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A new long-read dog assembly uncovers thousands of exons and functional elements missing in the previous reference


Here we present a new high-quality canine reference genome with gap number reduced 41-fold, from 23,836 to 585. Analysis of existing and novel data, RNA-seq, miRNA-seq and ATAC-seq, revealed a large proportion of these harboured previously hidden elements, including genes, promoters and miRNAs.

Short-read dark regions were detected, and genomic regions completed, including the DLA, TCR and 366 cancer genes. 10x sequencing of 27 dogs uncovered a total of 22.1 million SNPs, Indels and larger structural variants (SVs). 1.4% overlap with protein coding genes and could provide a source of normal or aberrant phenotypic modifications.

Authors: Chao Wang, Ola Wallerman, Maja-Louise Arendt, Elisabeth Sundström, Åsa Karlsson, Jessika Nordin, Suvi Mäkeläinen, Gerli Rosengren Pielberg, Jeanette Hanson, Åsa Ohlsson, Sara Saellström, Henrik Rönnberg, Ingrid Ljungvall, Jens Häggström, Tomas F. Bergström, Åke Hedhammar, Jennifer R. S. Meadows, Kerstin Lindblad-Toh

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