Chromosome-Level Genome and Variation Map of Eri Silkworm <i>Samia cynthia ricini</i>

Chromosome-Level Genome and Variation Map of Eri Silkworm <i>Samia cynthia ricini</i>

The eri silkworm <i>Samia cynthia ricini</i> (<i>S. ricini</i>) is an economically and scientifically significant lepidopteran species, though its genomic resources have remained limited. Here, we present a chromosome-level genome assembly for <i>S. ricini</i> gen...

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Bibliographic Details
Main Authors: Kunpeng Lu, Jianghong Shen, Wengong Huang, Chengyu Zhan, Zhengqing Li, Shubo Liang, Kerui Lai, Qun Luo, Minjin Han, Xiaoling Tong, Fangyin Dai
Format: Article
Language:English
Published: MDPI AG 2025-06-01
Series:Biology
Subjects:
eri silkworm
genome assembly
annotation
variation map
database
Online Access:https://www.mdpi.com/2079-7737/14/6/698
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Summary:The eri silkworm <i>Samia cynthia ricini</i> (<i>S. ricini</i>) is an economically and scientifically significant lepidopteran species, though its genomic resources have remained limited. Here, we present a chromosome-level genome assembly for <i>S. ricini</i> generated through integrated long-read, short-read, and Hi-C sequencing data. The final 456.16 Mb assembly spans 14 chromosomes, exhibiting 98.5% BUSCO completeness and a 48.51% repetitive content. Functional annotation of the 15,729 protein-coding genes against five major databases (NR, SwissProt, Pfam, GO, and KEGG) revealed a maximum annotation rate of 92.71%, demonstrating high gene set quality. Comparative genomics with <i>B. mori</i> uncovered conserved syntenic blocks interspersed with chromosomal fusion/fission events and inversions. We further identified 4.27 million SNPs, 1.02 million InDels, and 53,367 SVs, establishing the first comprehensive variation map for this species. These genomic variations provide a foundation for marker-assisted breeding programs and trait association studies. All the genomic resources and interactive visualization tools were integrated into the SilkMeta database. This study establishes <i>S. ricini</i> as a pivotal resource for comparative lepidopteran genomics and accelerates molecular breeding programs for this agriculturally valuable insect.
ISSN:2079-7737

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