BioProject

The current whole-genome shotgun (WGS) assembly was sequenced from an single male of the Chinese amphioxus Branchiostoma belcheri. More...

The current whole-genome shotgun (WGS) assembly was sequenced from an single male of the Chinese amphioxus Branchiostoma belcheri. The draft diploid assembly was generated from a total of ~73X raw shotgun and paired-end reads which included both 454 FLX titanium reads (~23X) and Illumina 2x115bp reads (~50X). Both the assembler Newbler and the assembler CABOGv6.1 were used in this task. The initial diploid assembly is fragmented and highly polymorphic (~4% heterozygosity). We developed novel algorithms (HaploMerger) to reconstruct a reference haploid assembly from the original diploid assembly. The details and programs of HaploMerger are available here (http://mosas.sysu.edu.cn/genome/download_softwares.php). The new reference assembly (version: bbv18h27) were created by using an pipeline that combines hierachical scaffolding, a hybrid assembly method (both Illumina and 454 reads were used for de novo assembly), the HaploMerger algorithms for error correction and haploid assembly reconstruction. The new reference assembly has a size of ~426Mb, with scaffold and contig N50 sizes at 2.3Mb and 46 Kb, respectively. An alternative haploid assembly is also provided, which contains all other alleles not included in the reference assembly. Less...