Experimental Insights into the Interplay between Histone Modifiers and p53 in Regulating Gene Expression

“Experimental Insights into the Interplay between Histone Modifiers and p53 in Regulating Gene Expression”,Int. J. Mol. Sci.(impact factor 6.2)  3 July 2023.    https://doi.org/10.3390/ijms241311032    ▪ Hyun-Min Kim*, Xiaoyu Zheng and Ethan Lee. (*Correspondence)

CRISPR-Cas publication on IJMS (IF 6.2) Kim et al., 2022 Dec

A Decade of CRISPR-Cas Gnome Editing in C. elegans
by Hyun-Min Kim *ORCID,Yebin Hong and Jiani Chen
Division of Natural and Applied Sciences, Duke Kunshan University, Kunshan 215316, China
* Author to whom correspondence should be addressed.
Int. J. Mol. Sci. 2022, 23(24), 15863; https://doi.org/10.3390/ijms232415863
Received: 11 November 2022 / Revised: 5 December 2022 / Accepted: 5 December 2022 / Published: 14 December 2022  https://www.mdpi.com/1422-0067/23/24/15863 

杜克昆山大学Hyun Min Kim教授实验室招收硕士研究生、博士后、科研专家 Application for the Master of Science Program at Duke Kunshan University

杜克昆山大学Hyun Min Kim教授实验室招收硕士研究生、博士后、科研专家

Kim教授在杜克昆山大学的实验室,主要研究秀丽隐杆线虫 (C. elegans) 遗传和DNA损伤修复机制。

Hyun Min Kim 教授曾在哈佛医学院完成博士后的研究工作,在Nature、Cell等高水平学术期刊上发表数十篇学术论文。成功应聘者能在较短时间内发表高水平学术论文,并有机会到国外高水平学术机构继续深造。



Kim Lab网站:https://sites.duke.edu/kimlab/


由于Professor Kim为外籍全职在华教授,因此非常青睐有英语交流能力的学生,如果你的英语能力不强也不要担心,随着不断的练习你的英语能力也会有非常大的提升,这将对你今后的个人发展有非常大的助益。


Application for the Master of Science Program at Duke Kunshan University

Dear students,

We are recruiting Graduate students for the Master of Science program in my lab.


1. This program offers a degree from Duke therefore, you will receive a Duke degree in the USA after graduation. Duke is one of the top-class universities in the world. This is a three-year course for MS degree. Please find more details at the website


2. The program offers the world’s top-class level of faculties and education.

3. Duke Kunshan, located at Kushan Suzhou, provides a very modern and high-tech environment. Kunshan is a beautiful city located in Suzhou.

4. Once you get admitted, you may be eligible for the support of the full tuition fee.

5. You will be appointed to my lab and receive my research guidance. You are expected to work in the lab and to research for publication. Please find more information at Professor Kim lab https://sites.duke.edu/kimlab/

6. Application starts in August 2022. Since the schedule is very tight, you must prepare the application soon. Please see more details at https://globalhealth.dukekunshan.edu.cn

If you want to apply for the my lab for the MS study, e-mail your 1) transcript and 2) Resume/CV to me at  hm.kim@dukekunshan.edu.cn

FYI, we are also looking for Research Assistant.

Histone demethylase AMX-1 publication on Frontiers in Genetics. Ren et al., 2022 June

Histone demethylase AMX-1 regulates fertility in a p53/CEP-1 dependent manner, 2022,   Xiaojing Ren, Sisi Tian, Qinghao Meng, Hyun-Min Kim*. 



People in the lab

Hyun M Kim

Hyun M Kim, Lab head




Wang Mingyao

Wang Mingyao, Research fellow (2023 Aug-)





Christine Xiaoyu Zheng

Christine Xiaoyu Zheng, Research Fellow (2022 Dec-)





Qinghao Meng, Ph.D student 2021






Ren Xiaojing, Master student 2020






Chutian Chen, undergraduate (DKU)






Ethan Lee, Undergraduate (Duke)






Yebin Hong, undergraduate (DKU)







Semin Kim, undergraduate (DKU)







Jiani Chen, undergraduate (DKU)






Xinyue Liu, undergraduate (DKU)






Don Yunyi, Undergraduate






Xiaojuan Zhang, Master student 2018, TJU







Wang Shouyue, TJU master student 2018- 2019, Binzhou Medical University 滨州医学院






Tian Sisi, TJU master student 2017, BS degree at Southwest University






Inessa Arif, Exchange student for Summer 2019, University of Queensland, Australia





Yang Xinyi, Undergraduate student 2019, TJU





Cui Qingmei, Undergraduate student 2019, TJU




Pei Rui, TJU Undergraduate student 2019, Current: Zhejiang University




Chen Jingjie, TJU Undergraduate student 2019



Nishit Pathak, TJU Post-doc Aug 2018 – Feb 2019



Hoo Jingyi, TJU Undergraduate assistant student 2018






Cao Hang, , TJU Undergraduate student 2018, Assistant student 2017-18



Lab Resources

PDF resources 

Google Calendar – Kim lab

Kim lab publications

HD review papers

C. elegans movie files

Mirror site






Worm Stock Center (CGC)


Monica lab (Harvard Medical School)


Summer Research

Kim lab supports Summer research students. Students who want to work in the lab are encouraged to contact me.

