Visualization of stress responses on Genome database: Construction of the transcriptome database KCGD using new generation DNA sequencer for a green alga, Chlamydomonas reinhardtii

Abstract

To understand the plant physiology at the genome levels, it is important to obtain genomic and transcriptomic data on green algae. We focus a biflagellate green alga, Chlamydomonas reinhardtii as a model system. To collect the genomic resources, full-length cDNA enriched libraries and genomic BAC/Fosmid libraries were constructed using mt(-) strain C-9. Full-length cDNA libraries were generated by an oligo-capping method using mRNAs isolated from cells in various environment stress conditions. Mapping analysis of the end-sequences of BAC and Fosmid clones showed that twenty-two scaffolds, of which were not integrated into the chromosomes derived from the mt(+) strain, suggested to be integrated into the 17 chromosomes. Furthermore, to analyze cellular responses to nutrient-limiting stress response including photosynthetic substrate CO₂-limiting stress on the Chlamydomoans genome, end sequences of mRNAs from the cells that suffered to various stress conditions were analyzed by Illumina genome analyzer IIx. The genomic and transcriptome resources were integrated into expression database, the Kyoto Chlamydomonas Genome Database (KCGD; http://chlamy.pmb.lif.kyoto-u.ac.jp/)