Publications & Talks
Selected publications:
Chunyi Hu, Dongchun Ni, Ki Hyun Nam, Sonali Majumdar, Justin McLean, Henning Stahlberg, Michael P Terns, Ailong Ke. Allosteric control of Type I-A CRISPR-Cas3 complexes and establishment as effective nucleic acid detection and human genome editing tools, Molecular Cell, 2022 10.1016/j.molcel.2022.06.007
Chunyi Hu*' #, Mason T Myers*, Xufei Zhou, Zhonggang Hou, Macy L Lozen, Yan Zhang‡, Ailong Ke‡. Exploiting Activation and Inactivation Mechanisms in Type IC CRISPR-Cas3 for Genome Editing Applications. Molecular Cell. 2023. https://doi.org/10.1016/j.molcel.2023.12.034
All Peer-reviewed publications:
2024
28. Tao Hu1#*, Xinxin Ke#, Yingying Yu, Hongmei Feng, Senfeng Zhang, Min He, Yinbing Tang, Lei Liu, Yu Lin, Quanquan Ji, Chuanxia Chen*, Chunlong Xu*, Chunyi Hu* . NAPTUNE: Nucleic acids and Protein Biomarkers Testing via Ultra-sensitive Nucleases Escalation. Nature Communications. 2024 (Accepted)
27. Ruochen Guo*, Xiaozhi Sun*, Feizuo Wang*, Dingyi Han*, Qiaoxia Yang, Hua Gao, Zhifang Li, Zhuang Shao, Jinqi Shi, Rongrong Yang Xiaona Huo, Junda Yan, Guoling Li, Qingquan Xiao, Yuanhua Liu, Senfeng Zhang, Xinyu Liu, Yingsi Zhou, Leyun Wang‡, Chunyi Hu‡, Chunlong Xu‡. Engineered IscB-ωRNA system with improved base editing efficiency for disease correction via single AAV delivery in mice. Cell Reports. 2024 DOI: 10.1016/j.celrep.2024.114973
26. Yao Liu, Senfeng Zhang, Chunyi Hu. Cas7 meets Cas14: A strategic partnership in the type VII CRISPR-Cas. Protein & Cell, 2024, https://doi.org/10.1093/procel/pwae056
25. Shengsheng Ma, Senfeng Zhang, Kunming Liu, Tao Hu, Chunyi Hu. Efficient, compact, and versatile: Type I-F2 CRISPR-Cas system. mLife (2024). https://doi.org/10.1002/mlf2.12145
24. Niannian Xue, Dishan Hong, Dan Zhang, Qian Wang, Shun Zhang, Lei Yang, Xi Chen, Yongmei Li, Honghui Han, Chunyi Hu, Mingyao Liu, Gaojie Song, Yuting Guan, Liren Wang, Yifan Zhu, Dali Li. Engineering IscB to develop highly efficient miniature editing tools in mammalian cells and embryos. Molecular Cell (2024). DOI:https://doi.org/10.1016/j.molcel.2024.07.007
23. Xian Shu, Rui Wang, Zhihua Li, Qiong Xue, Jiajun Wang, Jingfang Liu, Feiyue Cheng, Chao Liu, Huiwei Zhao, Chunyi Hu, Jie Li, Songying Ouyang & Ming Li. CRISPR-repressed toxin–antitoxin provides herd immunity against anti-CRISPR elements. Nature Chemical Biology (2024) DOI: https://doi.org/10.1038/s41589-024-01693-3
22. Senfeng Zhang, Shengsheng Ma, Feizuo Wang and Chunyi Hu. Dual Role of Phage Terminase in Salmonella Enterica Oxidative Stress Response. Engineering Microbiology. (Research highlights) https://www.sciencedirect.com/science/article/pii/S2667370324000158
21. Meiling Lu, Chenlin Yu, Yuwen Zhang, Wenjun Ju, Zhi Ye, Chenyang Hua, Jinze Mao, Chunyi Hu, and Zhenhuang Yang, Yibei Xiao. Structure and genome editing of type I-B CRISPR-Cas. Nature Communications. DOI: 10.1038/s41467-024-48598-2
