Genome assembly and annotation of a haptophyte

The genome of a haptophyte was sequenced using the next-generation sequencing (NGS) technology. 18 billion base pairs high quality sequence data from NGS platform, HiSeq 2000, was assembled into scaffolds by using different tools including ABySS, Velvet and SSPACE. Evidence based annotation was performed using TopHat and Cufflinks with the RNA-seq data. For gene prediction, Augustus predicted ~93% of the annotated genes for SSPACE and SNAP predicted ~91% for SSPACE. Annotated gene results were similar for both in terms of average gene, exon and intron lengths. Compared to TopHat and Cufflinks, MAKER annotation with ab initio and evidence-driven gene prediction generated longer average gene and exon length.