Differentiating the demographic histories and local adaptations of middle-altitude Qiang and Tibetan people

Al-Asadi H, Petkova D, Stephens M, Novembre J (2019) Estimating recent migration and population-size surfaces. PLoS Genet 15:e1007908. https://doi.org/10.1371/journal.pgen.1007908

Article  CAS  PubMed  PubMed Central  Google Scholar 

Alexander DH, Novembre J, Lange K (2009) Fast model-based estimation of ancestry in unrelated individuals. Genome Res 19:1655–64. https://doi.org/10.1101/gr.094052.109

Article  CAS  PubMed  PubMed Central  Google Scholar 

Andre M, Brucato N, Hudjasov G, Pankratov V, Yermakovich D, Montinaro F, Kreevan R, Kariwiga J, Muke J, Boland A, Deleuze JF, Meyer V, Evans N, Cox MP, Leavesley M, Dannemann M, Org T, Metspalu M, Mondal M, Ricaut FX (2024) Positive selection in the genomes of two Papua New Guinean populations at distinct altitude levels. Nat Commun 15:3352. https://doi.org/10.1038/s41467-024-47735-1

Article  CAS  PubMed  PubMed Central  Google Scholar 

André M, Brucato N, Hudjasov G, Pankratov V, Yermakovich D, Montinaro F, Kreevan R, Kariwiga J, Muke J, Boland A, Deleuze J-F, Meyer V, Evans N, Cox MP, Leavesley M, Dannemann M, Org T, Metspalu M, Mondal M, Ricaut F-X (2024) Positive selection in the genomes of two Papua New Guinean populations at distinct altitude levels. Nat Commun 15:3352. https://doi.org/10.1038/s41467-024-47735-1

Article  CAS  PubMed  PubMed Central  Google Scholar 

Bai H, Guo X, Narisu N, Lan T, Wu Q, Xing Y, Zhang Y, Bond SR, Pei Z, Zhang Y, Zhang D, Jirimutu J, Zhang D, Yang X, Morigenbatu M, Zhang L, Ding B, Guan B, Cao J, Lu H, Liu Y, Li W, Dang N, Jiang M, Wang S, Xu H, Wang D, Liu C, Luo X, Gao Y, Li X, Wu Z, Yang L, Meng F, Ning X, Hashenqimuge H, Wu K, Wang B, Suyalatu S, Liu Y, Ye C, Wu H, Leppala K, Li L, Fang L, Chen Y, Xu W, Li T, Liu X, Xu X, Gignoux CR, Yang H, Brody LC, Wang J, Kristiansen K, Burenbatu B, Zhou H, Yin Y (2018) Whole-genome sequencing of 175 Mongolians uncovers population-specific genetic architecture and gene flow throughout North and East Asia. Nat Genet 50:1696–1704. https://doi.org/10.1038/s41588-018-0250-5

Article  CAS  PubMed  Google Scholar 

Beall CM, Cavalleri GL, Deng L, Elston RC, Gao Y, Knight J, Li C, Li JC, Liang Y, McCormack M, Montgomery HE, Pan H, Robbins PA, Shianna KV, Tam SC, Tsering N, Veeramah KR, Wang W, Wangdui P, Weale ME, Xu Y, Xu Z, Yang L, Zaman MJ, Zeng C, Zhang L, Zhang X, Zhaxi P, Zheng YT (2010) Natural selection on EPAS1 (HIF2alpha) associated with low hemoglobin concentration in Tibetan highlanders. Proc Natl Acad Sci U S A 107:11459–64. https://doi.org/10.1073/pnas.1002443107

Article  PubMed  PubMed Central  Google Scholar 

Ben-Eghan C, Sun R, Hleap JS, Diaz-Papkovich A, Munter HM, Grant AV, Dupras C, Gravel S (2020) Don’t ignore genetic data from minority populations. Nature 585:184–186. https://doi.org/10.1038/d41586-020-02547-3

Article  CAS  PubMed  Google Scholar 

Benton ML (2021) The influence of evolutionary history on human health and disease. Nat Rev Genet. https://doi.org/10.1038/s41576-020-00305-9

Article  PubMed  PubMed Central  Google Scholar 

Bergström A, McCarthy SA, Hui R, Almarri MA, Ayub Q, Danecek P, Chen Y, Felkel S, Hallast P, Kamm J (2020) Insights into human genetic variation and population history from 929 diverse genomes. Science 367:eaay5012

