Dataset Information

Analysis of genome and methylation changes in Chinese indigenous chickens over time provides insight into species conservation.

ABSTRACT: Conservation of natural resources is a vital and challenging task. Numerous animal genetic resources have been effectively conserved worldwide. However, the effectiveness of conservation programmes and the variation information of species have rarely been evaluated. Here, we performed whole-genome and whole-genome bisulfite sequencing of 90 Chinese indigenous chickens, which belonged to the Tibetan, Wenchang and Bian chicken breeds, and have been conserved under different conservation programmes. We observed that low genetic diversity and high DNA methylation variation occurs during ex situ in vivo conservation, while higher genetic diversity and differentiation occurs during in situ conservation. Further analyses revealed that most DNA methylation signatures are unique within ex situ in vivo conservation. Moreover, a high proportion of differentially methylated regions is found in genomic selection regions, suggesting a link between the effects of genomic variation and DNA methylation. Altogether our findings provide valuable information about genetic and DNA methylation variations during different conservation programmes, and hold practical relevance for species conservation.

SUBMITTER: Zeng T

PROVIDER: S-EPMC9467985 | biostudies-literature | 2022 Sep

REPOSITORIES: biostudies-literature

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Analysis of genome and methylation changes in Chinese indigenous chickens over time provides insight into species conservation.

Zeng Tao T Yin Jianmei J Feng Peishi P Han Feiran F Tian Yong Y Wang Yuntong Y Gu Tiantian T Xu Yuhui Y Liu Yali Y Li Guohui G Qu Liang L Chen Li L Gu Lihong L Xu Wenwu W Xue Qian Q Wei Qingyu Q Cao Yongqing Y Li Peifeng P Zhang Huiyong H Li Guoqin G Liu Lijun L Zhou Chenghao C Tao Zhengrong Z Shen Junda J Han Wei W Lu Lizhi L

Communications biology 20220912 1

Conservation of natural resources is a vital and challenging task. Numerous animal genetic resources have been effectively conserved worldwide. However, the effectiveness of conservation programmes and the variation information of species have rarely been evaluated. Here, we performed whole-genome and whole-genome bisulfite sequencing of 90 Chinese indigenous chickens, which belonged to the Tibetan, Wenchang and Bian chicken breeds, and have been conserved under different conservation programmes ...[more]

PMID: 36097156

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Dataset Information

Analysis of genome and methylation changes in Chinese indigenous chickens over time provides insight into species conservation.

Publications

Analysis of genome and methylation changes in Chinese indigenous chickens over time provides insight into species conservation.

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