De novo PacBio long-read and phased avian genome assemblies correct and add to reference genes generated with intermediate and short reads.

ABSTRACT: Reference-quality genomes are expected to provide a resource for studying gene structure, function, and evolution. However, often genes of interest are not completely or accurately assembled, leading to unknown errors in analyses or additional cloning efforts for the correct sequences. A promising solution is long-read sequencing. Here we tested PacBio-based long-read sequencing and diploid assembly for potential improvements to the Sanger-based intermediate-read zebra finch reference and Illumina-based short-read Anna's hummingbird reference, 2 vocal learning avian species widely studied in neuroscience and genomics. With DNA of the same individuals used to generate the reference genomes, we generated diploid assemblies with the FALCON-Unzip assembler, resulting in contigs with no gaps in

SUBMITTER: Korlach J 

PROVIDER: S-EPMC5632298 | biostudies-literature | 2017 Oct

REPOSITORIES: biostudies-literature