Summer Journal Club

We organizes Summer Journal clubs for the students. Due to the pandemic spread, we currently operate online presentations only.    Journal clubs start at 8:30 PM to include students located in foreign countries. Please find the presentation materials at either the links site or MS-teams.

Weekly Presentation: Thursday 8:30-9:30pm. Shanghai time

Join Zoom Meeting https://duke.zoom.us/j/6866647729?pwd=T0dSanhFTXV0V2FJMTE0SDNPZTZLUT09

PDF resources  https://people.dukekunshan.edu.cn/~hk284/Papers 

Bioscience Data Club

Kim lab organizes Bioscience Data Club since 2018. This is a monthly meeting aimed for the departmental seminar among Bioscience oriented laboratories. Presenters will discuss their research to assist any scientific issue. All students and faculties are welcome. For more information,  contact me or my students on the ‘people’ link. Free snacks and beverages served.

Research Focus

Tons of damages from various sources hampering DNA every day and therefore repairing DNA damages is the fundamental mechanism for the adequate maintenance of genome stability. We are interested in understanding the DNA repair mechanism in the germline. We have focused on investigating the epigenetic regulation of DNA damage response and repair. This includes the role of conserved Epigenetic regulators in DNA damage repair and the role of novel genes of DNA repair and damage response.

We are recruiting hard-working students Students interested in working in Genetics or Molecular biology in my lab, send an E-mail to me.


▪ Hyun-Min Kim*, Yebin Hong and Jiani Chen. “A Decade of CRISPR-Cas Gnome Editing in C. elegans”, IJMS (impact factor 6.2) 23, no. 24: 15863. 2022 Dec 14. (*Correspondence).

▪ Xiaojing Ren, Sisi Tian, Qinghao Meng, Hyun-Min Kim*. Histone demethylase AMX-1 regulates fertility in a p53/CEP-1 dependent manner, Frontiers in Genetics (impact factor 4.772). 2022 June 30.

▪ Xiaojuan Zhang, Sisi Tian, Sara E. Beese-Sims, Jingjie Chen, Nara Shin, Monica P. Colaiácovo and Hyun-Min Kim*. Histone demethylase AMX-1 is necessary for intercrosslink repair. July 2021. PLOS Genetics. (*Correspondence).

▪ Hyun-Min Kim* and Xiaojuan Zhang. Design of repair templates for CRISPR-Cas9-triggered homologous recombination in Caenorhabditis elegansCRISPR-Cas methods,  volume2, Springer Nature. July 2021. Editors: M. Tofazzal Islam and Kutubuddin A Molla,(*Correspondence).

▪ Kim*, H., Tian, S. & Wang, S. An affordable plasmid miniprep suitable for proficient microinjection in Caenorhabditis elegans. 3 Biotech 2020 Aug;10(8):350. doi: 10.1007/s13205-020-02346-7. Epub 2020 Jul 22.  (*Correspondence).    

▪ Kim*, H.-M., & Colaiácovo*, M. P. (2019). CRISPR-Cas9-guided genome engineering in caenorhabditis elegans. Current Protocols in Molecular Biology, Sept 24 129, e106. doi: 10.1002/cpmb.106   (*Co-Correspondence).

▪ Hyun-Min Kim, Sara Beese-Sims and Monica Colaiácovo: Fanconi Anemia FANCM/FNCM-1 and FANCD2/FCD-2 are required for maintaining histone methylation levels and interact with the histone demethylase LSD1/SPR-5 in C. elegans. GENETICS/2018/300823R1. Highlighted and displayed in the carousal.

▪ Nuria Ferrandiz, Consuelo Barroso, Oana Telecan, Hyun-Min Kim, Sarah Testori, Peter Faull, Pedro Cutillas, Bram Snijders, Monica P. Colaiacovo and Enrique Martinez-Perez: Spatiotemporal regulation of Aurora B recruitment ensures two-step release of cohesion during meiosis. Nature Communications. 2018 Feb 26;9(1):834. doi: 10.1038/s41467-018-03229-5.

▪ Nottke, A, Kim H.M. and Colaiacovo, M.P.: Wrestling with chromosomes: The roles of SUMO during meiosis. In SUMO regulation of cellular processes (ed, V.G Wilson). Adv Exp Med Biol15 February 2017;v963:185-196. doi: 10.1007/978-3-319-50044-7_11. Springer Publishing.

