Genome Assembly of the Dogface Butterfly Zerene cesonia
Genome Assembly of the Dogface Butterfly Zerene cesonia
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DOI：
10.1093/gbe/evz254
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发表时间：
2019-11
影响因子：
3.3
通讯作者：
Luis Rodriguez-Caro;J. Fenner;Caleb Benson;Steven M. Van Belleghem;B. Counterman
中科院分区：
文献类型：
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作者：
Luis Rodriguez-Caro;J. Fenner;Caleb Benson;Steven M. Van Belleghem;B. Counterman
摘要 高质量参考蝴蝶和蛾基因组的比较有助于加深我们对杂交和自然选择如何在新物种和新性状起源过程中驱动基因组变化的理解。在这里，我们展示了南方狗脸蝴蝶（Zerene cesonia）（粉蝶科）的基因组组装，其明亮的翅膀颜色与发育可塑性、杂交、性选择和物种形成有关。我们组装了 Z. cesonia 基因组的 266,407,278 bp，占估计 271 Mb 基因组大小的 98.3%。使用芝加哥文库与 Hi-Rise 组装和二倍体 Meraculous 组装的混合方法，组装了最终的单倍体基因组。在最终组装中，几乎所有常染色体和 Z 染色体都被组装成单个支架。最大的 29 个支架占基因组组装的 91.4%，其余约 8% 分布在另外 247 个支架中，总体 N50 为 9.2 Mb。组织特异性 RNA-seq 注释识别出 16,442 个蛋白质编码基因，其中包括 93.2% 的节肢动物基准通用单拷贝直向同源基因 (BUSCO)。 Z. cesonia 基因组组装中约 9% 被鉴定为重复元件，转座元件景观富含螺旋子。与其他鳞翅目基因组类似，Z. cesonia 显示出高度保守的染色体同线性。 Z. cesonia 组装为 Pierid 家族染色体排列的研究以及适应和物种形成的种群、系统和功能基因组研究提供了高质量的参考。
Abstract Comparisons of high-quality, reference butterfly, and moth genomes have been instrumental to advancing our understanding of how hybridization, and natural selection drive genomic change during the origin of new species and novel traits. Here, we present a genome assembly of the Southern Dogface butterfly, Zerene cesonia (Pieridae) whose brilliant wing colorations have been implicated in developmental plasticity, hybridization, sexual selection, and speciation. We assembled 266,407,278 bp of the Z. cesonia genome, which accounts for 98.3% of the estimated 271 Mb genome size. Using a hybrid approach involving Chicago libraries with Hi-Rise assembly and a diploid Meraculous assembly, the final haploid genome was assembled. In the final assembly, nearly all autosomes and the Z chromosome were assembled into single scaffolds. The largest 29 scaffolds accounted for 91.4% of the genome assembly, with the remaining ∼8% distributed among another 247 scaffolds and overall N50 of 9.2 Mb. Tissue-specific RNA-seq informed annotations identified 16,442 protein-coding genes, which included 93.2% of the arthropod Benchmarking Universal Single-Copy Orthologs (BUSCO). The Z. cesonia genome assembly had ∼9% identified as repetitive elements, with a transposable element landscape rich in helitrons. Similar to other Lepidoptera genomes, Z. cesonia showed a high conservation of chromosomal synteny. The Z. cesonia assembly provides a high-quality reference for studies of chromosomal arrangements in the Pierid family, as well as for population, phylo, and functional genomic studies of adaptation and speciation.