Project description:An inhibitory effect of novobiocin on bop transcription was reported for the NRC1 strain of Hbt. salinarum ([17] Yang and DasSarma, 1990, [18] Yang et al, 1996), but its influence in strain R1 has not beeen known yet. We were interested to see the genome wide influences of novobiocin on transcription in Hbt. salinarum. Therefore, a DNA microarray analysis of the transcripts from R1 was performed, comparing cells grown in the presence or absence of novobiocin.
Project description:Experiment with 8 hybridizations, using 8 samples of species [Halobacterium salinarum], using 8 arrays of an array design [MPIBC-H.salinarum-15k],producing 8 raw data files and 8 transformed and/or normalized data files. Experiment is devided in 4 parts: I. comparison of H.sal.R1 wt vs H.sal.R1 deltaOE3104F 2 microarrays belong to this objective II. comparison of H.sal.R1 wt vs H.sal.R1 cysteine mutant of OE3104F 2 microarrays belong to this objective III. comparison of H.sal.R1 wt vs H.sal.R1 histidine mutant of OE3104F 2 microarrays belong to this objective IV. comparison of H.sal.R1 wt vs H.sal.R1 stop mutant of OE3104F 2 microarrays belong to this objective
Project description:experiment is devided in 3 parts:<br> I. comparison H.sal. R1 wt vs H.sal. R1 TATA-box mutant<br> 3 microarrays belong to this objective<br> II. comparison H.sal. R1 wt vs H.sal. R1 deltaOE2375F<br> 2 microarrays belong to this objective<br> III. comparison H.sal. R1 wt vs H.sal. R1 6xHis-OE2375F<br> 1 microarray belongs to this objective
Project description:Medium-adapted cultures of H. salinarum were grown in synthetic medium with or without AroAA, and cells harvested by centrifugation after growth had reached OD600nm=0.2 and 0.58, respectively.
Project description:Cells of Halobacterium salinarum were grown aerobically in the dark and anaerobically under illumination, respectively. The organism is able to grown under both conditions. So far, it is unknown which transcriptional differences are characteristic for the switch between the two growth conditions. Hence, we have analyzed the transcriptome of H. salinarum cells growing under the above mentioned conditions.
Project description:The experiment was intended to reveal the transcriptional changes of H. salinarum cells in response to phosphate limitation. Because nothing was known neither about the nature of transcriptional changes nor about the kinetic of it, we analysed the transcriptome dynamics over a time range of 24 hours.
Project description:The genome-wide transcription profiles of the archaeon Halobacterium salinarum grown in potassium-limited medium was compared to the profile of H. sal. cells grown under ample potassium concentration.
Project description:The differential RNA-seq data contained within this entry is complemented by global RNA-seq and microarray data, which is also deposited in GEO. Duplicate cultures of Propionibacterium acnes strain KPA171202 were grown exponentially in batch culture under anaerobic growth. Samples were taken following subculture with and without potassium downshift (i.e. removal from medium). This produced 4 samples; 2 replicates x 2 conditions. Aliquots of each of the 4 samples were then incubated with or without incubation TAP (tobacco acid pyrophosphatase) before library construction. Thus, 8 libraries were analysed. TAP treatment allows the cloning and sequencing of 5' ends that were originally triphosphorylated.
Project description:Calcium (Ca2+) and redox signaling play important roles in acclimation processes from archaea to eukaryotic organisms. Herein we characterized a unique protein from Chlamydomonas reinhardtii that has the competence to integrate Ca2+- and redox-related signaling. This protein, designated as calredoxin (CRX), combines four Ca2+-binding EF-hands and a thioredoxin (TRX) domain. A crystal structure of CRX, at 1.6 Å resolution, revealed an unusual calmodulin-fold of the Ca2+-binding EF-hands, which is functionally linked via an inter-domain communication path with the enzymatically active TRX domain. CRX is chloroplast-localized and interacted with a chloroplast 2-Cys-peroxiredoxin (PRX1). Ca2+-binding to CRX is critical for its TRX activity and for efficient binding and reduction of PRX1. Thereby, CRX represents a new class of Ca2+-dependent "sensor-responder" proteins. Genetically engineered Chlamydomonas strains with strongly diminished amounts of CRX revealed altered photosynthetic electron transfer and were affected in oxidative stress response underpinning a function of CRX in stress acclimation.
Project description:This data contained within this entry was produced as part of a study that included differential RNA-sequencing and microarray analysis. The results of the latter two have also been deposited in GEO Duplicate cultures of Propionibacterium acnes strain KPA171202 were grown exponentially in Holland Synthetic Medium (Holland et al.1979. J Appl Bacteriol 47: 383), which supports reproducible anaerobic growth. Samples were taken following subculture with and without potassium downshift (i.e. removal from medium).