Malaria resistance-related biological adaptation and complex evolutionary footprints inferred from one integrative Tai-Kadai-related genomic resource
Shuhan Duan,
Mengge Wang,
Zhiyong Wang,
Yan Liu,
Xiucheng Jiang,
Haoran Su,
Yan Cai,
Qiuxia Sun,
Yuntao Sun,
Xiangping Li,
Jing Chen,
Yijiu Zhang,
Jiangwei Yan,
Shengjie Nie,
Liping Hu,
Renkuan Tang,
Libing Yun,
Chuan-Chao Wang,
Chao Liu,
Junbao Yang,
Guanglin He
Affiliations
Shuhan Duan
Institute of Basic Medicine and Forensic Medicine, North Sichuan Medical College and Center for Genetics and Prenatal Diagnosis, Affiliated Hospital of North Sichuan Medical College, Nanchong, Sichuan, 637007, China; Institute of Rare Diseases, West China Hospital of Sichuan University, Sichuan University, Chengdu, 610000, China
Mengge Wang
Institute of Rare Diseases, West China Hospital of Sichuan University, Sichuan University, Chengdu, 610000, China; Center for Archaeological Science, Sichuan University, Chengdu, 610000, China; Corresponding author. Institute of Rare Diseases, West China Hospital of Sichuan University, Sichuan University, Chengdu, 610000, China.
Zhiyong Wang
Institute of Rare Diseases, West China Hospital of Sichuan University, Sichuan University, Chengdu, 610000, China; School of Forensic Medicine, Kunming Medical University, Kunming, 650500, China
Yan Liu
Institute of Basic Medicine and Forensic Medicine, North Sichuan Medical College and Center for Genetics and Prenatal Diagnosis, Affiliated Hospital of North Sichuan Medical College, Nanchong, Sichuan, 637007, China; Institute of Rare Diseases, West China Hospital of Sichuan University, Sichuan University, Chengdu, 610000, China
Xiucheng Jiang
Institute of Basic Medicine and Forensic Medicine, North Sichuan Medical College and Center for Genetics and Prenatal Diagnosis, Affiliated Hospital of North Sichuan Medical College, Nanchong, Sichuan, 637007, China; Institute of Rare Diseases, West China Hospital of Sichuan University, Sichuan University, Chengdu, 610000, China
Haoran Su
Institute of Basic Medicine and Forensic Medicine, North Sichuan Medical College and Center for Genetics and Prenatal Diagnosis, Affiliated Hospital of North Sichuan Medical College, Nanchong, Sichuan, 637007, China; Institute of Rare Diseases, West China Hospital of Sichuan University, Sichuan University, Chengdu, 610000, China
Yan Cai
Institute of Basic Medicine and Forensic Medicine, North Sichuan Medical College and Center for Genetics and Prenatal Diagnosis, Affiliated Hospital of North Sichuan Medical College, Nanchong, Sichuan, 637007, China; Research Center for Genomic Medicine, North Sichuan Medical College, Nanchong, 637100, China
Qiuxia Sun
Institute of Rare Diseases, West China Hospital of Sichuan University, Sichuan University, Chengdu, 610000, China; Department of Forensic Medicine, College of Basic Medicine, Chongqing Medical University, Chongqing, 400331, China
Yuntao Sun
Institute of Rare Diseases, West China Hospital of Sichuan University, Sichuan University, Chengdu, 610000, China; West China School of Basic Science & Forensic Medicine, Sichuan University, Chengdu, 610041, China
Xiangping Li
Institute of Rare Diseases, West China Hospital of Sichuan University, Sichuan University, Chengdu, 610000, China; School of Forensic Medicine, Kunming Medical University, Kunming, 650500, China
Jing Chen
Institute of Rare Diseases, West China Hospital of Sichuan University, Sichuan University, Chengdu, 610000, China; School of Forensic Medicine, Shanxi Medical University, Jinzhong, 030001, China
Yijiu Zhang
Institute of Rare Diseases, West China Hospital of Sichuan University, Sichuan University, Chengdu, 610000, China; Department of Forensic Medicine, College of Basic Medicine, Chongqing Medical University, Chongqing, 400331, China
Jiangwei Yan
School of Forensic Medicine, Shanxi Medical University, Jinzhong, 030001, China
Shengjie Nie
School of Forensic Medicine, Kunming Medical University, Kunming, 650500, China
Liping Hu
School of Forensic Medicine, Kunming Medical University, Kunming, 650500, China
Renkuan Tang
Department of Forensic Medicine, College of Basic Medicine, Chongqing Medical University, Chongqing, 400331, China
Libing Yun
West China School of Basic Science & Forensic Medicine, Sichuan University, Chengdu, 610041, China
Chuan-Chao Wang
State Key Laboratory of Cellular Stress Biology, National Institute for Data Science in Health and Medicine, School of Life Sciences, Xiamen University, Xiamen, 361005, Fujian, China
Chao Liu
Anti-Drug Technology Center of Guangdong Province, Guangzhou, 510230, China; Corresponding author. Anti-Drug Technology Center of Guangdong Province, Guangzhou, 510230, China.
