ArticleNature communications2022
High-resolution silkworm pan-genome provides genetic insights into artificial selection and ecological adaptation.
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Article in Nature communications, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 69 papers.
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69 citing papers in PubMed.
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- Ectopic Wnt6 expression induces twin-spot markings in the epidermis of the silkworm Bombyx mori - Potential molecular target to discover evolutionary mechanisms of adaptive body coloration in insects.The FEBS journal · 2026Article
- Silk_40K SNP array facilitates the genomic prediction of complex traits in silkworm (Bombyx mori).Journal of advanced research · 2026Article
- Characterization and analysis of the full-length transcriptome of Frankliniella occidentalis (Thysanoptera: Thripidae).BMC genomics · 2026Article
- WormSORT: A detection-based multiple object tracking model for individual silkworms in breeding environments.PLoS computational biology · 2026Article
- Sequence context and methylation interact to shape germline mutation rate variation at CpG sites.PLoS genetics · 2026Article
- Interpreting GC content differences across populations at polymorphic sites.bioRxiv : the preprint server for biology · 2026Article
- Sequence context and methylation interact to shape germline mutation rate variation at CpG sites.bioRxiv : the preprint server for biology · 2026Article
- Pan-Transcriptome Analyses of Multiple Tissues and Growth Stages Create Expression Atlases for the SilkwormAnimals : an open access journal from MDPI · 2026Article
- A tomato telomere-to-telomere super-pangenome empowers stress resilience breeding.Nature genetics · 2026Article
- CRISPR-Mediated Silkworm: The Oncoming Agricultural Revolutions and a Rising Model Organism.Genes · 2026Review
- Dynamics of genome evolution in the era of pangenome analysis.Cell genomics · 2026Review
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- X-LDR: an atlas of linkage disequilibrium across species.Genome biology · 2025Article
- Multiomics analysis of the Silkworm cocoon shell.Scientific data · 2025Article
- Population-Specific Transcriptomic Shifts Underlie Secondary Metabolic Diversification inbioRxiv : the preprint server for biology · 2025Article
- Probiotic Bacillus subtilis enhances silkworm (Bombyx mori) growth performance and silk production via modulating gut microbiota and amino acid metabolism.Animal microbiome · 2025Article
- Dosage-dependent regulation of embryonic diapause by sorbitol dehydrogenase in the silkworm, Bombyx mori.PLoS genetics · 2025Article
9 more citing papers are in PubMed but not listed here.
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57 authors.
Xiaoling Tong *State Key Laboratory of Silkworm Genome Biology, Institute of Sericulture and Systems Biology, Southwest University, Chongqing, 400715, China. xltong@swu.edu.cn.ORCID 0000-0002-2649-899X
Min-Jin Han *State Key Laboratory of Silkworm Genome Biology, Institute of Sericulture and Systems Biology, Southwest University, Chongqing, 400715, China.
Kunpeng Lu *State Key Laboratory of Silkworm Genome Biology, Institute of Sericulture and Systems Biology, Southwest University, Chongqing, 400715, China.ORCID 0000-0001-5755-2373
Shuaishuai Tai *BGI Genomics, BGI-Shenzhen, Shenzhen, 518083, China.ORCID 0000-0001-8204-6982
Shubo Liang *State Key Laboratory of Silkworm Genome Biology, Institute of Sericulture and Systems Biology, Southwest University, Chongqing, 400715, China.ORCID 0000-0003-2048-8552
Yucheng Liu *State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Innovation Academy for Seed Design, Chinese Academy of Sciences, Beijing, 100101, China.
Hai HuState Key Laboratory of Silkworm Genome Biology, Institute of Sericulture and Systems Biology, Southwest University, Chongqing, 400715, China.
Jianghong ShenState Key Laboratory of Silkworm Genome Biology, Institute of Sericulture and Systems Biology, Southwest University, Chongqing, 400715, China.
Anxing LongKey Laboratory of Sericultural Biology and Genetic Breeding, Ministry of Agriculture and Rural Affairs, College of Sericulture, Textile and Biomass Sciences, Southwest University, Chongqing, 400715, China.
Chengyu ZhanState Key Laboratory of Silkworm Genome Biology, Institute of Sericulture and Systems Biology, Southwest University, Chongqing, 400715, China.
