利用mtDNA信息分析陶寺古牛的起源驯化

doi:10.3969/j.issn.1674-7968.2025.01.008

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Abstract As one of the most important domestic animals, the origin and spread pattern of taurine cattle (Bos taurus) in China has received widespread attention. In this study, 9 cattle remains from 3 archaeological sites in the middle reaches of the Yellow River were collected for extraction of ancient DNA for PCR sequencing and phylogenetic analysis to explore the origin and spread of taurine cattle in China. Through multiple rounds of PCR experiments, 527 bp endogenous mitochondrial DNA (mtDNA) sequences were obtained from 4 cattle remains from Taosi site (4300~4100 before the present). The results of haplotype classification clearly showed that all samples from the Taosi site were divided into 4 haplotypes, all of which belonged to domesticated taurine cattle T3 and T4 haplogroups which supported that Taosi domestic cattle originated from the Near East and were already utilized by people living in North China 4 100 years ago. Additionally, the abundant number of haplotypes at the Taosi site suggested that the ancient cattle population at the Taosi site had high maternal genetic diversity. Population pairwise F_ST distance analysis and the Median-Joining network analysis indicated that the ancient cattle had a close genetic relationship with the modern East Asian taurine cattle (F_ST=0.0164) and Chinese taurine cattle (F_ST=0.0066), suggesting that the ancient cattle population at Taosi site might be one of the maternal origin for the modern East Asian and Chinese taurine cattle. This study provides more molecular genetic evidence for resolving the origin and spread of cattle in China.

Key words： Ancient DNA Taosi site Taurine cattle Origin

Received: 08 January 2024

ZTFLH:

S823

Corresponding Authors: * zhxb@cau.edu.cn; xh@fosu.edu.cn

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	ZHANG Xing
	YANG Liu
	HOU Ling-Yun
	LING Fei
	XIANG Hai
	ZHAO Xing-Bo

Cite this article:

ZHANG Xing,YANG Liu,HOU Ling-Yun, et al. Analysis of the Origin and Domestication of Ancient Cattle (Bos taurus) at the Taosi Site Using mtDNA Information[J]. 农业生物技术学报, 2025, 33(1): 92-103.

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https://journal05.magtech.org.cn/Jwk_ny/EN/10.3969/j.issn.1674-7968.2025.01.008 OR https://journal05.magtech.org.cn/Jwk_ny/EN/Y2025/V33/I1/92

