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Göteborgs universitet


IMAGO - marina modellarter

The IMAGO Marine Genome projects

General information about the sequencing

The different genome sequencing projects aim for sequencing one individual of each species. This is to optimise the assembly of obtained sequences given that the genetic variation in many of these species are known or expected to be high. Several DNA extraction procedures have in most cases been tested to optimise yield and quality of the DNA. Even so, for some species we have obtained low levels of DNA and alternative methods for DNA library preparations have been utilised. All sequencing to this stage has been performed by the Illumina technology, generating paired-end reads of 100nt. The short fragment library to be sequenced has been of fragment sizes 150 or 300bp and for scaffolding, 3 or 5kbp fragments (mate-paired) have so far been used. The assembly is mainly by the CLC software, but also other platforms are being tested. Parallel PCR cloning and sequencing of specific genes in some of the species provides guiding to the optimisation of the assembly process. For all species RNA/cDNA sequencing is complementing the genome sequencing. Gene finding and gene structure is based on RNA and species-specific HMM gene descriptions.