Xin DingState Key Laboratory of Silkworm Genome Biology, Institute of Sericulture and Systems Biology, Southwest University, Chongqing, 400715, China.
Shuo LiuState Key Laboratory of Silkworm Genome Biology, Institute of Sericulture and Systems Biology, Southwest University, Chongqing, 400715, China.
Qiang GaoState Key Laboratory of Silkworm Genome Biology, Institute of Sericulture and Systems Biology, Southwest University, Chongqing, 400715, China.
Bili ZhangState Key Laboratory of Silkworm Genome Biology, Institute of Sericulture and Systems Biology, Southwest University, Chongqing, 400715, China.
Linli ZhouState Key Laboratory of Silkworm Genome Biology, Institute of Sericulture and Systems Biology, Southwest University, Chongqing, 400715, China.
Duan TanState Key Laboratory of Silkworm Genome Biology, Institute of Sericulture and Systems Biology, Southwest University, Chongqing, 400715, China.
Yajie YuanState Key Laboratory of Silkworm Genome Biology, Institute of Sericulture and Systems Biology, Southwest University, Chongqing, 400715, China.
Nangkuo GuoKey Laboratory of Sericultural Biology and Genetic Breeding, Ministry of Agriculture and Rural Affairs, College of Sericulture, Textile and Biomass Sciences, Southwest University, Chongqing, 400715, China.
Yan-Hong LiBGI Genomics, BGI-Shenzhen, Shenzhen, 518083, China.
Zhangyan WuBGI Genomics, BGI-Shenzhen, Shenzhen, 518083, China.
Lulu LiuState Key Laboratory of Silkworm Genome Biology, Institute of Sericulture and Systems Biology, Southwest University, Chongqing, 400715, China.
Chunlin LiState Key Laboratory of Silkworm Genome Biology, Institute of Sericulture and Systems Biology, Southwest University, Chongqing, 400715, China.
Yaru LuState Key Laboratory of Silkworm Genome Biology, Institute of Sericulture and Systems Biology, Southwest University, Chongqing, 400715, China.
Tingting GaiState Key Laboratory of Silkworm Genome Biology, Institute of Sericulture and Systems Biology, Southwest University, Chongqing, 400715, China.
Yahui ZhangState Key Laboratory of Silkworm Genome Biology, Institute of Sericulture and Systems Biology, Southwest University, Chongqing, 400715, China.
Renkui YangChongqing Sericulture Science and Technology Research Institute, Chongqing, 400715, China.
Heying QianJiangsu Key Laboratory of Sericulture Biology and Biotechnology, School of Biotechnology, Jiangsu University of Science and Technology, Zhenjiang, Jiangsu, 212018, China.
Yanqun LiuCollege of Bioscience and Biotechnology, Shenyang Agricultural University, Shenyang, Liaoning, 111000, China.
Jiangwen LuoState Key Laboratory of Silkworm Genome Biology, Institute of Sericulture and Systems Biology, Southwest University, Chongqing, 400715, China.
Lu ZhengState Key Laboratory of Silkworm Genome Biology, Institute of Sericulture and Systems Biology, Southwest University, Chongqing, 400715, China.
Jinghou LouState Key Laboratory of Silkworm Genome Biology, Institute of Sericulture and Systems Biology, Southwest University, Chongqing, 400715, China.
Yunwu PengShaanxi Key Laboratory of Sericulture, Ankang University, Ankang, Shaanxi, 710072, China.
Weidong ZuoState Key Laboratory of Silkworm Genome Biology, Institute of Sericulture and Systems Biology, Southwest University, Chongqing, 400715, China.
Jiangbo SongState Key Laboratory of Silkworm Genome Biology, Institute of Sericulture and Systems Biology, Southwest University, Chongqing, 400715, China.
Songzhen HeState Key Laboratory of Silkworm Genome Biology, Institute of Sericulture and Systems Biology, Southwest University, Chongqing, 400715, China.
Songyuan WuState Key Laboratory of Silkworm Genome Biology, Institute of Sericulture and Systems Biology, Southwest University, Chongqing, 400715, China.
Yunlong ZouState Key Laboratory of Silkworm Genome Biology, Institute of Sericulture and Systems Biology, Southwest University, Chongqing, 400715, China.
