Two telomere-to-telomere pig genome assemblies and pan-genome analyses provide insights into genomic structural landscape and genetic adaptations

Wencheng Zong; Li Chen; Dongjie Zhang; Yuebo Zhang; Jinbu Wang; Xinhua Hou; Jie Chai; Yalong An; Ming Tian; Xinmiao He; Chengyi Song; Jun He; Xin Liu; Ligang Wang; Enrico D'Alessandro; Lixian Wang; Yulong Yin; Mingzhou Li; Di Liu; Jinyong Wang; Longchao Zhang

doi:10.1002/imt2.70013

iMeta ›› 2025, Vol. 4 ›› Issue (2) :e70013 DOI: 10.1002/imt2.70013

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Two telomere-to-telomere pig genome assemblies and pan-genome analyses provide insights into genomic structural landscape and genetic adaptations

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¹. State Key Laboratory of Animal Biotech Breeding, Institute of Animal Sciences, Chinese Academy of Agricultural Sciences (CAAS), Beijing, China

². National Center of Technology Innovation for Pigs, Chongqing Academy of Animal Science, Chongqing, China

³. Institute of Animal Husbandry, Heilongjiang Academy of Agricultural Sciences, Harbin, China

⁴. Yuelushan laboratory, Changsha, China

⁵. Key Laboratory of Livestock and Poultry Resources (Pig) Evaluation and Utilization, Ministry of Agriculture and Rural Affairs, College of Animal Science and Technology, Hunan Agricultural University, Changsha, China

⁶. Key Laboratory of Animal Genetics, Breeding and Reproduction of Shaanxi Province, College of Animal Science and Technology, Northwest A&F University, Xianyang, China

⁷. College of Animal Science and Technology, Yangzhou University, Yangzhou, China

⁸. Department of Veterinary Science, Division of Animal Production, University of Messina, Messina, Italy

⁹. State Key Laboratory of Swine and Poultry Breeding Industry, College of Animal Science and Technology, Sichuan Agricultural University, Chengdu, China

iaswlx@263.net

yinyulong@isa.ac.cn

mingzhou.li@sicau.edu.cn

liudi1963@163.com

kingyou@vip.sina.com

zhlchias@163.com

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Wencheng Zong, Li Chen, Dongjie Zhang, Yuebo Zhang, Jinbu Wang, Xinhua Hou, Jie Chai, Yalong An, Ming Tian, Xinmiao He, Chengyi Song, Jun He, Xin Liu, Ligang Wang, Enrico D'Alessandro, Lixian Wang, Yulong Yin, Mingzhou Li, Di Liu, Jinyong Wang, Longchao Zhang. Two telomere-to-telomere pig genome assemblies and pan-genome analyses provide insights into genomic structural landscape and genetic adaptations. iMeta, 2025, 4(2): e70013 DOI:10.1002/imt2.70013

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References

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[1]	Lunney, Joan K., Angelica Van Goor, Kristen E. Walker, Taylor Hailstock, Jasmine Franklin, and Chaohui Dai. 2021. “Importance of the Pig as a Human Biomedical Model.” Science Translational Medicine 13: eabd5758. https://doi.org/10.1126/scitranslmed.abd5758

[2]	Resources, China National Commission of Animal Genetic. 2011. “Animal Genetics Resources in China-pigs.” Beijing: China Agriculture Press.

[3]	Qin, Dahe, Shu Tao, Suocheng Dong, and Yong Luo. 2016. “Climate, Environmental, and Socioeconomic Characteristics of China.” In Climate and Environmental Change in China: 1951-2012 (pp. 1-27). Berlin Heidelberg: Springer. https://doi.org/10.1007/978-3-662-48482-1_1

[4]	Humphray, Sean J., Carol E. Scott, Richard Clark, Brandy Marron, Clare Bender, Nick Camm, Jayne Davis, et al. 2007. “A High Utility Integrated Map of the Pig Genome.” Genome Biology 8: R139. https://doi.org/10.1186/gb-2007-8-7-r139

[5]	Groenen, Martien A. M., Alan L. Archibald, Hirohide Uenishi, Christopher K. Tuggle, Yasuhiro Takeuchi, Max F. Rothschild, Claire Rogel-Gaillard, et al. 2012. “Analyses of Pig Genomes Provide Insight into Porcine Demography and Evolution.” Nature 491: 393-398. https://doi.org/10.1038/nature11622

