The repetitive component of the sunflower genome as shown by different procedures for assembling next generation sequencing reads.

ABSTRACT:

Background

Next generation sequencing provides a powerful tool to study genome structure in species whose genomes are far from being completely sequenced. In this work we describe and compare different computational approaches to evaluate the repetitive component of the genome of sunflower, by using medium/low coverage Illumina or 454 libraries.

Results

By varying sequencing technology (Illumina or 454), coverage (0.55 x-1.25 x), assemblers and assembly procedures, six different genomic databases were produced. The annotation of these databases showed that they were composed of different proportions of repetitive DNA families. The final assembly of the sequences belonging to the six databases produced a whole genome set of 283,800 contigs. The redundancy of each contig was e

SUBMITTER: Natali L 

PROVIDER: S-EPMC3852528 | biostudies-literature | 2013 Oct

REPOSITORIES: biostudies-literature