Probing the genomic limits of de-extinction in the Christmas Island rat

	Probing the genomic limits of de-extinction in the Christmas Island rat
	Lin, JQ; Duchene, D; Caroe, C; Smith, O; Ciucani, MM; Niemann, J; Richmond, D; Greenwood, AD; MacPhee, R; Zhang, GJ; Gopalakrishnan, S; Gilbert, MTP
	2022
发表期刊	CURRENT BIOLOGY
ISSN	0960-9822
卷号	32 期号:7 页码:1650-+
摘要	Three principal methods are under discussion as possible pathways to true de-extinction; i.e., backbreeding, cloning, and genetic engineering.(1,2) Of these, while the latter approach is most likely to apply to the largest number of extinct species, its potential is constrained by the degree to which the extinct species genome can be reconstructed. We explore this question using the extinct Christmas Island rat (Rattus maclean) as a model, an endemic rat species that was driven extinct between 1898 and 1908.(3-5) We first re-sequenced its genome to an average of >60x coverage, then mapped it to the reference genomes of different Rattus species. We then explored how evolutionary divergence from the extant reference genome affected the fraction of the Christmas Island rat genome that could be recovered. Our analyses show that even when the extremely high-quality Norway brown rat (R. norvegicus) is used as a reference, nearly 5% of the genome sequence is unrecoverable, with 1,661 genes recovered at lower than 90% completeness, and 26 completely absent. Furthermore, we find the distribution of regions affected is not random, but for example, if 90% completeness is used as the cutoff, genes related to immune response and olfaction are excessively affected. Ultimately, our approach demonstrates the importance of applying similar analyses to candidates for de-extinction through genome editing in order to provide critical baseline information about how representative the edited form would be of the extinct species.
收录类别	sci
语种	英语
文献类型	期刊论文
条目标识符	http://ir.kiz.ac.cn/handle/152453/13449
专题	科研部门_遗传多样性基因组学研究组（张国捷）
推荐引用方式 GB/T 7714	Lin, JQ,Duchene, D,Caroe, C,et al. Probing the genomic limits of de-extinction in the Christmas Island rat[J]. CURRENT BIOLOGY,2022,32(7):1650-+.
APA	Lin, JQ.,Duchene, D.,Caroe, C.,Smith, O.,Ciucani, MM.,...&Gilbert, MTP.(2022).Probing the genomic limits of de-extinction in the Christmas Island rat.CURRENT BIOLOGY,32(7),1650-+.
MLA	Lin, JQ,et al."Probing the genomic limits of de-extinction in the Christmas Island rat".CURRENT BIOLOGY 32.7(2022):1650-+.

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