Illinois Natural History Survey-Prairie Research Institute, University of Illinois at Urbana-Champaign, Champaign, IL 61820, USA.
Department of Animal Sciences, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA.
J Hered. 2022 Jul 23;113(4):479-489. doi: 10.1093/jhered/esac022.
Cervids are distinguished by the shedding and regrowth of antlers. Furthermore, they provide insights into prion and other diseases. Genomic resources can facilitate studies of the genetic underpinnings of deer phenotypes, behavior, and disease resistance. Widely distributed in North America, the white-tailed deer (Odocoileus virginianus) has recreational, commercial, and food source value for many households. We present a genome generated using DNA from a single Illinois white-tailed sequenced on the PacBio Sequel II platform and assembled using Wtdbg2. Omni-C chromatin conformation capture sequencing was used to scaffold the genome contigs. The final assembly was 2.42 Gb, consisting of 508 scaffolds with a contig N50 of 21.7 Mb, a scaffold N50 of 52.4 Mb, and a BUSCO complete score of 93.1%. Thirty-six chromosome pseudomolecules comprised 93% of the entire sequenced genome length. A total of 20 651 predicted genes using the BRAKER pipeline were validated using InterProScan. Chromosome length assembly sequences were aligned to the genomes of related species to reveal corresponding chromosomes.
鹿类的特征是鹿角的脱落和再生。此外，它们还为朊病毒和其他疾病提供了研究思路。基因组资源可以促进对鹿表型、行为和疾病抗性的遗传基础的研究。白尾鹿（Odocoileus virginianus）广泛分布于北美洲，对许多家庭来说具有娱乐、商业和食物来源价值。我们展示了一个使用来自伊利诺伊州的一只白尾鹿的 DNA 生成的基因组，该 DNA 是在 PacBio Sequel II 平台上测序的，并使用 Wtdbg2 进行组装。全基因组 Omni-C 染色质构象捕获测序用于支架基因组片段。最终组装的基因组大小为 24.2 Gb，由 508 个片段组成，其中 contig N50 为 21.7 Mb，scaffold N50 为 52.4 Mb，BUSCO 完整评分达到 93.1%。36 条染色体假染色体包含了整个测序基因组长度的 93%。使用 BRAKER 管道预测的 20651 个基因使用 InterProScan 进行了验证。染色体长度组装序列与相关物种的基因组进行了比对，以揭示相应的染色体。
