Supporting data for "PacBio assembly with Hi-C mapping generates an improved, chromosome-level goose genome"

The domestic goose is an economically important and scientifically valuable waterfowl; however, a lack of high-quality genomic data has hindered research concerning its genome, genetics, and breeding. As domestic geese breeds derive from both the swan goose (<i>Anser cygnoides</i>) and the graylag goose (<i>Anser anser</i>), we selected a female Tianfu goose for genome sequencing. We generated a chromosome-level goose genome assembly by adopting a hybrid <i>de novo</i> assembly approach that combined PacBio single-molecule real-time sequencing, high-throughput chromatin conformation capture mapping, and Illumina short-read sequencing.<br>We generated a 1.11 Gb goose genome with contig and scaffold N50 values of 1.85 Mb and 33.12 Mb, respectively. The assembly contains 39 pseudo-chromosomes (2n = 78) accounting for ca. 88.36% of the goose genome. Compared with previous goose assemblies, our assembly has more continuity, completeness, and accuracy; the annotation of core eukaryotic genes and universal single-copy orthologs has also been improved. We have identified 17,568 protein-coding genes (PCGs) and a repeat content of 8.67% (96.57 Mb) in this genome assembly. We also explored the spatial organization of chromatin and gene expression in the goose liver tissues, in terms of inter-pseudo-chromosomal interaction patterns, compartments, topologically associating domains and promoter-enhancer interactions. <br>We present the first chromosome-level assembly of the goose genome. This will be a valuable resource for future genetic and genomic studies on geese.