Duck pan-genome reveals two transposon insertions caused bodyweight enlarging and white plumage phenotype formation during evolution
Kejun Wang , Guoying Hua , Jingyi Li , Yu Yang , Chenxi Zhang , Lan Yang , Xiaoyu Hu , Armin Scheben , Yanan Wu , Ping Gong , Shuangjie Zhang , Yanfeng Fan , Tao Zeng , Lizhi Lu , Yanzhang Gong , Ruirui Jiang , Guirong Sun , Yadong Tian , Xiangtao Kang , Haifei Hu , Wenting Li
iMeta ›› 2024, Vol. 3 ›› Issue (1) : 154
Duck pan-genome reveals two transposon insertions caused bodyweight enlarging and white plumage phenotype formation during evolution
•We present the first duck pan-genome constructed using five genome assemblies capturing ∼40.98Mb new sequences absent from the reference genome. •We find a significant portion of the detected structural variants were derived from transposable element (TE) activity. Many of these are located within gene bodies or regulatory regions, potentially linked to duck domestication and enhancement. •We used two representative examples to show how TE insertions can lead phenotypic diversity, highlighting IGF2BP1’s role in bodyweight and MITF’s influence on white plumage in ducks. •Notably, the Gypsy insertion in the IGF2BP1 promoter, to our knowledge, explains the largest effect on bodyweight among avian species (27.61% of phenotypic variation).
IGF2BP1 / MITF / pan-genome / structural variation / transposable element
2023 The Authors. iMeta published by John Wiley & Sons Australia, Ltd on behalf of iMeta Science.
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