20. Wenqi Sun*, Qianhua Dong*, Xueqing Li*, Jinxin Gao*, Xianwen Ye*, Chunyi Hu, Fei Li‡, and Yong Chen‡. The SUN-family protein Sad1 mediates heterochromatin spatial organization through interaction with histone H2A-H2B. Nature Communications. https://www.nature.com/articles/s41467-024-48418-7
19. Feizuo Wang, Shengsheng Ma, Senfeng Zhang, Quanquan Ji‡, Chunyi Hu‡. CRISPR Beyond: Harnessing Compact RNA-Guided Endonucleases for Enhanced Genome Editing. SCIENCE CHINA Life Sciences. (Impact factor: 9.1)
http://engine.scichina.com/doi/10.1007/s11427-023-2566-8
2023 (After joining NUS)
18. Tao Hu, Quanquan Ji, Xinxin Ke, Hufeng Zhou, Senfeng Zhang, Shengsheng Ma, Chenlin Yu, Wenjun Ju, Meiling Lu, Yu Lin, Yangjing Ou, Yingsi Zhou‡, Yibei Xiao‡, Chunlong Xu‡, Chunyi Hu‡. Repurpose Type I-A CRISPR-Cas3 for a Robust HPV Diagnosis. Communications Biology
https://www.nature.com/articles/s42003-024-06537-3
17. Zhifang Li, Ruochen Guo, Xiaozhi Sun, Guoling Li, Yuanhua Liu, Xiaona Huo, Rongrong Yang, Zhuang Shao, Hainan Zhang, Weihong Zhang, Xiaoyin Zhang, Shuangyu Ma, Yinan Yao, Xinyu Liu, Hui Yang, Chunyi Hu‡ (co-corresponding author), Yingsi Zhou‡, Chunlong Xu‡. Engineering transposon-associated TnpB-1 ωRNA system for efficient gene editing and disease treatment in mouse. Nature Communications. 2023 https://www.nature.com/articles/s41467-024-45197-z
16. Chunyi Hu*' #, Mason T Myers*, Xufei Zhou, Zhonggang Hou, Macy L Lozen, Yan Zhang‡, Ailong Ke‡. Exploiting Activation and Inactivation Mechanisms in Type IC CRISPR-Cas3 for Genome Editing Applications. Molecular Cell. 2023. https://doi.org/10.1016/j.molcel.2023.12.034
2022 (Before joining NUS)
15. Chunyi Hu*, Sam P. B. van Beljouw*, Ki Hyun Nam, Gabriel Schuler, Fran Ding, Yanru Cui, Alicia Rodríguez-Molina, Anna C Haagsma, Menno Valk, Martin Pabst, Stan J.J. Brouns‡, Ailong Ke‡. CRISPR Craspase is an RNA-guided, RNA-activated protease. Science. 2022. (10.1126/science.add5064)
14. Gabriel Schuler*, Chunyi Hu* (co-first author), Ailong Ke. Structural basis for RNA-guided DNA cleavage by IscB-ωRNA and the evolutionary connection with Cas9-crRNA-tracrRNA. Science. 2022. DOI: 0.1126/science.abq7220
13. Chunyi Hu, Dongchun Ni, Ki Hyun Nam, Sonali Majumdar, Justin McLean, Henning Stahlberg, Michael P Terns, Ailong Ke. Allosteric control of Type I-A CRISPR-Cas3 complexes and establishment as effective nucleic acid detection and human genome editing tools, Molecular Cell, 2022 10.1016/j.molcel.2022.06.007
12. Chunyi Hu; Ailong Ke ; Reconstitution and biochemical characterization of temperature dependent Cas3HEL-HD complex from Type I-A CRISPR–Cas system, Methods in Enzymology, 2022
2021
11. Chunyi Hu*, Cristóbal Almendros*, Ki Hyun Nam, Ana Rita Costa, Jochem NA Vink, Anna C Haagsma, Saket R Bagde, Stan JJ Brouns‡, Ailong Ke‡. Mechanism for Cas4-assisted directional spacer acquisition in CRISPR–Cas. Nature. 598, pages515–520 (2021)
10. Zhonggang Hou*, Chunyi Hu*(co-first author), Ailong Ke‡, Yan Zhang‡. (2021) Introducing long-range genomic deletions using CRISPR-Cas3 RNP in human pluripotent stem cells. Current Protocols in Molecular Biology.
