宋晓元



主要研究方向：

1.研究lncRNA和三维染色质结构在脑衰老、精子发生等生物学过程中的作用机制

2.以单细胞模式生物四膜虫为模型研究转录调控机制

3.开发研究三维空间染色质结构转录调控作用的技术方

教授 博士生导师 毕业于北京师范大学生物系，分别获得学士和硕士学位；美国罗彻斯特大学生物系取得分子、细胞和发育生物学博士学位；加州大学圣地亚哥分校进行博士后研究 期间获得癌症研究所博士后奖学金资助。2012年12月加入中国科学技术大学生命科学学院。长期从事基因转录调控、长链非编码RNA（lncRNA）、三维基因组空间结构在脑衰老及精子发生等过程中的功能和机制。在PNAS、Genome Research、Cell Death Differentiation、Genes Development、Nucleic Acids Research等学术期刊上发表了系列文章。



代表性学术论文:（#共第一作者，%共第二作者，*通讯作者）

  1. Hu T., Song X.*, Luo Z.*. Chromatin ends and promoter loops organize chromosome-sized domains in Tetrahymena. PNAS. 2026, 123(29):e2607976123.

  2. Jian S., Han X., Xie C., Ma Y., Chen P., Liu W., Xiao J. *, Song X.*. The pachytene-specific lncRNA 1700008K24Rik is essential for mouse spermatogenesis and functions as a conserved piRNA precursor. Non-coding RNA Research. 2026, 19:70-82.

  3. Hu T., Luo Z.*, Song X.*. Chromatin Accessibility Dynamics and Transcriptional Regulation in Tetrahymena thermophila. Science China. Life sciences. 2026, 69(7):2173-2186.

  4. Wu Y., Mao F., Dang X., Zhang Z., Yu Z., Mu H.*, Zhang Y.*, Song X.*. DNA methylation landscape of Nautilus Pompilius. BMC Genomics. 2025, 26(1):927.

  5. Wang R., Zhu Z., Cheng W., Chang C., Song X.*, Huang F.*. Cadmium accumulation and isotope fractionation in typical protozoa Tetrahymena: A new perspective on remediation of Cd pollution in wastewater. Journal of Hazardous Materials. 2023, 454:131517.

  6. Wang S, Luo Z, Liu W, Hu T, Zhao Z, Rosenfeld MG*, Song X.*. The 3D genome and its impacts on human health and disease. Life Med. 2023 Mar 23;2(2):lnad012.

  7. Ghanam AR.#, Ke S.#, Wang S., Elgendy R., Xie C., Wang S., Zhang R., Wei M., Liu W., Cao J., Zhang Y., Zhang Z., Xue T., Zheng Y.*, Song X.*. Alternative transcribed 3' isoform of long non-coding RNA Malat1 inhibits mouse retinal oxidative stress. iScience. 2022, 26(1):105740.

  8. Wang Q.#, Chen P.#, Wang X.#, Wu Y., Xia K., Mu X., Xuan Q., Xiao J., He Y., Liu W., Song X.*, Sun F*. piR-36249 and DHX36 together inhibit testicular cancer cells progression by upregulating OAS2. Noncoding RNA Research. 2023, 8(2):174-186.

  9. Cai Y.#, Song W. #, Li J. #, Jing Y. #, Liang C. #, Zhang L. #, Zhang X.#, Zhang W. #, Liu B. #, An Y. #, Li J. #, Tang B. #, Pei S. #, Wu X. #, Liu Y. #, Zhuang CL. #, Ying Y. #, Dou X. #, Chen Y. #, Xiao FH. #, Li D. #, Yang R. #, Zhao Y. #, Wang Y. #, Wang L. #, Li Y. #, Ma S.*, Wang S.*, Song X.*, Ren J.*, Zhang L.*, Wang J.*, Zhang W.*, Xie Z.*, Qu J.*, Wang J.*, Xiao Y.*, Tian Y.*, Wang G.*, Hu P.*, Ye J.*, Sun Y.*, Mao Z.*, Kong QP.*, Liu Q.*, Zou W.*, Tian XL.*, Xiao ZX.*, Liu Y.*, Liu JP.*, Song M.*, Han JJ.*, Liu GH.*. The landscape of aging. Science China. Life sciences. 2022, 1–101.

  10. Mamun MMA., Khan MR., Zhu Y., Zhang Y., Zhou S., Xu R., Bukhari I., Thorne RF., Li J., Zhang XD., Liu G.*, Chen S.*, Wu M.*, Song X.*. Stub1 maintains proteostasis of master transcription factors in embryonic stem cells. Cell Reports. 2022, 39(10):110919.

  11. Luo Z.#, Zhang R.#, Hu T.#, Zhu Y., Wu Y., Li W., Zhang Z., Yao X., Liang H., Song X.*. NicE-C efficiently reveals open chromatin-associated chromosome interactions at high resolution. Genome Research. 2022, 32(3):534-544.

  12. Wang F.#, Wang Q.#, Liu B.#, Mei L., Ma S., Wang S., Wang R., Zhang Y., Niu C., Xiong Z., Zheng Y., Zhang Z., Shi J., Song X.*. The long noncoding RNA Synage regulates synapse stability and neuronal function in the cerebellum. Cell Death & Differentiation. 2021, 28(9):2634-2650. 

