High-resolution silkworm pan-genome provides genetic insights into artificial selection and ecological adaptation
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DOI: 10.1038/s41467-022-33366-x
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- Agnieszka A. Golicz & Philipp E. Bayer & Guy C. Barker & Patrick P. Edger & HyeRan Kim & Paula A. Martinez & Chon Kit Kenneth Chan & Anita Severn-Ellis & W. Richard McCombie & Isobel A. P. Parkin & An, 2016. "The pangenome of an agronomically important crop plant Brassica oleracea," Nature Communications, Nature, vol. 7(1), pages 1-8, December.
- Junichi Yamaguchi & Yutaka Banno & Kazuei Mita & Kimiko Yamamoto & Toshiya Ando & Haruhiko Fujiwara, 2013. "Periodic Wnt1 expression in response to ecdysteroid generates twin-spot markings on caterpillars," Nature Communications, Nature, vol. 4(1), pages 1-9, June.
- Daniel C. Jeffares & Clemency Jolly & Mimoza Hoti & Doug Speed & Liam Shaw & Charalampos Rallis & Francois Balloux & Christophe Dessimoz & Jürg Bähler & Fritz J. Sedlazeck, 2017. "Transient structural variations have strong effects on quantitative traits and reproductive isolation in fission yeast," Nature Communications, Nature, vol. 8(1), pages 1-11, April.
- Peter H. Sudmant & Tobias Rausch & Eugene J. Gardner & Robert E. Handsaker & Alexej Abyzov & John Huddleston & Yan Zhang & Kai Ye & Goo Jun & Markus Hsi-Yang Fritz & Miriam K. Konkel & Ankit Malhotra , 2015. "An integrated map of structural variation in 2,504 human genomes," Nature, Nature, vol. 526(7571), pages 75-81, October.
- Mahul Chakraborty & J. J. Emerson & Stuart J. Macdonald & Anthony D. Long, 2019. "Structural variants exhibit widespread allelic heterogeneity and shape variation in complex traits," Nature Communications, Nature, vol. 10(1), pages 1-11, December.
- Ryan L. Collins & Harrison Brand & Konrad J. Karczewski & Xuefang Zhao & Jessica Alföldi & Laurent C. Francioli & Amit V. Khera & Chelsea Lowther & Laura D. Gauthier & Harold Wang & Nicholas A. Watts , 2020. "A structural variation reference for medical and population genetics," Nature, Nature, vol. 581(7809), pages 444-451, May.
- Zhikun Wu & Zehang Jiang & Tong Li & Chuanbo Xie & Liansheng Zhao & Jiaqi Yang & Shuai Ouyang & Yizhi Liu & Tao Li & Zhi Xie, 2021. "Structural variants in the Chinese population and their impact on phenotypes, diseases and population adaptation," Nature Communications, Nature, vol. 12(1), pages 1-12, December.
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