▪ Gao J, Barroso C, Zhang P, Kim HM, Li S, Labrador L, Lightfoot J, Gerashchenko MV, Labunskyy VM, Dong MQ, Martinez-Perez E, Colaiácovo MP.: N-terminal acetylation promotes synaptonemal complex assembly in C. Elegans. Genes and Development 30(21):2404-2416 · November 2016

▪ Kim HM and Colaiácovo MP. CRISPR-Cas9-guided Genome Engineering in C. elegans. 2016. Current Protocols in Molecular Biology. Wiley Online Library.

▪ Norris AD*, Kim HM*, Colaiácovo MP# and Calarco JA#. Efficient Genome Editing in Caenorhabditis elegans with a Toolkit of Dual Marker Selection Cassettes. 2015 Aug GENETICS. (*Co-first author, #Co-correspondence)

▪ Kim HM* and Colaiácovo MP*. DNA damage sensitivity assays in Caenorhabditis elegans. Bio-protocol (ISSN: 2331-8325), 2015 Mar. (*Co-correspondence)

▪ Kim HM and Colaiácovo MP. New Insights into the Post-Translational Regulation of DNA Damage Response and Double-Strand Break Repair in Caenorhabditis elegans. GENETICS. 2015 Jun;200(2):495-504.

▪ Gao J, Kim HM, Elia AE, Elledge SJ, Colaiácovo MP. NatB domain-containing CRA-1 antagonizes hydrolase ACER-1 linking Acetyl-CoA metabolism to the initiation of recombination during C. elegans meiosis. PLOS Genetics, 2015 Mar 11(3):e1005029.

▪ Kim HM and Colaiácovo MP. ZTF-8 interacts with the 9-1-1 complex and is required for DNA damage response and double-strand break repair in the C. elegans germline. PLOS Genetics, 2014 Oct 10(10): e1004723.

▪ Lu T, Aron L, Zullo J, Pan Y, Kim H, Chen Y, Yang TH, Kim HM, Drake D, Liu XS, Bennett DA, Colaiácovo MP, Yankner BA. ‘REST and stress resistance in ageing and Alzheimer’s disease’, Nature, 2014 Mar 27;507(7493):448-54.

▪ Saito TT, Lui DY, Kim HM, Meyer K, Colaiácovo MP. ‘Interplay between Structure-Specific Endonucleases for Crossover Control during Caenorhabditis elegans Meiosis’,  PLOS Genetics, 2013 Jul;9(7):e1003586.

▪ Sengupta MS, Low WY, Patterson JR, Kim HM, Traven A, Beilharz TH, Colaiacovo MP, Schisa JA and Boag PR, ‘ifet-1 is a broad scale translational repressor required for normal P granule formation in C. elegans’,  J Cell Sci, 2013 Feb 1;126(Pt 3):850-9.

▪ Waisertreiger IS, Liston VG, Menezes MR, Kim HM, Lobachev KS, Stepchenkova EI, Tahirov TH, Rogozin IB and Pavlov YI, ‘Modulation of mutagenesis in eukaryotes by DNA replication fork dynamics and quality of nucleotide pools’,  Environ Mol Mutagen, Oct 2012, vol.53, pp.699-724

▪ Tang W, Dominska M, Greenwell PW, Harvanek Z, Lobachev KS, Kim HM, Narayanan V, Mirkin SM and Petes TD, ‘Friedreich’s ataxia (GAA)n(TTC)n repeats strongly stimulate mitotic crossovers in Saccharomyces cerevisae’, PLOS   Genetics, Jan 2011, vol.7, pp.e1001270

▪ Kim HM, Narayanan V, Mieczkowski PA, Petes TD, Krasilnikova MM, Mirkin SM and Lobachev KS, ‘Chromosome fragility at GAA tracts in yeast depends on repeat orientation and requires mismatch repair’,  EMBO Journal, Nov 2008, vol.27, pp.2896-906

▪ Narayanan V, Mieczkowski PA, Kim HM, Petes TD and Lobachev KS, ‘The pattern of gene amplification is determined by the chromosomal location of hairpin-capped breaks’, Cell, Jun 2006, vol.125, pp.1283-96

▪ Kim HM, Ohn TB, Min BR and Choi YK, ‘Sequence analysis and insertional inactivation of a gene encoding Moraxella sp. CK-1 cell wall hydrolase’, Antonie Van Leeuwenhoek, June 2001, vol.79, pp.163-71


AMX-1 publication on PLOS Genetics Zhang et al., 2021



CRISPR-Cas publication 2021-5-27

CRISPR-Cas Publication accepted in Springer Nature publisher.

▪ Hyun-Min Kim* and Xiaojuan Zhang. Design of repair templates for CRISPR-Cas9-triggered homologous recombination in Caenorhabditis elegansCRISPR-Cas methods,  volume2, Springer Nature. Jul 2021  (*Correspondence). Editors: M. Tofazzal Islam and Kutubuddin A Molla