Lei ZhouState Key Laboratory of Silkworm Genome Biology, Institute of Sericulture and Systems Biology, Southwest University, Chongqing, 400715, China.
Lan ChengState Key Laboratory of Silkworm Genome Biology, Institute of Sericulture and Systems Biology, Southwest University, Chongqing, 400715, China.
Yuxia TangState Key Laboratory of Silkworm Genome Biology, Institute of Sericulture and Systems Biology, Southwest University, Chongqing, 400715, China.
Guotao ChengState Key Laboratory of Silkworm Genome Biology, Institute of Sericulture and Systems Biology, Southwest University, Chongqing, 400715, China.
Lianwei YuanState Key Laboratory of Silkworm Genome Biology, Institute of Sericulture and Systems Biology, Southwest University, Chongqing, 400715, China.
Weiming HeBGI Genomics, BGI-Shenzhen, Shenzhen, 518083, China.ORCID 0000-0003-0483-5390
Jiabao XuBGI Genomics, BGI-Shenzhen, Shenzhen, 518083, China.
Tao FuBGI Genomics, BGI-Shenzhen, Shenzhen, 518083, China.
Yang XiaoInstitute of Sericulture and Agricultural Products Processing, Guangdong Academy of Agricultural Sciences, Guangzhou, Guangdong, 510000, China.
Ting LeiChongqing Sericulture Science and Technology Research Institute, Chongqing, 400715, China.
Anying XuJiangsu Key Laboratory of Sericulture Biology and Biotechnology, School of Biotechnology, Jiangsu University of Science and Technology, Zhenjiang, Jiangsu, 212018, China.ORCID 0000-0003-2105-2718
Ye YinBGI Genomics, BGI-Shenzhen, Shenzhen, 518083, China.ORCID 0000-0002-7051-1987
Jian WangBGI-Shenzhen, Shenzhen, 518083, China.
Antónia MonteiroBiological Sciences, National University of Singapore, 14 Science Drive 4, Singapore, 117543, Singapore.ORCID 0000-0001-9696-459X
Eric WesthofState Key Laboratory of Silkworm Genome Biology, Institute of Sericulture and Systems Biology, Southwest University, Chongqing, 400715, China.
Cheng LuState Key Laboratory of Silkworm Genome Biology, Institute of Sericulture and Systems Biology, Southwest University, Chongqing, 400715, China. lucheng@swu.edu.cn.ORCID 0000-0002-8577-4288
Zhixi TianState Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Innovation Academy for Seed Design, Chinese Academy of Sciences, Beijing, 100101, China. zxtian@genetics.ac.cn.ORCID 0000-0001-6051-9670
Wen WangSchool of Ecology and Environment, Northwestern Polytechnical University, Xi'an, Shaanxi, 710072, China. wwang@mail.kiz.ac.cn.ORCID 0000-0002-7801-2066
Zhonghuai XiangState Key Laboratory of Silkworm Genome Biology, Institute of Sericulture and Systems Biology, Southwest University, Chongqing, 400715, China. xbxzh@swu.edu.cn.ORCID 0000-0003-3370-2984
Fangyin DaiState Key Laboratory of Silkworm Genome Biology, Institute of Sericulture and Systems Biology, Southwest University, Chongqing, 400715, China. fydai@swu.edu.cn.ORCID 0000-0002-0215-2177
Funding
No grant is acknowledged in the PubMed record.
Abstract
The silkworm Bombyx mori is an important economic insect for producing silk, the "queen of fabrics". The currently available genomes limit the understanding of its genetic diversity and the discovery of valuable alleles for breeding. Here, we deeply re-sequence 1,078 silkworms and assemble long-read genomes for 545 representatives. We construct a high-resolution pan-genome dataset representing almost the entire genomic content in the silkworm. We find that the silkworm population harbors a high density of genomic variants and identify 7308 new genes, 4260 (22%) core genes, and 3,432,266 non-redundant structure variations (SVs). We reveal hundreds of genes and SVs that may contribute to the artificial selection (domestication and breeding) of silkworm. Further, we focus on four genes responsible, respectively, for two economic (silk yield and silk fineness) and two ecologically adaptive traits (egg diapause and aposematic coloration). Taken together, our population-scale genomic resources will promote functional genomics studies and breeding improvement for silkworm.
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BombyxDiapauseAnimalsDomesticationGenomicsSilkSilk
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