Cyanidioschyzon merolae sequenced by whole genome shotgun method. Cyanidioschyzon merolae strain 10D

Genome of C. merolae was sequenced by whole genome shotgun method. BAC libraries and a large-scale full-length cDNA library were also constructed and used for scaffolding. The sequences were assembled using Phrap, rexamined using ARACHNE and edited using CONSED. Gene prediction and annotation was carried out by mapping ESTs obtained from the cDNA library onto the best-matched region of the genome and getting the ORFs likely to encode a protein showing similarity to known proteins. It was done using BLASTP or RPSBLAST and HMMER programs. The gaps between the contigs were closed by primer walking PCR, shotgun sequencing and BAC clone sequencing.