Article
Biochemistry & Molecular Biology
Ahmed K. Mahdi, Juan F. Medrano, Pablo J. Ross
Summary: We investigated the possibility of single-step genome editing in small ruminants using CRISPR-Cas9 zygote electroporation. We found that electroporation was more efficient than microinjection and successfully disrupted target genes in sheep and goat embryos.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Biochemical Research Methods
Stefan J. Tekel, Nicholas Brookhouser, Kylie Standage-Beier, Xiao Wang, David A. Brafman
Summary: The introduction of transient reporters of editing enrichment (TREE) has enabled highly efficient single-base editing of human cells using a transient episomal fluorescent reporter, allowing for rapid generation of clonal editing efficiencies exceeding 80% in biallelic or multiplexed edited isogenic human pluripotent stem cell lines within approximately 3-4 weeks.
Review
Agriculture, Dairy & Animal Science
Julia Popova, Victoria Bets, Elena Kozhevnikova
Summary: Genome editing has practical applications in farm animals, improving production traits, economic value, and disease resistance. It also has potential in biomedical research and drug production, as well as xenograft donors. Recent advancements in site-specific nucleases and embryological delivery methods have revolutionized transgenesis, providing efficient and reliable tools for genome engineering in agriculture.
Review
Biochemistry & Molecular Biology
Yulin Mu, Chengxiao Zhang, Taihua Li, Feng-Jie Jin, Yun-Ju Sung, Hee-Mock Oh, Hyung-Gwan Lee, Long Jin
Summary: Lactobacillus, important in food production and probiotics, can benefit from CRISPR/Cas9-based genome editing to improve strain efficiency and achieve traceless genome modification.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Agriculture, Dairy & Animal Science
Kamlesh Kumari Bajwa, Meeti Punetha, Dharmendra Kumar, Prem Singh Yadav, Chares R. Long, Naresh L. Selokar
Summary: In this study, the optimization of electroporation conditions allowed for successful editing of the ITGB2 gene in adult buffalo fibroblasts, achieving high editing efficiency. These electroporation conditions can be applied to various biotechnological research applications for buffalo genes.
ANIMAL BIOTECHNOLOGY
(2023)
Article
Microbiology
Xueli Zhang, Chaohui Zhang, Caijiao Liang, Bizhou Li, Fanmei Meng, Yuncan Ai
Summary: Bacteriophages, the most abundant organisms in the biosphere, have been sequenced extensively. However, the study of bacteriophage functional genomics has been hindered by a lack of effective research methods. This study designed a phage genome editing platform based on the CRISPR-Cas9 system, and successfully achieved gene editing in Vibrio natriegens phage TT4P2. This platform has the potential to advance research on phage gene diversity and accelerate the development of phage synthetic biology and nanotechnology.
MICROBIOLOGY SPECTRUM
(2022)
Review
Pharmacology & Pharmacy
Siwei Chen, Deng Chen, Bin Liu, Hidde J. Haisma
Summary: CRISPR/Cas9-mediated genome engineering has extensive applications in basic biology, biotechnology, and medicine. However, the low gene modification efficiency and uncontrollable prolonged Cas9 activity hinder its further use. Researchers have explored small molecules with clinical potential to precisely modulate CRISPR/Cas9 genome editing activity.
DRUG DISCOVERY TODAY
(2022)
Article
Environmental Sciences
Kaidi Jin, Baolu Zhang, Qianqian Jin, Zhongqiang Cai, Lei Wei, Xiaomei Wang, Yanxin Zheng, Baoyu Huang, Meiwei Zhang, Yitao Qi, Yaqiong Liu, Xiaotong Wang
Summary: This study attempted to deliver the CRISPR/Cas9 system into embryos of C. angulate by electroporation, demonstrating the feasibility of this method for gene editing in oysters.
FRONTIERS IN MARINE SCIENCE
(2021)
Review
Biochemistry & Molecular Biology
Min Ho Lee, Jae Il Shin, Jae Won Yang, Keum Hwa Lee, Do Hyeon Cha, Jun Beom Hong, Yeoeun Park, Eugene Choi, Kalthoum Tizaoui, Ai Koyanagi, Louis Jacob, Seoyeon Park, Ji Hong Kim, Lee Smith
Summary: This review highlights the current and potential use of CRISPR-Cas9 in the management of autoimmune diseases. Several studies have shown that CRISPR-Cas9 can be utilized for immunomodulation, reducing cholesterol, and treating rare diseases. However, there is limited research on the treatment of autoimmune diseases using CRISPR-Cas9.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Biotechnology & Applied Microbiology
Kristina J. Tatiossian, Robert D. E. Clark, Chun Huang, Matthew E. Thornton, Brendan H. Grubbs, Paula M. Cannon
Summary: This study found that CRISPR-Cas9 indel signatures can be used to identify gRNAs that maximize HDR outcomes, with the frequency of deletions resulting from MMEJ repair of at least 3 base pairs better predicts HDR frequency. Existing tools can be repurposed to identify gRNAs that promote HDR.