[1] 陈宁博, 雷初朝. 2022. 从DNA角度认识中国黄牛的起源和利用历史[J]. 第四纪研究, 42(1): 92-100.
(Chen N B, Lei C Z.2022. The origins and utilization history of Chinese cattle as revealed by DNA analysis[J]. Quaternary Sciences, 42(1): 92-100)
[2] 陈相龙, 袁靖, 胡耀武, 等. 2012. 陶寺遗址家畜饲养策略初探: 来自碳、氮稳定同位素的证据[J]. 考古, (09): 75-82.
(Chen X L, Yuan J, Hu Y W. 2012. Livestock rearing strategies at the Taosi site: Evidence from stable isotopes of carbon and nitrogen[J]. Archaeology, (09): 75-82)
[3] 郭荣臻. 2018. 河南新密史前先民食物结构的考古学观察[J]. 农业考古, (03): 26-32.
(Guo R Z. 2018. Archaeological observations on the food structure of the prehistoric ancestors in Xinmi of Henan[J]. Agricultural Archaeology, (03): 26-32.)
[4] 王树芝, 王增林, 何驽. 2011. 陶寺遗址出土木炭研究[J]. 考古, (03): 91-96.
(Wang S Z, Wang Z L, He N. 2011. Study of charcoal excavated at the Taosi site[J]. Archaeology, (03): 91-96)
[5] 王树芝, 方燕明, 赵志军. 2012. 龙山时代的植被、古气候及植物利用—以河南瓦店遗址的木炭分析为例[J]. 第四纪研究, 32(2): 226-235.
(Wang S Z, Fan Y M, Zhao Z J.2012. Vegetation, paleoclimite and vegetation use during Longshan era: Case studies of anthracology of Wadian site in Henan province[J]. Quaternary Sciences, 32(2): 226-235.)
[6] 许俊杰, 莫多闻, 王辉, 等. 2013. 河南新密溱水流域全新世人类文化演化的环境背景研究[J]. 第四纪研究, 33(5): 954-964.
(Xu J J, Mo D W, Wang H, et al.2013. Preliminary research of environment archaeology in Zhenshui river, Xinmi city, Henan[J]. Quaternary Sciences, 33(5): 954-964.)
[7] 袁靖. 2010. 中国古代家养动物的动物考古学研究[J]. 第四纪研究, 30(2): 298-306.
(Yuan J.2010. Zooarchaeological study on the domestic animals in ancient China[J]. Quaternary Sciences, 30(2): 298-306.)
[8] 赵春燕, 袁靖, 何努. 2011. 山西省襄汾县陶寺遗址出土动物牙釉质的锶同位素比值分析[J]. 第四纪研究, 31(1): 22-28.
(Zhao C Y, Yuan J, He N.2011. Strontium isotope analysis of archaeological fauna from the Taosi site, Xiangfen county, Shanxi province[J]. Quaternary Sciences, 31(1): 22-28.)
[9] Bandelt H J, Forster P, Röhl A.1999. Median-joining networks for inferring intraspecific phylogenies[J]. Molecular Biology and Evolution, 16(1): 37-48
[10] Brunson K, He N, Dai X.2016a. Sheep, cattle, and specialization: New Zooarchaeological perspectives on the Taosi Longshan[J]. International Journal of Osteoarchaeology, 26(3): 460-475.
[11] Brunson K, Zhao X, He N, et al.2016b. New insights into the origins of oracle bone divination: Ancient DNA from Late Neolithic Chinese bovines[J]. Journal of Archaeological Science, 74: 35-44.
[12] Cai D W, Sun Y, Tang Z W, et al.2014. The origins of Chinese domestic cattle as revealed by ancient DNA analysis[J]. Journal of Archaeological Science, 41: 423-434.
[13] Cai D W, Zhang N F, Shao X Y, et al.2018a. New ancient DNA data on the origins and spread of sheep and cattle in northern China around 4000 BP[J]. Asian Archaeology, 2(1): 51-57.
[14] Cai D W, Zhang N F, Zhu S, et al.2018b. Ancient DNA reveals evidence of abundant aurochs (Bos primigenius) in Neolithic Northeast China[J]. Journal of Archaeological Science, 98: 72-80.
[15] Chen N B, Cai Y D, Chen Q M, et al.2018. Whole-genome resequencing reveals world-wide ancestry and adaptive introgression events of domesticated cattle in East Asia[J]. Nature Communications, 9(1): 2337.
[16] Chen N B, Xia X T, Hanif Q, et al.2023. Global genetic diversity, introgression, and evolutionary adaptation of indicine cattle revealed by whole genome sequencing[J]. Nature Communications, 14(1): 7803.
[17] Cubric-Curik V, Novosel D, Brajkovic V, et al.2022. Large-scale mitogenome sequencing reveals consecutive expansions of domestic taurine cattle and supports sporadic aurochs introgression[J]. Evolutionary Applications, 15(4): 663-678.
[18] Darriba D, Taboada G L, Doallo R, et al.2012. jModelTest 2: More models, new heuristics and parallel computing[J]. Nature Methods, 9(8): 772-772.
[19] Decker J E, McKay S D, Rolf M M, et al.2014. Worldwide patterns of ancestry, divergence, and admixture in domesticated cattle[J]. PLOS Genetics, 10(3): e1004254.
[20] Diamond J.2002. Evolution, consequences and future of plant and animal domestication[J]. Nature, 418(6898): 700.
