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钱文峰


钱文峰博士、研究员、博士生导师
 
        2006年,获北京大学生命科学专业学士学位(指导老师:中科院昆明动物所王文研究员);
        2012年,获密歇根大学进化生物学专业博士学位(指导老师:张建之教授);
        2012年12月起,在遗传与发育生物学研究所任研究员;
        2018年获“益海嘉里”优秀导师奖;
        2019年入选“优秀青年科学基金”项目;
        2019年起任国科大研究生课程《群体遗传与分子进化》首席教授。

 
研究方向
 
特别说明:本课题组不专门做数据库或软件的开发,对学生的数学/计算机能力并没有特别的要求。实验室目前所有成员都是生命科学背景,大多数学生在进入本课题组后才系统学习统计学与计算机编程。
        实验室的研究包括生物学大数据的产生及其解读。我们研究的目标是通过高通量实验方法与相应的计算生物学手段认识遗传与进化的基本过程,其中一些研究成果将会对人类健康和农业生产产生积极的影响。具体而言,我们的研究包括以下几个方面:
 
        (一)通过ribo-seq等方法检测细胞内核糖体在mRNA上的分配与分布,试图理解翻译对生长与发育过程的调控作用、机制与进化;
 
        (二)通过高通量实验构建基因型与表型的对应关系(fitness landscape),试图理解生命在这种对应关系指导下的进化过程;
 
        (三)通过定向进化实验实现蛋白质的快速“驯化”(directed evolution),并在此过程中研究蛋白质功能优化的基本规律(evolutionary trajectory);
 
        (四)通过体细胞谱系追踪理解多细胞生物的发育过程(cell lineage tracing),特别是理解组织/器官发生与再生的发育来源。
 
课题组成员获奖情况
        振声奖学金:吴少欢(2016)、陈思羽(2017)
        “益海嘉里”优秀博士生奖:陈瑛(2019)
        国家奖学金:陈瑛(2016、2019)、段朝瑞(2018)、张宇亮(2018)、魏昌硕(2020)
        “益海嘉里”优秀博士后奖:肇涛澜(2017)
        中国科学院青年创新促进会:肇涛澜(2019)
        特别研究助理资助:陈瑛(2020)
 
相关报道与科普文章
        《癌症与突变》(https://zhuanlan.zhihu.com/p/49502048
        《突变率的一个新的调控因子》(https://mp.weixin.qq.com/s/TK8xeQxDnNK1mxY2z5jefg
        《不只有A的poly(A)尾》(https://mp.weixin.qq.com/s/K6jlDcv1BJe2g52KglWf4g
        《染色体变异与癌症》(https://mp.weixin.qq.com/s/qe_0StGg_xT1lb_veDo-6Q
 
担任责任编辑参与《知识分子》公众号科普
        《二次暴发的病毒:来源于自然过程还是人为失误?》(http://zhishifenzi.blog.caixin.com/archives/229222
        《美国黑人更易患高血压,“奴隶贸易假说”迎合了什么?》(http://zhishifenzi.com/depth/depth/9744.html
 
译著
《优生学简论》
 
 
        内容简介:20世纪上半叶,优生运动席卷全球。其以生命科学和统计学为基础,希望通过研究控制和改善人类繁衍的方法来改进人类遗传品质,减少人类痛苦。然而这一美好愿望在现实中却是另一番景象。本书阐述了20世纪以优生学为基础进行的各种社会实践以及制定的各种相关政策、法规,并从遗传学、统计学、医学、社会学、教育、法律、政治及文学等角度全方位速览了优生学,评述了优生学对当今科学和社会的影响,引人深思。
 
         
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
读研体会与建议
        钱文峰2011年获国家留学基金委“优秀自费留学生奖学金特别优秀奖”后《神州学人》的专栏文章 http://www.chinanews.com/lxsh/2012/09-19/4196713.shtml
 
采访与报道
        北京电视台科教频道《我的创新故事》专访
[video:【BTV科教】我的创新故事钱文峰]
 
 
        《九旬院士的17载科教实验:挽起求索科学的“小手”》
        《最简细胞:助力打开生命“黑箱”》

发表论文
实验室成员,*共同第一作者,#通讯作者)
 
27. T. Zhao* #, Y. Chen*, Y. Li*, J. Wang, S. Chen, N. Gao#, and W. Qian# (2021) Disome-seq reveals widespread ribosome collisions that promote cotranslational protein folding. Genome Biology. 22:16 (35 pages).
文章解读:《钱文峰组与高宁组合作发现核糖体碰撞广泛存在并可促进新生肽链的共翻译折叠》(http://www.genetics.ac.cn/xwzx/kyjz/202101/t20210111_5854540.html
 
