|
|
|
| Visualization Analysis of CRISPR Gene-editing Knowledge Map Based on CiteSpace |
| GAO Can1,2, WANG Rui2, ZHANG Lin3, YUE Chang-wu1 |
1. Key Laboratory of Microbial Drugs Innovation and Transformation, Medical College, Yan'un University, Yan'an Shanxi 716000, China;
2. Non-coding RNA and Drug Discovery Key Laboratory of Sichuan Province, Chengdu Medical College, Chengdu Sichuan 610050, China;
3. Department of Pharmacy, Shaoxing People's Hospital, Shaoxing Hospital, Zhejiang University School of Medicine, Shaoxing Zhejiang 312000, China |
|
|
|
|
Abstract CRISPR is an adaptive immune defense system found in bacteria and archaea that is resistant to heterologous invasive genetic material. Later studies showed that the CRISPR system can be used for gene editing. This study used the Web of Science database as a search object, then visually analyzed the literature related to CRISPR gene-editing technology with CiteSpaceV. The results show that publications had increased year by year. USA ranked first in terms of publications, China is second, but the centrality is very low. Doudna JA and Zhang F have made outstanding contributions. There are close connections between the intermnal institutions of the various states, but there are few links between the states. The hot spot and frontier are the application of CRISPR in animals, plants, detection, diagnosis, and clinical treatment.
|
|
Received: 15 June 2021
|
|
Corresponding Authors:
YUE Chang-wu. E-mail: changwuyue@126.com
|
|
|
|
[1] Keeney S, Giroux CN, Kleckner N.Meiosis-specific DNA double-strand breaks are catalyzed by spol 1, a mem-ber of a widely conserved protein family[J]. Cell, 1997, 88(3): 375-384.
[2] Le Cong, F Ann Ran, David Cox, et al. Multiplex genome engineering using CRISPR/Cas Systems[J]. Science, 2013, 339(6121): 819-823.
[3] Heler R, Marraffini LA, Bikard D.Adapting to new threats: the generation of memory by CRISPR-Cas immune systems[J]. Molecular Microbiology, 2014, 93(1): 1-9.
[4] Joshua Carter, Blake Wiedenheft.SnapShot: CRISPR-RNA-guided adaptive immune systems[J]. Cell, 2015, 163(1): 260.
[5] Hélène D, Rodolphe B, E GJ, et al. Phage response to crispr-encoded resistance in streptococcus thermophilus[J]. Journal of Bacteriology, 2007, 190(4): 1390-1400.
[6] Chen C.Citespace II: detecting and visualizing emerging trends and transient patterns in scientific literature[J]. Jourmal of the American Society for Information Science and Technology, 2006, 57(3): 359-377.
[7] Kardkovács ZT, Kovács G.Finding sequential patterns with Tf-idf metrics in health-care databases[J]. Acta Universitatis Sapientiae, Informatica, 2015, 6(2): 287-310.
[8] Jon Kleinberg. Bursty and hierarchical structure in streams[J]. Data Mining and Knowledge Discovery, 2003, 7: 373-397.
[9] Sun Jinsong, Zheng Yanning, Yuan Fang.A comparative study of CRISPR Cas in China and the United States based on the analysis of this paper[J]. Outlook on Global Science and Technology Economy, 2019, 34(1): 41-47.
[10] Martin J, Krzysztof C, Ines F, et al. A programmable dual-RNA-guided DNA endonuclease in adaptive bacterial immunity[J]. Science, 2012, 337(6096): 816-821.
[11] Ann RF, D HP, Jason W, et al. Genome engineering using the crispr-cas9 system[J]. Nature Protocols, 2013, 8(11): 2281-2308.
[12] Hsu PD, Lander ES, Zhang F.Development, and applications of crispr-cas9 for genome engineering[J]. Cell, 2014, 157(6): 1262-1278.