[21] Excoffier L, Lischer H E.2010. Arlequin suite ver 3.5: A new series of programs to perform population genetics analyses under Linux and Windows[J]. Molecular Ecology Resources, 10(3): 564-567.
[22] Grantham R.1974. Amino acid difference formula to help explain protein evolution[J]. Science, 185(4154): 862-864.
[23] He N.2013. The Longshan Period Site of Taosi in Southern Shanxi Province. In: Underhill A P, eds. A Companion to Chinese Archaeology[M]. Oxford: Blackwell Publishing Ltd., pp. 255-277.
[24] Katoh K, Rozewicki J, Yamada K D.2019. MAFFT online service: Multiple sequence alignment, interactive sequence choice and visualization[J]. Briefings in Bioinformatics, 20(4): 1160-1166.
[25] Kumar S, Stecher G, Li M, et al.2018. MEGA X: Molecular evolutionary genetics analysis across computing platforms[J]. Molecular Biology and Evolution, 35(6): 1547-1549.
[26] Letunic I, Bork P.2021. Interactive tree of life (iTOL) v5: An online tool for phylogenetic tree display and annotation[J]. Nucleic Acids Research, 49(W1): W293-W296.
[27] Librado P, Rozas J.2009. DnaSP v5: A software for comprehensive analysis of DNA polymorphism data[J]. Bioinformatics, 25(11): 1451-1452.
[28] Li W H, Wu C I, Luo C C.1984. Nonrandomness of point mutation as reflected in nucleotide substitutions in pseudogenes and its evolutionary implications[J]. Journal of Molecular Evolution, 21(1): 58-71.
[29] Ma L, Sonstegard T S, Cole J B, et al.2019. Genome changes due to artificial selection in U.S. Holstein cattle[J]. BMC Genomics, 20(1): 128.
[30] Peng M S, Fan L, Shi N N, et al.2015. DomeTree: A canonical toolkit for mitochondrial DNA analyses in domesticated animals[J]. Molecular Ecology Resources, 15: 1238-1242.
[31] Pitt D, Sevane N, Nicolazzi E L, et al.2019. Domestication of cattle: Two or three events?[J]. Evolutionary Applications, 12(1): 123-136.
[32] Qiu Z X.2006. Quaternary environmental changes and evolution of large mammals in North China[J]. Vertebrata Palasiatica, 44(02): 109-132.
[33] Ronquist F, Teslenko M, Van Der Mark P, et al.2012. MrBayes 3.2: Efficient Bayesian phylogenetic inference and model choice across a large model space[J]. Systematic Biology, 61(3): 539-542.
[34] Tavtigian S V, Deffenbaugh A M, Yin L, et al.2006. Comprehensive statistical study of 452 BRCA1 missense substitutions with classification of eight recurrent substitutions as neutral[J]. Journal of Medical Genetics, 43(4): 295-305.
[35] Xia X T, Qu K X, Zhang G, et al.2019. Comprehensive analysis of the mitochondrial DNA diversity in Chinese cattle[J]. Animal Genetics, 50(1): 70-73.
[36] Xia X T, Zhang S J, Zhang H J, et al.2021. Assessing genomic diversity and signatures of selection in Jiaxian Red cattle using whole-genome sequencing data[J]. BMC Genomics, 22(1): 43.
[37] Xia X T, Achilli A, Lenstra J A, et al.2021. Mitochondrial genomes from modern and ancient Turano-Mongolian cattle reveal an ancient diversity of taurine maternal lineages in East Asia[J]. Heredity, 126(6): 1000-1008.
[38] Xia X T, Zhang F W, Li S, et al.2023. Structural variation and introgression from wild populations in East Asian cattle genomes confer adaptation to local environment[J]. Genome Biology, 24(1): 211.
[39] Xiang H, Wang Z, Yang L, et al.2022. Using loop-primer mediated PCR to enhance the detection of poorly preserved DNA[J]. Frontiers in Genetics, 13: 1000123.
[40] Yang L, Zhang X, Hu Y, et al.2023. Ancient mitochondrial genome depicts sheep maternal dispersal and migration in eastern Asia[J]. Journal of Genetics and Genomics, 51(1): 87-95.
[41] Yue X P, Li R, Liu L, et al.2014. When and how did Bos indicus introgress into Mongolian cattle?[J]. Gene, 537(2): 214-219.
[42] Zhang H C, Paijmans J L, Chang F Q, et al.2013. Morphological and genetic evidence for early Holocene cattle management in northeastern China[J]. Nature Communications, 4: 2755.
[43] Zhang N F, Shao X Y, Guo Y Q, et al.2023. Ancient mitochondrial genomes provide new clues to the origin of domestic cattle in China[J]. Genes, 14(7): 1313.