9. Dongchun Ni*, Chunyi Hu*(co-first author), Ki Hyun Nam, Shi Feng, Henning Stahlberg, Michael P Terns, Ailong Ke. Structural Basis for DNA Interference and Mismatch Tolerance inside the Elongated Type I-A CRISPR-Cas3 Effector Complex, bioRXiv, 2022 (* co-first author)
2020
8. Jagat B. Budhathoki, Yibei Xiao, Gabriel Schuler, Chunyi Hu, Alexander Cheng, Fran Ding & Ailong Ke. (2020) Real-time observation of CRISPR spacer acquisition by Cas1-Cas2 integrase. Nature structural & molecular biology, 27, 489-499.
7. Alessandro Cicconi, Rekha Rai, Xuexue Xiong, Cayla Broton, Amer Al-Hiyasat, Chunyi Hu, Siying Dong, Wenqi Sun, Jennifer Garbarino, Ranjit S Bindra, Carl Schildkraut, Yong Chen‡, Sandy Chang‡. (2020) Microcephalin 1/BRIT1-TRF2 interaction promotes telomere replication and repair, linking telomere dysfunction to primary microcephaly. Nature communications, 11, 5861.
2019
6. Nan Fang, Chunyi Hu, Wenqi Sun, Ying Xu, Yeqi Gu, Le Wu, Qing Peng, Russel J Reiter, Lifeng Liu. (2019) Identification of a novel melatonin‐binding nuclear receptor: Vitamin D receptor. Journal of pineal research, 68 (1), e12618.
5. Chunyi Hu*, Haruna Inoue*, Wenqi Sun*, Yumiko Takeshita, Yaoguang Huang, Ying Xu, Junko Kanoh‡, Yong Chen‡. (2019) Structural insights into chromosome attachment to the nuclear envelope by an inner nuclear membrane protein Bqt4 in fission yeast. Nucleic acids research, 47, 1573-1584.
4. Chunyi Hu*, Haruna Inoue*, Wenqi Sun*, Yumiko Takeshita, Yaoguang Huang, Ying Xu, Junko Kanoh, Yong Chen. (2019) The Inner Nuclear Membrane Protein Bqt4 in Fission Yeast Contains a DNA-Binding Domain Essential for Telomere Association with the Nuclear Envelope. Structure, 27, 335-343 e333.
2017
3. Chunyi Hu*, Rekha Rai*, Chenhui Huang, Cayla Broton, Juanjuan Long, Ying Xu, Jing Xue, Ming Lei‡, Sandy Chang‡, Yong Chen‡. (2017) Structural and functional analyses of the mammalian TIN2-TPP1-TRF2 telomeric complex. Cell research, 27, 1485-1502.
2. Rekha Rai, Chunyi Hu, Cayla Broton, Yong Chen, Ming Lei, Sandy Chang. (2017) NBS1 Phosphorylation Status Dictates Repair Choice of Dysfunctional Telomeres. Molecular cell, 65, 801-817 e804.
2016
1. Yanjing Li, Jianming Han, Yuebin Zhang, Fang Cao, Zhijun Liu, Shuai Li, Jian Wu, Chunyi Hu, Yan Wang, Jin Shuai, Juan Chen, Liaoran Cao, Dangsheng Li, Pan Shi, Changlin Tian, Jian Zhang, Yali Dou, Guohui Li‡, Yong Chen‡, Ming Lei‡. (2016) Structural basis for activity regulation of MLL family methyltransferases. Nature, 530, 447-452.
Invited talks
Since 2022-Agust ~
20241113， @ NTU, IAS Frontiers conference on Genome Egineering
20240315， @ NUS, Department of Physiology
20240229, @ Duke-NUS, 2nd Singapore Structural Biology Symposium.
20230828, @ Nanyang Technological University (NTU), School of Biological Sciences.
20230428, @ mLife LIVE forum, 3226 audiences online
20221125, @ BioArt LIVE seminar, over 3000 audiences online
20221019, @ Genome Engineering Seminar Series, Harvard Medical School (HMS), Harvard University, US, via virtual zoom meeting.
202210, @ CryoEM facility supergroup meeting, Cornell University, US
202210, @ Invited speaker, Fudan University, China, via virtual zoom meeting.
202209 @ Invited speaker, Wuhan University, China, via virtual zoom meeting.
202208 @ National University of Singapore, Singapore, via virtual zoom meeting.