Project name: Expression profile of R. capsulatus by entering light after a dark period; and by high light intensity

Description: The effects of low and high light intensities on transcriptome of purple non sulfur bacterium R. capsulatus were investigated by comparing expression profiles of dark and low light intensity (2000 lux), and by comparing high light intensity (10,000 lux) with low light intensity (2000 lux).Overall design: The bacteria were exposed to three light and dark periods (12 hours light/ 12 hours dark) where the light intensity was 2000 lux. in the middle of the third light period (6th hour) light intensity was increased to 10,000 lux. RNA samples from 1.5x10e9 cells were collected after at the end of the third dark period, 15 min and 1 hour after exposure to light period (2000 lux) and 15 min and 1 hour after exposure to 10,000 lux. A microarray chip for Rhodobacter capsulatus was not commercially available. For that reason, a GeneChip® array was custom designed and manufactured by Affymetrix, Santa Clara, California. The nucleotide sequence of the bacterium is available in GenBank with the accession numbers CP001312 for the chromosome and CP001313 for the plasmid pRCB133. The feature size of the antisense DNA array was 11 micron and the format was 100-3660. A total of 4,052 probe sets for open reading frames (ORFs) and 200 intergenic sequences with longer than 300bp were placed on the microarray. The cDNA synthesis, labeling, and hybridization protocols were performed according to the Affymetrix Expression Analysis Technical Manual given for prokaryotic samples.

Data type: Transcriptome or Gene expression

Sample scope: Multiisolate

Relevance: Other

Last updated: 2018-08-16