[13] A DJ, Emmanuelle C. Genome editing. the new frontier of genome engineering with crispr cas9[J]. Science, 2014, 346(6213): 1225829.
[14] Hsu PD, Scott DA, Weinstein JA, et al. DNA targeting specificity of RNA-guided Cas9 nucleases[J]. Nature Biotechnology, 2013, 31(9): 827-832.
[15] Hsu PD, Scott DA, Weinstein JA, et al. One-step generation of mice carrying mutations in multiple genes by crispr/cas-mediated genome engineering[J]. Cell, 2013, 153(4): 910-918.
[16] Gaj T, Gersbach CA, Barbas CF. Zfn, Talen, Crispr/cas-based Methods for genome engineering[J]. Trends in Biotechnology, 2013, 31(7): 397-405.
[17] Qi LS, Larson MH, Gilbert LA, et al. Repurposing Crispr as an RNA-guided platform for sequence-specific control of gene expression[J]. Cell, 2013, 152(5): 1173-1183.
[18] Zhao Runzhou, Xu Xigu.Visualization analysis of CRISPR Cas genome editing technology based on bibliometrics[J]. Journal of Medical Graduate Students, 2016, 29(6): 639-644.
[19] Jane HQ.Information measurement and analysis of biomedical research hotspots [D]. Nanjing University, 2019.
[20] Liu Qi.Research on the development of genomic editing technology based on literature[J]. Science and Technology and Innovation, 2019(10): 37-39.
[21] Sun Dan, Longhua Yang, Zhuang Yinghua, et al. Construction of syncytin a conditioned knockout mice with CRISPReas9[J]. Journal of Experimental Animal Science, 2015, 32(5): 1-6.
[22] Cheng Cheng, Wu Qian, Lu Jing, et al. Efects of RFX6 on pancreatic development of zebrafish based on CRISPRCas9[J]. Journal of Capital Medical University, 2015, 36(6): 844-847.
[23] Yin Zhi, Yuan Xuewei, Iv Jiawei, et al. One-step embryo injection with CRISPR/Cas9 system to get pig GCTA1 knockout embryos[J]. Animal Husbandry & Veterinary, 2016, 48(4): 15-18.
[24] Liu Jing, Pan Qiuzhen, Zhao Wenbo, et al. Targeting rabbit Myostatin gene by CRISPR/Cas9 technique[J]. Journal of Heilongjiang Bayi Agricultural University, 2015, 27(6): 24-27.
[25] Gao C.Targeted genome editing in crop plants using a CRISPR/Cas system[J]. Science Foundation in China, 2013(2): 16.
[26] Wenzhi J, Huanbin Z, Honghao B, et al. Demonstration of Crispr/cas9/sgma-mediated targeted gene modification in arabidopsis, tobacco, sorghum and rice[J]. Nucleic Acids Research, 2013, 41(20): 188-197.
[27] Liu Zaoli, Chen Yahong, Wang Chuntai, et al. Construction of candidate gene CRISPR/Cas9 knockout vector for new rice blast resistance gene[J]. Chinese Agricultural Science Bulletin, 2016, 32(6): 91-95.
[28] Makarova KS, Zhang F, Koonin EV.Snapshot: class 2 crispr-cas systems[J]. Cell, 2017, 168(1): 328.
[29] Harringto LB, David B, Chen JS, et al. Programmed DNA destruction by miniature crispr-cas14 enzymes[J]. Sci-ence, 2018, 362(6416): 839-842.
[30] Jun-Jie Liu, Natalia o, Oakes BL, et al. Casx enzymes comprise a distinct family of rna-guided genome editors [J]. Nature, 2019, 566(7743): 218-223.
[31] Prajit Limsirichai, Thomas Gaj, V Schaffer-David. CRISPR-mediated activation of latent HIV-1 expression[J]. Molecular Therapy, 2016, 24(3): 499-507.
