
Synechocystis_PCC6803_∆ssaA_0h_N_recovery_2 |
| GSM2465130 |
Synechocystis_PCC6803_∆ssaA_1h_N_recovery_1 |
| GSM2465131 |
Synechocystis_PCC6803_∆ssaA_1h_N_recovery_2 |
| GSM2465132 |
Synechocystis_PCC6803_∆ssaA_4h_N_recovery_1 |
| GSM2465133 |
Synechocystis_PCC6803_∆ssaA_4h_N_recovery_2 |
| GSM2465134 |
Synechocystis_PCC6803_∆ssaA_22h_N_recovery_1 |
| GSM2465135 |
Synechocystis_PCC6803_∆ssaA_22h_N_recovery_2 |
| GSM2465136 |
Synechocystis_PCC6803_WT_0h_N_recovery_1 |
| GSM2465137 |
Synechocystis_PCC6803_WT_0h_N_recovery_2 |
| GSM2465138 |
Synechocystis_PCC6803_WT_1h_N_recovery_1 |
| GSM2465139 |
Synechocystis_PCC6803_WT_1h_N_recovery_2 |
| GSM2465140 |
Synechocystis_PCC6803_WT_4h_N_recovery_1 |
| GSM2465141 |
Synechocystis_PCC6803_WT_4h_N_recovery_2 |
| GSM2465142 |
Synechocystis_PCC6803_WT_22h_N_recovery_1 |
| GSM2465143 |
Synechocystis_PCC6803_WT_22h_N_recovery_2 |
|
| Relations |
| BioProject |
PRJNA325775 |
Less...
More...