  13. Cheng Q., Wu Y, Xia H.*, Song X.*. RGL2 as an age-dependent factor regulates colon cancer progression. Computational and Structural Biotechnology Journal. 2021, 19: 2190-2201. 

  14. Luo Z.#, Hu T. #, Jiang H., Wang R., Xu Q., Zhang S., Cao J., Song X.*. Rearrangement of macronucleus chromosomes correspond to TAD-like structures of micronucleus chromosomes in Tetrahymena thermophila. Genome Research. 2020. Mar 12. 30(3):406-414. 

  15. Luo Z.#, Wang X.#, Jiang H.#, Wang R.#, Chen J., Chen Y., Xu Q., Cao J., Gong X., Wu J., Yang Y., Li W., Han C., Cheng YC., Rosenfeld MG., Sun F.*, Song X.*. Reorganized 3D genome structures support transcriptional regulation in mouse spermatogenesis. iScience. 2020, 23(4): 101034. 

  16. Cheng Q.,Ouyang X., Zhang R., Zhu L., Song X.*. Senescence-associated genes and non-coding RNAs function in pancreatic cancer progression. RNA Biology. 2020, 17(11): 1693-1706.

  17. Ghanam AR., Cao J., Ouyang X., and Song X.*. New insights into chronological mobility of retrotransposable elements in vivo. Oxidative Medicine and Cellular Longevity. 2019. 2818415. eCollection 2019. 

  18. Wang F.#, Ren D.#, Liang X.#, Ke S., Zhang B., Hu B.*, Song X.*, Wang X.*. A long noncoding RNA cluster-based genomic locus maintains proper development and visual function. Nucleic Acids Research. 2019, 47(12): 6315-6329. 

  19. Ghanam AR., Xu Q., Ke S., Muhammad A., Cheng Q., Song X.*. Shining the light on senescence associated lncRNAs. Aging & Disease. 2017, 1; 8(2):149-161. 

  20. Xu Q.#, Wang R.#, Ghanam AR., Yan G., Miao W., Song X.*. The key role of CYC2 during meiosis in Tetrahymena thermophila. Protein & Cell. 2016, 7(4):236-49. 

  21. Cao J., Luo Z., Cheng Q., Xu Q., Zhang Y., Wang F., Wu Y., Song X.*. Three-dimensional regulation of transcription. Protein & Cell. 2015, 6(4):241-53. 

  22. Song X., Bowen J., Miao W., Liu Y., and Gorovsky MA.*. The nonhistone, N-terminal tail of an essential, chimeric H2A variant regulates mitotic H3-S10 dephosphorylation. Genes & Development. 2012, 26(6):615-29. 

  23. Song X.#, Wang X.#, Arai S. and Kurokawa R.*. Promoter-associated noncoding RNA from the CCND1 promoter. Methods in Molecular Biology. 2012, 809:609-22. 

  24. Harismendy O.#, Notani D.#, Song X., Rahim NG., Tanasa B., Heintzman N., Ren B., Fu XD., Topol EJ., Rosenfeld MG*, and Frazer KA*. 9p21 DNA variants associated with coronary artery disease impair interferon-γ signalling response. Nature. 2011, 470(7333):264-8.

  25. Wang X.# and Song X.#, Glass CK., and Rosenfeld MG*. The Long Arm of Long Noncoding RNAs: Roles as Sensors Regulating Gene Transcriptional Programs. Cold Spring Harb Perspect Biol. 2011, 3(1):a003756. Collected in《The RNA World》IV. 

  26. Wang X., Arai S.%, Song X.%, Reichart D., Du K., Pascual G., Tempst P., Rosenfeld MG.*, Glass CK.*, and Kurokawa R.*. Induced ncRNAs allosterically modify RNA binding proteins in cis to inhibit transcription. Nature. 2008, 454(7200):126-30. 

  27. Song, X.#, Gjoneska E.#, Ren Q.#, Taverna SD., Allis C.D., and Gorovsky MA.*. Phosphorylation of the SQ H2A.X motif is required for proper meiosis and mitosis in Tetrahymena thermophila. Mol Cell Biol. 2007, 27(7):2648-60.  

  28. Song X. and Gorovsky MA.*. Unphosphorylated H1 is enriched in a specific region of the promoter when CDC2 is down-regulated during starvation. Mol Cell Biol. 2007, 27(5):1925-33.

  29. Shang Y., Song X., Bowen J., Corstanje R., Gao Y., Gaertig J., and Gorovsky MA.*. A robust inducible-repressible promoter greatly facilitates gene knockouts, conditional expression, and overexpression of homologous and heterologous genes in Tetrahymena thermophila. PNAS. 2002, 99(6):3734-9.

 

实验室招聘硕、博研究生和本科实习生，以及具分子生物学及生物信息学等相关背景的博士后。



联系方式：E-mail:songxy5@ustc.edu.cn

电话：63607752

ResearcherID:http://www.researcherid.com/rid/P-1094-2014

实验室：https://faculty.ustc.edu.cn/songxiaoyuan/zh_CN/index.htm

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