Assembling the genomes of the plastid and mitochondrion of white spruce (Picea glauca)

Abstract

Genome Sciences Centre • British Columbia Cancer Agency • 100 – W 7th Ave Vancouver BC V5Z 4S6 Canada • tel. 604-707-5900 • fax. 604-876-3561 • www.bcgsc.ca Synopsis! • The SMarTForests consortium published the draft sequence of the 20 gigabase white spruce genome [Birol et al. 2013]# • Whole genome sequencing data contains reads from both the nuclear and organellar genomes # • Reads of the organellar genomes are abundant, because each cell contains hundreds of mitochondria and plastids# • One lane of MiSeq data assembles the 124 kbp plastid genome# • One lane of HiSeq data assembles the estimated 6 Mbp mitochondrial genome# • The assembly is composed of organellar sequence as well as nuclear repeat elements# • The organellar sequences are separated from the assembly by classifying the sequences using their length, depth of coverage and GC content! • These sequences are aligned to the Norway spruce (Picea abies) complete plastid genome (NC_021456) and putative mitochondrial sequences [Nystedt et al. 2013] Plastid Mitochondrion Nuclear genome