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High-resolution silkworm pan-genome provides genetic insights into artificial selection and ecological adaptation.
Tong X, Han MJ, Lu K, Tai S, Liang S, Liu Y, Hu H, Shen J, Long A, Zhan C, Ding X, Liu S, Gao Q, Zhang B, Zhou L, Tan D, Yuan Y, Guo N, Li YH, Wu Z, Liu L, Li C, Lu Y, Gai T, Zhang Y, Yang R, Qian H, Liu Y, Luo J, Zheng L, Lou J, Peng Y, Zuo W, Song J, He S, Wu S, Zou Y, Zhou L, Cheng L, Tang Y, Cheng G, Yuan L, He W, Xu J, Fu T, Xiao Y, Lei T, Xu A, Yin Y, Wang J, Monteiro A, Westhof E, Lu C, Tian Z, Wang W, Xiang Z, Dai F. Tong X, et al. Among authors: xu a, xu j. Nat Commun. 2022 Sep 24;13(1):5619. doi: 10.1038/s41467-022-33366-x. Nat Commun. 2022. PMID: 36153338 Free PMC article.
Genomic variation in 3,010 diverse accessions of Asian cultivated rice.
Wang W, Mauleon R, Hu Z, Chebotarov D, Tai S, Wu Z, Li M, Zheng T, Fuentes RR, Zhang F, Mansueto L, Copetti D, Sanciangco M, Palis KC, Xu J, Sun C, Fu B, Zhang H, Gao Y, Zhao X, Shen F, Cui X, Yu H, Li Z, Chen M, Detras J, Zhou Y, Zhang X, Zhao Y, Kudrna D, Wang C, Li R, Jia B, Lu J, He X, Dong Z, Xu J, Li Y, Wang M, Shi J, Li J, Zhang D, Lee S, Hu W, Poliakov A, Dubchak I, Ulat VJ, Borja FN, Mendoza JR, Ali J, Li J, Gao Q, Niu Y, Yue Z, Naredo MEB, Talag J, Wang X, Li J, Fang X, Yin Y, Glaszmann JC, Zhang J, Li J, Hamilton RS, Wing RA, Ruan J, Zhang G, Wei C, Alexandrov N, McNally KL, Li Z, Leung H. Wang W, et al. Among authors: xu j. Nature. 2018 May;557(7703):43-49. doi: 10.1038/s41586-018-0063-9. Epub 2018 Apr 25. Nature. 2018. PMID: 29695866 Free PMC article.
Diversification and independent domestication of Asian and European pears.
Wu J, Wang Y, Xu J, Korban SS, Fei Z, Tao S, Ming R, Tai S, Khan AM, Postman JD, Gu C, Yin H, Zheng D, Qi K, Li Y, Wang R, Deng CH, Kumar S, Chagné D, Li X, Wu J, Huang X, Zhang H, Xie Z, Li X, Zhang M, Li Y, Yue Z, Fang X, Li J, Li L, Jin C, Qin M, Zhang J, Wu X, Ke Y, Wang J, Yang H, Zhang S. Wu J, et al. Among authors: xu j. Genome Biol. 2018 Jun 11;19(1):77. doi: 10.1186/s13059-018-1452-y. Genome Biol. 2018. PMID: 29890997 Free PMC article.
Extensive variation within the pan-genome of cultivated and wild sorghum.
Tao Y, Luo H, Xu J, Cruickshank A, Zhao X, Teng F, Hathorn A, Wu X, Liu Y, Shatte T, Jordan D, Jing H, Mace E. Tao Y, et al. Among authors: xu j. Nat Plants. 2021 Jun;7(6):766-773. doi: 10.1038/s41477-021-00925-x. Epub 2021 May 20. Nat Plants. 2021. PMID: 34017083
Selective and comparative genome architecture of Asian cultivated rice (Oryza sativa L.) attributed to domestication and modern breeding.
Wang X, Wang W, Tai S, Li M, Gao Q, Hu Z, Hu W, Wu Z, Zhu X, Xie J, Li F, Zhang Z, Zhi L, Zhang F, Ma X, Yang M, Xu J, Li Y, Zhang W, Yang X, Chen Y, Zhao Y, Fu B, Zhao X, Li J, Wang M, Yue Z, Fang X, Zeng W, Yin Y, Zhang G, Xu J, Zhang H, Li Z, Li Z. Wang X, et al. Among authors: xu j. J Adv Res. 2022 Dec;42:1-16. doi: 10.1016/j.jare.2022.08.004. Epub 2022 Aug 18. J Adv Res. 2022. PMID: 35988902 Free PMC article.
Genomic basis of the giga-chromosomes and giga-genome of tree peony Paeonia ostii.
Yuan J, Jiang S, Jian J, Liu M, Yue Z, Xu J, Li J, Xu C, Lin L, Jing Y, Zhang X, Chen H, Zhang L, Fu T, Yu S, Wu Z, Zhang Y, Wang C, Zhang X, Huang L, Wang H, Hong D, Chen XY, Hu Y. Yuan J, et al. Among authors: xu c, xu j. Nat Commun. 2022 Nov 28;13(1):7328. doi: 10.1038/s41467-022-35063-1. Nat Commun. 2022. PMID: 36443323 Free PMC article.
Haplotype-resolved genome of diploid ginger (Zingiber officinale) and its unique gingerol biosynthetic pathway.
Li HL, Wu L, Dong Z, Jiang Y, Jiang S, Xing H, Li Q, Liu G, Tian S, Wu Z, Bin Wu, Li Z, Zhao P, Zhang Y, Tang J, Xu J, Huang K, Liu X, Zhang W, Liao Q, Ren Y, Huang X, Li Q, Li C, Wang Y, Xavier-Ravi B, Li H, Liu Y, Wan T, Liu Q, Zou Y, Jian J, Xia Q, Liu Y. Li HL, et al. Among authors: xu j. Hortic Res. 2021 Aug 5;8(1):189. doi: 10.1038/s41438-021-00627-7. Hortic Res. 2021. PMID: 34354044 Free PMC article.
Domestication and selection footprints in Persian walnuts (Juglans regia).
Luo X, Zhou H, Cao D, Yan F, Chen P, Wang J, Woeste K, Chen X, Fei Z, An H, Malvolti M, Ma K, Liu C, Ebrahimi A, Qiao C, Ye H, Li M, Lu Z, Xu J, Cao S, Zhao P. Luo X, et al. Among authors: xu j. PLoS Genet. 2022 Dec 7;18(12):e1010513. doi: 10.1371/journal.pgen.1010513. eCollection 2022 Dec. PLoS Genet. 2022. PMID: 36477175 Free PMC article.
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