Junbao Yang
Institute of Basic Medicine and Forensic Medicine, North Sichuan Medical College and Center for Genetics and Prenatal Diagnosis, Affiliated Hospital of North Sichuan Medical College, Nanchong, Sichuan, 637007, China; Research Center for Genomic Medicine, North Sichuan Medical College, Nanchong, 637100, China; Corresponding author. Institute of Basic Medicine and Forensic Medicine, North Sichuan Medical College and Center for Genetics and Prenatal Diagnosis, Affiliated Hospital of North Sichuan Medical College, Nanchong, Sichuan, 637007, China.
Guanglin He
Institute of Basic Medicine and Forensic Medicine, North Sichuan Medical College and Center for Genetics and Prenatal Diagnosis, Affiliated Hospital of North Sichuan Medical College, Nanchong, Sichuan, 637007, China; Institute of Rare Diseases, West China Hospital of Sichuan University, Sichuan University, Chengdu, 610000, China; Research Center for Genomic Medicine, North Sichuan Medical College, Nanchong, 637100, China; Center for Archaeological Science, Sichuan University, Chengdu, 610000, China; Corresponding author. Institute of Rare Diseases, West China Hospital of Sichuan University, Sichuan University, Chengdu, 610000, China.
Pathogen‒host adaptative interactions and complex population demographical processes, including admixture, drift, and Darwen selection, have considerably shaped the Neolithic-to-Modern Western Eurasian population structure and genetic susceptibility to modern human diseases. However, the genetic footprints of evolutionary events in East Asia remain unknown due to the underrepresentation of genomic diversity and the design of large-scale population studies. We reported one aggregated database of genome-wide SNP variations from 796 Tai-Kadai (TK) genomes, including that of Bouyei first reported here, to explore the genetic history, population structure, and biological adaptative features of TK people from southern China and Southeast Asia. We found geography-related population substructure among TK people using the state-of-the-art population genetic structure reconstruction techniques based on the allele frequency spectrum and haplotype-resolved phased fragments. We found that the northern TK people from Guizhou harbored one TK-dominant ancestry maximized in the Bouyei people, and the southern TK people from Thailand were more influenced by Southeast Asians and indigenous people. We reconstructed fitted admixture models and demographic graphs, which showed that TK people received gene flow from ancient southern rice farmer-related lineages related to the Hmong-Mien and Austroasiatic people and from northern millet farmers associated with the Sino-Tibetan people. Biological adaptation focused on our identified unique TK lineages related to Bouyei, which showed many adaptive signatures conferring Malaria resistance and low-rate lipid metabolism. Further gene enrichment, the allele frequency distribution of derived alleles, and their correlation with the incidence of Malaria further confirmed that CR1 played an essential role in the resistance of Malaria in the ancient ''Baiyue'' tribes.
