Genomic exploration of the endangered oriental stork, Ciconia boyciana, sheds light on migration adaptation and future conservation

文献类型： 外文期刊

第一作者： Yang, Shangchen

作者： Yang, Shangchen;Chen, Jin;Li, Haimeng;Fan, Jiale;Zhou, Mengchao;Wang, Shiqing;Shi, Minhui;Han, Lei;Lu, Yaxian;Liu, Boyang;Lan, Tianming;Hou, Zhijun;Yang, Shangchen;Liu, Yan;Liang, Hongrui;Zhang, Xiaotian;Yu, Mingyuan;Xu, Yu;Zhao, Xiaoqing;Zhao, Xiaoqing;Li, Haimeng;Lan, Tianming

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关键词： oriental stork; comparative genomics; conservation genomics; endangered species; migration

期刊名称：GIGASCIENCE （ 影响因子：3.9； 五年影响因子：11.1 ）

ISSN： 2047-217X

年卷期： 2024 年 13 卷

页码：

收录情况： SCI

摘要： Background The oriental stork, Ciconia boyciana, is an endangered migratory bird listed on the International Union for Conservation of Nature's Red List. The bird population has experienced a rapid decline in the past decades, with nest locations and stop-over sites largely degraded due to human-bird conflicts. Multipronged conservation efforts are required to secure the future of oriental storks. We propose that a thorough understanding of the genome-wide genetic background of this threatened bird species is critical to make future conservation strategies.Findings In this study, the first chromosome-scale reference genome was presented for the oriental stork with high quality, contiguity, and accuracy. The assembled genome size was 1.24 Gb with a scaffold N50 of 103 Mb, and 1.23 Gb contigs (99.32%) were anchored to 35 chromosomes. Population genomic analysis did not show a genetic structure in the wild population. Genome-wide genetic diversity (pi = 0.0012) of the oriental stork was at a moderate to high level among threatened bird species, and the inbreeding risk was also not significant (FROH = 5.56% +/- 5.30%). Reconstruction of demographic history indicated a rapid recent population decline likely driven by human activities. Genes that were under positive selection associated with the migratory trait were identified in relation to the long-term potentiation, photoreceptor cell organization, circadian rhythm, muscle development, and energy metabolism, indicating the essential interplay between genetic and ecological adaptation.Conclusions Our study presents the first chromosome-scale genome assembly of the oriental stork and provides a genomic basis for understanding a genetic background of the oriental stork, the population's extinction risks, and the migratory characteristics, which will facilitate the decision of future conservation plans for this species.

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