[6]	Warr, Amanda, Nabeel Affara, Bronwen Aken, Hamid Beiki, Derek M. Bickhart, Konstantinos Billis, William Chow, et al. 2020. “An Improved Pig Reference Genome Sequence to Enable Pig Genetics and Genomics Research.” GigaScience 9: giaa051. https://doi.org/10.1093/gigascience/giaa051

[7]

Wang, Yifei, Yuwei Gou, Rong Yuan, Qin Zou, Xukun Zhang, Ting Zheng, Kaixin Fei, et al. 2024. “A Chromosome-Level Genome of Chenghua Pig Provides New Insights into the Domestication and Local Adaptation of Pigs.” International Journal of Biological Macromolecules 270: 131796. https://doi.org/10.1016/j.ijbiomac.2024.131796

[8]	Du, Heng, Shiyu Lu, Qianqian Huang, Lei Zhou, and Jian-Feng Liu. 2024. “Chromosome-Level Genome Assembly of Huai Pig (Sus scrofa).” Scientific Data 11: 1072. https://doi.org/10.1038/s41597-024-03921-w

[9]	Li, Dong, Yulong Wang, Tiantian Yuan, Minghao Cao, Yulin He, Lin Zhang, Xiang Li, et al. 2024. “Pangenome and Genome Variation Analyses of Pigs Unveil Genomic Facets for Their Adaptation and Agronomic Characteristics.” iMeta 3: e257. https://doi.org/10.1002/imt2.257

[10]	Du, Heng, Yue Zhuo, Shiyu Lu, Wanying Li, Lei Zhou, Feizhou Sun, Gang Liu, and Jianfeng Liu. 2024. “Pangenome Reveals Gene Content Variations and Structural Variants Contributing to Pig Characteristics.” Genomics, Proteomics & Bioinformatics: qzae081. https://doi.org/10.1093/gpbjnl/qzae081

[11]	Zhang, Dongjie, Shouzheng Ma, Liang Wang, Hong Ma, Wentao Wang, Jiqao Xia, and Di Liu. 2022. “Min Pig Skeletal Muscle Response to Cold Stress.” PLoS OneE 17: e0274184. https://doi.org/10.1371/journal.pone.0274184

[12]

Qiao, Liying, Bishi Zhao, Xuying Liu, Jianhua Liu, Kaijie Yang, Yangyang Pan, and Wenzhong Liu. 2023. “TPT1 Promotes the Adipogenic Differentiation of Stromal Vascular Fractions via the PI3K/AKT Pathway and FOXO1 in Sheep.” Journal of Applied Animal Research 51: 388-396. https://doi.org/10.1080/09712119.2023.2203745

[13]	Huang, Zhen, Wei Zhang, Chunhai Gao, Baoju Ji, Xiuwen Chi, Wei Zheng, and Hailan Wang. 2016. “Dysregulation of GTPase IMAP Family Members in Hepatocellular Cancer.” Molecular Medicine Reports 14: 4119-4123. https://doi.org/10.3892/mmr.2016.5764

[14]	Ho, Ching-Huang, and Shih-Feng Tsai. 2017. “Functional and Biochemical Characterization of a T Cell-Associated Anti-Apoptotic Protein, GIMAP6.” Journal of Biological Chemistry 292: 9305-9319. https://doi.org/10.1074/jbc.M116.768689

[15]	He, Qiang, Sha Tang, Hui Zhi, Jinfeng Chen, Jun Zhang, Hongkai Liang, Ornob Alam, et al. 2023. “A Graph-Based Genome and Pan-Genome Variation of the Model Plant Setaria.” Nature Genetics 55: 1232-1242. https://doi.org/10.1038/s41588-023-01423-w

[16]	Li, Ning, Qiang He, Juan Wang, Baike Wang, Jiantao Zhao, Shaoyong Huang, Tao Yang, et al. 2023. “Super-Pangenome Analyses Highlight Genomic Diversity and Structural Variation Across Wild and Cultivated Tomato Species.” Nature Genetics 55: 852-860. https://doi.org/10.1038/s41588-023-01340-y

[17]

Zong, Wencheng, Jinbu Wang, Runze Zhao, Naiqi Niu, Yanfang Su, Ziping Hu, Xin Liu, et al. 2023. “Associations of Genome-Wide Structural Variations With Phenotypic Differences in Cross-Bred Eurasian Pigs.” Journal of Animal Science and Biotechnology 14: 136. https://doi.org/10.1186/s40104-023-00929-x