[32] Yang HC, Lin SR, Liu CJ, et al. P174 The CRISPR/Cas9 system facilitates elimination of the persistent intrahepatic hbv genomes in vivo[J]. Jourmal of Hepatology, 2014, 60(1): S124.
[33] Wang Jie, Xu Zhongwei, Liu Shuang, et al. Dual gRNAs guided CRISPR/Cas9 system inhibits hepatitis B virus replication[J]. World Jourmal of Gastroenterology, 2015(32): 9554-9565.
[34] Russell TA, Stefanovic T, Tscharke DC.Engineering herpes simplex viruses by infection-transfection methods including recombination site targeting by Crispr/cas9 nucleases[J]. Journal of Virological Methods, 2015, 213:18-25.
[35] Aotian Xu, Chao Qin, Yue Lang, et al. A simple and rapid approach to manipulate pseudorabies virus genome by CRISPR/Cas9 system[J]. Biotechnology Letters, 2015, 37(6): 1265-1272.
[36] Bang Shen, Brown KM, Lee TD, et al. Eficient gene disruption in diverse strains of Toxoplasma gondii using CRISPR/CAS9[J]. Microbiology, 2014, 5(3): e01114-14.
[37] Noelia Lander, Li Zhuhong, Sayantanee Niyogi, et al. CRISPR/Cas9-induced disruption of paraflagellar rod protein 1 and 2 genes in trypanosoma cruzi reveals their role in flagellar attachment[J]. mBio, 2015, 6(4): e01012-15.
[38] An Dingjie, Kang Yuanhuan, Chen Long, et al. Application of CRISPR/Cas9 gene editing technology in pathogenic microorganisms[J].Chinese Journal of Zoonoses, 2017, 33(3): 280-286.
[39] Yuxuan W, Dan L, Yinghua W, et al. Correction of a Genetic Disease in Mouse Via Use of Crispr-cas9[J]. Cell Stem Cell, 2013, 13(6): 659-662.
[40] Sun Zhaoqing, Yan Bo. Research progress of CRISPR/Cas9 gene editing technology in cardiovascular field[J]. Basic Medicine and Clinic, 2019, 39 (6): 890-894.
[41] Nguyen-vi Mohamed, Frederique Larroquette, K Beitel-Lenore, et al. One Step into the future: New iPSC tools to advance research in parkinson's disease and neurological disorders[J]. Journal of Parkinson's disease, 2019, 9(Suppl 2):1-17.
[42] Junjie Wu, Marie Jordan, J Waxman-David. Metronomic cyclophosphamide activation of anti-tumor immunity: tumor model, mouse host, and drug schedule dependence of gene responses and their upstream regulators[J]. BMC Cancer, 2016, 16: 623.
[43] WeipingZ, D WJ, Lieping C. Pd-l1 (b7-h1) and Pd-1 pathway blockade for cancer therapy: Mechanisms, response biomarkers, and combinations[J]. Science Translational Medicine, 2016, 8(328): 328.
[44] Sebastien Anguille, L Smits-Evelien, Christian Bryant, et al. Dendritic cells as pharmacological tools for cancer immunotherapy[J]. Pubmed, 2015, 67(4): 731-753.
[45] J Aubrey-Brandon, L Kelly-Gemma, J Kueh-Andrew, et al. An inducible lentiviral guide RNA platform enables the identification of tumor-essential genes and tumor-promoting mutations in vivo[J]. Pubmed, 2015, 10(8): 1422-1432.
[46] Ran FA, Le Cong, Yan WX, et al. In vivo genome editing using staphylococcus aureus Cas9[J]. Nature, 2015, 520(7546): 186-191.
[47] Maeder ML, Michael S, Christopher JW, et al. Development of a gene-editing approach to restore vision loss in Leber congenital amaurosis type 10[J]. Nature Medicine, 2019, 25(2): 229-233.
[48] Manizheh N, Mohammadreza S, Saeed HM, et al. Birc5 gene disruption via crispr/cas9n pltform suppress acute myelocytic leukemia progression[J]. Iranian Biomedical Journal, 2019, 23(6): 369-378.