26. 肇涛澜#张硕钱文峰# (2020)翻译延伸的顺式调控机理与生物学效应,《遗传》 42(7),613-631
 
25. Y. Chen, K. Shan, and W. Qian# (2020) Asians do not exhibit elevated expression or unique genetic polymorphisms for ACE2, the cell-entry receptor of SARS-CoV-2. Preprints. doi: 10.20944/preprints202002.0258.v2
 
24. Y. Chen* #, K. Li*, X. Chu, L.B. Carey, and W. Qian# (2019) Synchronized replication of genes encoding the same protein complex in fast-proliferating cells. Genome Research. 29, 1929-1938.
文章解读:《钱文峰研究组发现由DNA复制引起的蛋白质剂量失衡及细胞的应对机制》(http://www.genetics.ac.cn/xwzx/kyjz/201912/t20191206_5450138.html
 
23. T. Zhao*, Q. Huan*, J. Sun*, C. Liu*, X. Hou, X. Yu, I. Silverman, Y. Zhang,B. Gregory, C. Liu, W. Qian# and X. Cao# (2019) Impact of poly(A)-tail G-content on Arabidopsis PAB binding and their role in enhancing translational efficiency. Genome Biology 20(1):189 (12 pages).
文章解读:《曹晓风与钱文峰研究组合作发现poly(A)尾中鸟嘌呤含量调控翻译的新机制》(http://www.genetics.ac.cn/xwzx/kyjz/201909/t20190909_5378240.html
 
22. Y. Chen, S. Chen, K. Li, Y. Zhang, X. Huang, T. Li, S. Wu, Y. Wang, L.B. Carey# and W. Qian# (2019) Overdosage of balanced protein complexes reduces proliferation rate in aneuploid cells. Cell Systems 9, 129-142 e125. (Featured Article)
文章解读:《钱文峰研究组合作发现非整倍体细胞增殖缺陷的新机制》(http://www.genetics.ac.cn/xwzx/kyjz/201907/t20190726_5352005.html
 
21. J. Zhou, X. Wang, M. Wang, Y. Chang, F. Zhang, Z. Ban, R. Tang, Q. Gan, S. Wu, Y. Guo, Q. Zhang, F. Wang, L. Zhao, Y. Jing , W. Qian , G. Wang, W. Guo# , C. Yang# (2018) The lysine catabolite saccharopine impairs development by disrupting mitochondrial homeostasis. The Journal of Cell Biology 218 (2): 580.
 
20. C. Duan*, Q. Huan*, X. Chen*, S. Wu, L.B. Carey, X. He and W. Qian# (2018) Reduced intrinsic DNA curvature leads to increased mutation rate. Genome Biology 19(1):132 (18 pages).
文章解读:《钱文峰研究组发现DNA固有曲率调控局部突变率》(http://www.genetics.ac.cn/xwzx/kyjz/201809/t20180919_5085111.html
 
19. Q. Huan*, Y. Zhang*, S. Wu, and W. Qian# (2018) HeteroMeth: A Database of Cell-to-cell Heterogeneity in DNA Methylation. Genomics, Proteomics & Bioinformatics.16 (4), 234-243.
文章解读:《钱文峰研究组优化单细胞DNA甲基化修饰异质性算法并发布数据库HeteroMeth》(http://www.genetics.ac.cn/xwzx/kyjz/201809/t20180913_5077777.html
 
18. Y. Yang*, W. Cao*, S. Wu, and W. Qian# (2017) Genetic interaction network as an important determinant of gene order in genome evolution. Molecular Biology and Evolution 34 (12), 3254-3266.
文章解读:《钱文峰研究组发现遗传互作网络对染色体上基因顺序的决定作用》(http://www.genetics.ac.cn/xwzx/kyjz/201710/t20171011_4871720.html
 
17. Y. Han*, X. Chu*, H. Yu, Y.-K. Ma, X.-J. Wang, W. Qian#, and Y. Jiao# (2017) Single-cell transcriptome analysis reveals widespread monoallelic gene expression in individual rice mesophyll cells. Science Bulletin 62 (19), 1304-1314.
文章解读:《单细胞转录组学研究揭示植物中存在着广泛的单等位基因表达》(http://www.genetics.ac.cn/xwzx/kyjz/201709/t20170929_4866650.html
 
