Which strategies were chosen to sequence the zebrafish genome?
When the zebrafish genome project was started in spring 2001, we chose two different strategies to obtain the sequence which is estimated to have a size of 1.6 to 1.7 Gb. The first strategy is the traditional clone mapping and sequencing technique. The BAC libraries CHORI211 and DanioKey were chosen and fingerprinted to generate a map. From this map a tiling path is calculated that covers the genome sequence clone by clone. Clones from this tiling path are then chosen for individual high quality sequencing. The whole genome sequence is then pieced together clone by clone. This approach takes time but leads to a high quality genome sequence, featured in Vega. You can find all clone mapping and sequencing related links here. Recently, it emerged that due to the number of individuals chosen for the generation of the clone libraries, the project suffers from haplotypic variations being present. These are difficult to sort for the mapping team. We currently try to solve this by resorting to
When the zebrafish genome project was started in spring 2001, we chose two different strategies to obtain the sequence. The first strategy is the traditional clone mapping and sequencing technique. The BAC libraries CHORI211 and DanioKey were chosen and fingerprinted to generate a map. From this map a tiling path is calculated that covers the genome sequence clone by clone. Clones from this tiling path are then chosen for individual high quality sequencing. The genome sequence is then pieced together clone by clone. This approach takes time but leads to a high quality genome sequence, featured in Vega. You can find all clone mapping and sequencing related links here. Due to the number of individuals chosen for the generation of the initially used clone libraries, the project suffered from several haplotypic variations being present, leading to artificial duplications. In order to solve this we have resorted to additional libraries, made from a single double haploid fish. Clones sequenc
