RECORD: Reference-Assisted Genome Assembly for Closely Related Genomes.

ABSTRACT: Background. Next-generation sequencing technologies are now producing multiple times the genome size in total reads from a single experiment. This is enough information to reconstruct at least some of the differences between the individual genome studied in the experiment and the reference genome of the species. However, in most typical protocols, this information is disregarded and the reference genome is used. Results. We provide a new approach that allows researchers to reconstruct genomes very closely related to the reference genome (e.g., mutants of the same species) directly from the reads used in the experiment. Our approach applies de novo assembly software to experimental reads and so-called pseudoreads and uses the resulting contigs to generate a modified reference sequence. In t

SUBMITTER: Buza K 

PROVIDER: S-EPMC4629036 | biostudies-literature | 2015

REPOSITORIES: biostudies-literature