16. S. Chen, K. Li, W. Cao, J. Wang, T. Zhao, Q. Huan, Y.-F. Yang, S. Wu, and W. Qian# (2017) Codon-resolution analysis reveals a direct and context-dependent impact of individual synonymous mutations on mRNA level. Molecular Biology and Evolution 34 (11), 2944-2958.
文章解读:《钱文峰研究组揭示同义密码子对于mRNA水平的调控》(http://www.genetics.ac.cn/xwzx/kyjz/201708/t20170828_4852394.html
 
15. Y. Yang*, X. Zhang*, X. Ma*, T. Zhao*,Q. Sun, Q. Huan, S. Wu, Z. Du#, and W. Qian# (2017) Trans-splicing enhances translational efficiency in C. elegans. Genome Research. 27(9):1525-1535
文章解读:《钱文峰研究组和杜茁研究组联合揭示反式剪接的翻译调控功能》(http://www.genetics.ac.cn/xwzx/kyjz/201709/t20170904_4854566.html
 
14. S. Wu*,# , K. Li*, Y. Li, T. Zhao, T. Li, Y. Yang, W. Qian# (2017) Independent regulation of gene expression level and noise by histone modifications. PLoS Computational Biology 13 (6): e1005585.
文章解读:《钱文峰研究组发现组蛋白修饰分工调控基因表达水平和基因表达噪音》(http://www.genetics.ac.cn/xwzx/kyjz/201707/t20170705_4822692.html
 
13. B. Zhang*, S. Wu*, Y. Zhang, T. Xu, F. Guo, H. Tang, X. Li, P. Wang, W. Qian, and Y. Xue (2016) A high temperature-dependent mitochondrial lipase EXTRA GLUME1 promotes floral phenotypic robustness against temperature fluctuation in rice (Oryza sativa L.). PLoS Genetics 12 (7):e1006152. (*, equal contributions)
文章解读:《薛勇彪研究组和钱文峰研究组合作在水稻花器官稳态发育的分子机制研究中取得重要进展》(http://www.genetics.cas.cn/xwzx/kyjz/201607/t20160704_4634747.html
 
12. C. Li, W. Qian, C. J. Maclean and J. Zhang (2016) The fitness landscape of a tRNA gene. Science. 352(6287):837-40
Science专文评述Toward a prospective molecular evolution(https://science.sciencemag.org/content/352/6287/769
 
11. W. Qian, and J. Zhang (2014) Genomic evidence for adaptation by gene duplication. Genome Research 24:1356-1362.
 
10. C. Park, W. Qian, and J. Zhang (2012) Genomic evidence for elevated mutation rates in highly expressed genes. EMBO Reports 13:1123-1129.
 
9. W. Qian, D. Ma, C. Xiao, Z. Wang, and J. Zhang (2012) The genomic landscape and evolutionary resolution of antagonistic pleiotropy in yeast. Cell Reports, 2:1399-1410.
 
8. W. Qian, J.-R. Yang, N. M. Pearson, C. Maclean, and J. Zhang (2012) Balanced codon usage optimizes eukaryotic translational efficiency. PLoS Genetics 8(3): e1002603.
Recommended by F1000 (https://f1000.com/prime/718320889)
 
7. W. Qian, X. He, E. Chan, H. Xu, and J. Zhang (2011) Measuring the evolutionary rate of protein-protein interaction. Proc. Natl. Acad. Sci. USA 108:8725-8730.
 
6. W. Qian*, B.-Y. Liao*, A. Y.-F. Chang, and J. Zhang (2010) Maintenance of duplicate genes and their functional redundancy by reduced expression. Trends in Genetics 26:425-430. (*, equal contributions)
 
5. X. He*, W. Qian*, Z. Wang*, Y. Li, and J. Zhang (2010) Prevalent positive epistasis in Escherichia coli and Saccharomyces cerevisiae metabolic networks. Nature Genetics 42:272-276. (*, equal contributions)
Nature Reviews Genetics专文评述Meaningful connections(https://www.nature.com/articles/nrg2756
 
4. Z. Zhang, W. Qian, and J. Zhang (2009) Positive selection for elevated gene expression noise in yeast. Molecular Systems Biology 5:299 (12 pages).
 
3. W. Qian, and J. Zhang (2009) Protein subcellular relocalization in the evolution of yeast singleton and duplicate genes. Genome Biology and Evolution 1:198-204.
 
2. W. Qian, and J. Zhang (2008) Gene dosage and gene duplicability. Genetics 179:2319-2324.
 
1. W. Qian, and J. Zhang (2008) Evolutionary dynamics of nematode operons: easy come, slow go. Genome Research 18:412-421.
Recommended by F1000 (https://f1000.com/prime/1104212)