[49] Yan-Xiang C, Gan-tao C, Xiao Y, et al. Effects of Hpv pseudotype virus in cutting E6 gene selectively in Siha cells[J]. Current Medical Science, 2018, 38(2): 212-221.
[50] Yuchen L, Yayue Z, Li L, et al. Synthesizing and gate genetic circuits based on crispr-cas9 for identification of bladder cancer cells[J]. Nature Communications, 2014, 5: 5393.
[51] Wang Xuelian.CRISPR-Cas9 gene editing and treatment of HPV58 positive cervical cancer C33A cells[D]. Shandong University, 2019.
[52] M BK, Cheng-yu T, P AF, et al. Copper transporters and chaperones Ctr1, Ctr2, Atox1, and Ccs as determinants of cisplatin sensitivity[J]. Metallomics: Integrated Biometal Science, 2016, 8(9): 951-962.
[53] Yunfei L, Lulu C, Yong F, et al. Targeting programmed cell death ligand 1 by crispr/cas9 in osteosarcoma cells [J]. Oncotarget, 2017, 8(18): 30276-30287.
[54] Chaogang W, Fengjiao W, Wei L, et al. Crispr/cas9 targeting of the androgen receptor suppresses the growth of Lncap human prostate cancer cells[J]. Molecular Medicine Reports, 2018, 17(2): 2901-2906.
[55] Adi Nagler, W Vredevoogd-David, Michal Alon, et al. A genome-wide CRISPR screen identifies FBX042 involvement in resistance toward MEK inhibition in NRAS-mutant melanoma[J]. Pigment Cell & Amp; Melanoma Research, 2020, 33(2): 334-344.
[56] Zhao Xiao, Liu Liang, Lang Jiayan, et al. A CRISPR-Cas13a system for efficient and specific therapeutic targeting of mutant KRAS for pancreatic cancer treatment[J]. Elsevier B.V., 2018, 431: 171-181.
[57] Emma Haapaniemi, Sandeep Botlal, Jenna Persson, et al. CRISPR-Cas9 genome editing induces a p53mediated DNA damage response[J]. Nat Med, 2018, 24(7):927-930.
[58] hry RJ, Worringer KA, Salick MR, et al. p53 inhibits CRISPR-Cas9 engineering in human pluripotent stem cells[J]. Nature Medicine, 2018, 24: 939-946.
[59] Nelles DA, Fang MY, O'Connell MR, et al. Programmable Rna tracking in live cells with crisprcas9[J]. Cell, 2016, 165(2): 488-496.
[60] Wulan Deng, Xinghua Shi, Robert Tjian, et al. CASFISH: CRISPR/Cas9-mediated in situ labeling of genomic loci in fixed cells[J]. Proceedings of the National Academy of Sciences of the United States of America, 2015, 112(38): 11870-11875.
[61] J Kellner-Max, G Koob-Jeremy, S Gootenberg-Jonathan, et al. SHERLOCK: nucleic acid detection with CRISPR nucleases[J]. Nature Protocols, 2019, 14(10): 2986-3012.
[62] Joung J, Ladha A, Saito M, et al. Detection of SARS-CoV-2 with SHERLOCK one-pot testing[J] The New England Journal of Medicine, 2020, 383(15):1492-1494.
[63] A Freije-Catherine, Cameron Myhrvold, K Boehm-Chloe, et al. Programmable inhibition and detection of RNA viruses using Cas13[J]. Molecular Cell, 2019, 76(5): 826-837.
[64] Yang Liangzhong, Wang Yang, Chen Lingling.CRISPR-Cas13 system and RNA labeling in living cells[J]. Chemistry of Life, 2020, 40(1): 1-7.
[65] Li Yue, Li Jinghong.Bioanalytical chemistry technology based on CRISPR[D. Advances in Chemistry, 2020(1): 1-9. |
|
|
|