Article  PubMed  PubMed Central  Google Scholar 

Bick AG, Metcalf GA, Mayo KR, Lichtenstein L, Rura S, Carroll RJ, Musick A, Linder JE, Jordan IK, Nagar SD, Sharma S, Meller R, Basford M, Boerwinkle E, Cicek MS, Doheny KF, Eichler EE, Gabriel S, Gibbs RA, Glazer D, Harris PA, Jarvik GP, Philippakis A, Rehm HL, Roden DM, Thibodeau SN, Topper S, Blegen AL, Wirkus SJ, Wagner VA, Meyer JG, Cicek MS, Muzny DM, Venner E, Mawhinney MZ, Griffith SML, Hsu E, Ling H, Adams MK, Walker K, Hu J, Doddapaneni H, Kovar CL, Murugan M, Dugan S, Khan Z, Boerwinkle E, Lennon NJ, Austin-Tse C, Banks E, Gatzen M, Gupta N, Henricks E, Larsson K, McDonough S, Harrison SM, Kachulis C, Lebo MS, Neben CL, Steeves M, Zhou AY, Smith JD, Frazar CD, Davis CP, Patterson KE, Wheeler MM, McGee S, Lockwood CM, Shirts BH, Pritchard CC, Murray ML, Vasta V, Leistritz D, Richardson MA, Buchan JG, Radhakrishnan A, Krumm N, Ehmen BW, Schwartz S, Aster MMT, Cibulskis K, Haessly A, Asch R, Cremer A, Degatano K, Shergill A, Gauthier LD, Lee SK, Hatcher A, Grant GB, Brandt GR, Covarrubias M, Banks E, Able A, Green AE, Carroll RJ, Zhang J, Condon HR, Wang Y, Dillon MK et al (2024) Genomic data in the all of us research program. Nature 627:340–346. https://doi.org/10.1038/s41586-023-06957-x

Article  CAS  Google Scholar 

Borda V, Alvim I, Mendes M, Silva-Carvalho C, Soares-Souza GB, Leal TP, Furlan V, Scliar MO, Zamudio R, Zolini C (2020) The genetic structure and adaptation of Andean highlanders and Amazonians are influenced by the interplay between geography and culture. Proc Natl Acad Sci U S A 117:32557–32565

Article  CAS  PubMed  PubMed Central  Google Scholar 

Browning BL, Browning SR (2013) Improving the accuracy and efficiency of identity-by-descent detection in population data. Genetics 194:459–71. https://doi.org/10.1534/genetics.113.150029

Article  PubMed  PubMed Central  Google Scholar 

Browning SR, Browning BL (2015) Accurate non-parametric estimation of recent effective population size from segments of identity by descent. Am J Hum Genet 97:404–18. https://doi.org/10.1016/j.ajhg.2015.07.012

Article  CAS  PubMed  PubMed Central  Google Scholar 

Browning SR, Waples RK, Browning BL (2023) Fast, accurate local ancestry inference with FLARE. Am J Hum Genet 110:326–335

Article  CAS  PubMed  PubMed Central  Google Scholar 

Byrska-Bishop M, Evani US, Zhao XF, Basile AO, Abel HJ, Regier AA, Corvelo A, Clarke WE, Musunuri R, Nagulapalli K, Fairley S, Runnels A, Winterkorn L, Lowy E, Flicek P, Germer S, Brand H, Hall IM, Talkowski ME, Narzisi G, Zody MC, Cons HGSV (2022) High-coverage whole-genome sequencing of the expanded 1000 Genomes Project cohort including 602 trios. Cell 185:3426. https://doi.org/10.1016/j.cell.2022.08.004

Article  CAS  PubMed  PubMed Central  Google Scholar 

Cao YN, Li L, Xu M, Feng ZM, Sun XH, Lu JL, Xu Y, Du PN, Wang TG, Hu RY, Ye Z, Shi LX, Tang XL, Yan L, Gao ZN, Chen G, Zhang YF, Chen LL, Ning G, Bi YF, Wang WQ, Consortium C (2020) The ChinaMAP analytics of deep whole genome sequences in 10,588 individuals. Cell Res 30:717–731. https://doi.org/10.1038/s41422-020-0322-9