Article
Plant Sciences
Syed Inzimam Ul Haq, Dianfeng Zheng, Naijie Feng, Xingyu Jiang, Feng Qiao, Jin-Sheng He, Quan-Sheng Qiu
Summary: This review summarizes the advances of CRISPR/Cas9 technology in plant genome editing and discusses its applications in forage breeding, as well as the potential and challenges.
JOURNAL OF PLANT PHYSIOLOGY
(2022)
Article
Chemistry, Physical
Juhee Lee, Yoo Kyung Kang, Eonju Oh, Juhee Jeong, San Hae Im, Duk Ki Kim, Haeshin Lee, Sang-Gyu Kim, Keehoon Jung, Hyun Jung Chung
Summary: The study presents a cancer gene therapy strategy based on NanoRNP that efficiently blocks the PD-L1 immune checkpoint and induces an antitumor effect in vivo without the need for combination therapy. In vivo results demonstrate that NanoRNP can induce indels in target cells at high frequencies, significantly suppressing tumor growth.
CHEMISTRY OF MATERIALS
(2022)
Article
Multidisciplinary Sciences
Beate Rieblinger, Hicham Sid, Denise Duda, Tarik Bozoglu, Romina Klinger, Antonina Schlickenrieder, Kamila Lengyel, Krzysztof Flisikowski, Tatiana Flisikowska, Nina Simm, Alessandro Grodziecki, Carolin Perleberg, Andrea Bahr, Lucie Carrier, Mayuko Kurome, Valeri Zakhartchenko, Barbara Kessler, Eckhard Wolf, Lutz Kettler, Harald Luksch, Ibrahim T. Hagag, Daniel Wise, Jim Kaufman, Benedikt B. Kaufer, Christian Kupatt, Angelika Schnieke, Benjamin Schusser
Summary: Research on genetically modified animals has mostly focused on mice, but also includes species like pigs that are more physiologically similar to humans, and cross-species comparisons with phylogenetically distant species like chickens. CRISPR-Cas9 is a versatile genetic editing method applicable across various species. The successful generation of transgenic chickens and pigs that express Cas9 in all organs has confirmed the functionality of Cas9 across different target genes, cell types, and in vivo applications.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2021)
Article
Biotechnology & Applied Microbiology
Charles Wickham-Smith, Naglis Malys, Klaus Winzer
Summary: This study evolved C. necator to tolerate high concentrations of CO, both heterotrophically and autotrophically. Mutations in the genes cydA2B2 and hoxH were identified, and when engineered into the parental strain, they conferred high CO tolerance under both heterotrophic and autotrophic conditions.
FRONTIERS IN BIOENGINEERING AND BIOTECHNOLOGY
(2023)
Review
Biochemistry & Molecular Biology
Chao Zhang, Shanhe Liu, Xuan Li, Ruixuan Zhang, Jun Li
Summary: CRISPR/Cas-based genome editing technologies have revolutionized plant science by allowing precise manipulation of plant genomes. Virus-induced genome editing (VIGE) has emerged as a powerful method for delivering CRISPR/Cas reagents into plant cells, with high editing efficiency and simplified process. This article provides an overview of CRISPR/Cas-based genome editing and focuses on the VIGE systems, types of viruses used for CRISPR/Cas9 cassette delivery, recent applications, and challenges and potential of VIGE in plants.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Correction
Biotechnology & Applied Microbiology
Dongdong Zhao, Ju Li, Siwei Li, Xiuqing Xin, Muzi Hu, Marcus A. Price, Susan J. Rosser, Changhao Bi, Xueli Zhang
Summary: A revised version of this paper has been published, and readers can access it through the link provided in the original paper.
NATURE BIOTECHNOLOGY
(2021)
Article
Biotechnology & Applied Microbiology
Dongdong Zhao, Ju Li, Siwei Li, Xiuqing Xin, Muzi Hu, Marcus A. Price, Susan J. Rosser, Changhao Bi, Xueli Zhang
Summary: The study introduces novel glycosylase base editors (GBEs) that can induce C-to-A and C-to-G transversions in Escherichia coli and mammalian cells, respectively. The new editors exhibit high editing specificity and efficiency, making them potential tools for targeting G/C disease-causing mutations.
NATURE BIOTECHNOLOGY
(2021)
Correction
Biochemical Research Methods
Tao Zhan, Qian Chen, Chao Zhang, Changhao Bi, Xueli Zhang
ACS SYNTHETIC BIOLOGY
(2021)
Article
Biotechnology & Applied Microbiology
Tong Zhu, Die Yao, Di Li, Hongtao Xu, Shiru Jia, Changhao Bi, Jun Cai, Xinna Zhu, Xueli Zhang
Summary: The production of glycolate faces two challenges: the imbalance between NADPH and NADH in the glycolysis pathway, and the unfavorable carbon flux distribution between the tricarboxylic acid cycle and the glyoxylate shunt. Engineering solutions such as introducing specific enzymes and optimizing pathways can improve glycolate production yield and titer.