Article  PubMed  PubMed Central  Google Scholar 

Caro-Consuegra R, Nieves-Colón MA, Rawls E, Rubin-de-Celis V, Lizárraga B, Vidaurre T, Sandoval K, Fejerman L, Stone AC, Moreno-Estrada A (2022) Uncovering signals of positive selection in Peruvian populations from three ecological regions. Mol Biol Evol 39:msac158

Article  CAS  PubMed  PubMed Central  Google Scholar 

Chacon-Duque JC, Adhikari K, Fuentes-Guajardo M, Mendoza-Revilla J, Acuna-Alonzo V, Barquera R, Quinto-Sanchez M, Gomez-Valdes J, Everardo Martinez P, Villamil-Ramirez H, Hunemeier T, Ramallo V, Silva de Cerqueira CC, Hurtado M, Villegas V, Granja V, Villena M, Vasquez R, Llop E, Sandoval JR, Salazar-Granara AA, Parolin ML, Sandoval K, Penaloza-Espinosa RI, Rangel-Villalobos H, Winkler CA, Klitz W, Bravi C, Molina J, Corach D, Barrantes R, Gomes V, Resende C, Gusmao L, Amorim A, Xue Y, Dugoujon JM, Moral P, Gonzalez-Jose R, Schuler-Faccini L, Salzano FM, Bortolini MC, Canizales-Quinteros S, Poletti G, Gallo C, Bedoya G, Rothhammer F, Balding D, Hellenthal G, Ruiz-Linares A (2018) Latin Americans show wide-spread Converso ancestry and imprint of local Native ancestry on physical appearance. Nat Commun 9:5388. https://doi.org/10.1038/s41467-018-07748-z

Article  CAS  PubMed  PubMed Central  Google Scholar 

Chang CC, Chow CC, Tellier LC, Vattikuti S, Purcell SM, Lee JJ (2015) Second-generation PLINK: rising to the challenge of larger and richer datasets. Gigascience 4:7. https://doi.org/10.1186/s13742-015-0047-8

Article  CAS  PubMed  PubMed Central  Google Scholar 

Chen H, Xu S (2025) Population genomics advances in frontier ethnic minorities in China. Sci China Life Sci 68:961–973. https://doi.org/10.1007/s11427-024-2659-2

Article  PubMed  Google Scholar 

Chen J, Zhang H, Yang M, Wang R, Zhang H, Ren Z, Wang Q, Liu Y, Chen J, Ji J, Zhao J, He G, Guo J, Zhu K, Yang X, Ma H, Wang CC, Huang J (2023) Genomic formation of Tibeto-Burman speaking populations in Guizhou, Southwest China. BMC Genom 24:672. https://doi.org/10.1186/s12864-023-09767-7

Article  CAS  Google Scholar 

Choudhury A, Aron S, Botigué LR, Sengupta D, Botha G, Bensellak T, Wells G, Kumuthini J, Shriner D, Fakim YJ (2020) High-depth African genomes inform human migration and health. Nature 586:741–748

Article  CAS  PubMed  PubMed Central  Google Scholar 

Choudhury A, Aron S, Botigué LR, Sengupta D, Botha G, Bensellak T, Wells G, Kumuthini J, Shriner D, Fakim YJ, Ghoorah AW, Dareng E, Odia T, Falola O, Adebiyi E, Hazelhurst S, Mazandu G, Nyangiri OA, Mbiyavanga M, Benkahla A, Kassim SK, Mulder N, Adebamowo SN, Chimusa ER, Muzny D, Metcalf G, Gibbs RA, Rotimi C, Ramsay M, Adeyemo AA, Lombard Z, Hanchard NA, Matovu E, Bucheton B, Hertz-Fowler C, Koffi M, Macleod A, Mumba-Ngoyi D, Noyes H, Simo G, Simuunza M, Botigué L, Kumuthini J, Adebamowo SN, Adebamowo C, Agongo G, Boua RP, Oduro A, Sorgho H, Landouré G, Cissé L, Diarra S, Samassékou O, Anabwani G, Matshaba M, Joloba M, Kekitiinwa A, Mardon G, Mpoloka SW, Kyobe S, Mlotshwa B, Mwesigwa S, Retshabile G, Williams L, Wonkam A, Moussa A, Adu D, Ojo A, Burke D, Salako BO, Matovu E, Awadalla P, Bruat V, Gbeha E, Grp TR, Consortium HA (2020) High-depth African genomes inform human migration and health. Nature 586:741. https://doi.org/10.1038/s41586-020-2859-7

Article  CAS 

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