BIOTECHNOLOGY AND BIOENGINEERING
(2021)
Article
Biotechnology & Applied Microbiology
Li Liu, Pengju Wang, Dongdong Zhao, Li Zhu, Jinlei Tang, Wenchuan Leng, Junchang Su, Yan Liu, Changhao Bi, Xueli Zhang
Summary: Biomaterials, such as spider silk, have unique properties that make them highly valuable for next-generation applications. A new technique using circularized mRNA (cmRNA) has been developed to simplify the construction and expression of fibrous proteins, allowing for the production of large amounts of spider silk proteins with high efficiency and authenticity.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY
(2022)
Article
Chemistry, Multidisciplinary
Chao Yang, Xingxiao Dong, Zhenzhen Ma, Bo Li, Changhao Bi, Xueli Zhang
Summary: Base editing events in eukaryotes require a compatible chromatin environment, and this study investigates the contribution of chromatin factors to editing efficiency. The authors engineer base editors fused with various pioneer factors and find that SOX2 substantially increases editing efficiency. The study also demonstrates that the increased efficiency is likely associated with the induction of chromatin accessibility.
Article
Multidisciplinary Sciences
Ronghao Chen, Yu Cao, Yajing Liu, Dongdong Zhao, Ju Li, Zhihui Cheng, Changhao Bi, Xueli Zhang
Summary: In this study, the researchers used the Suntag system to recruit the transcription factor P65 and enhance the editing efficiency of prime editing. They found that recruiting P65 protein effectively improved the editing efficiency in both the PE3 and PE5 systems, which is likely associated with chromatin accessibility changes. Overall, this work provides a variety of methods to recruit and enhance the efficiency of prime editing systems.
NATURE COMMUNICATIONS
(2023)
Article
Multidisciplinary Sciences
Siwei Li, Jingjing An, Yaqiu Li, Xiagu Zhu, Dongdong Zhao, Lixian Wang, Yonghui Sun, Yuanzhao Yang, Changhao Bi, Xueli Zhang, Meng Wang
Summary: This study developed an automated high-throughput platform for efficient generation of cell disease models with pathogenic SNVs. A learning model was also developed to predict the performance of gene editing based on chromatin accessibility and context-sequence information. This work is expected to accelerate the development of gene therapies.
NATURE COMMUNICATIONS
(2022)
Article
Biochemical Research Methods
Li Liu, Wenbo Li, Ju Li, Dongdong Zhao, Siwei Li, Guo Jiang, Jie Wang, Xuxu Chen, Changhao Bi, Xueli Zhang
Summary: A more stable guide RNA (gRNA), called circular gRNA (cgRNA), was created using a biological technique. Compared to linear gRNA, cgRNA showed increased stability under all tested temperature conditions and maintained its function for 24 hours. By inserting a homologous arm, the circularization efficiency of cgRNA reached 88.2%, and the half-life of the resulting circularized cgRNA was similar to that of purified cgRNA.
ACS SYNTHETIC BIOLOGY
(2023)
Editorial Material
Biochemistry & Molecular Biology
Jie Yang, Dongdong Zhao, Xiagu Zhu, Yuanzhao Yang, Bo Li, Siwei Li, Chang-Hao Bi, Xue-Li Zhang
JOURNAL OF GENETICS AND GENOMICS
(2023)
Editorial Material
Biochemistry & Molecular Biology
Xuxu Chen, Dongdong Zhao, Xueting Hou, Ju Li, Shiming Pu, Jidong Fei, Siwei Li, Zuping Zhou, Changhao Bi, Xueli Zhang
JOURNAL OF GENETICS AND GENOMICS
(2023)
Article
Multidisciplinary Sciences
Chao Yang, Zhenzhen Ma, Keshan Wang, Xingxiao Dong, Meiyu Huang, Yaqiu Li, Xiagu Zhu, Ju Li, Zhihui Cheng, Changhao Bi, Xueli Zhang
Summary: Limited research has been conducted on concurrent C-to-G and A-to-G base editing. The authors show that HMGN1 enhances the efficiency of base editing and develop a CRISPR-based dual-function A-to-G and C-to-G base editor (GGBE) by fusing HMGN1 to GBE and ABE.
NATURE COMMUNICATIONS
(2023)
Article
Biochemical Research Methods
Tailin Wang, Jiwei Zhang, Liang Wei, Dongdong Zhao, Changhao Bi, Qingdai Liu, Ning Xu, Jun Liu
Summary: In this study, a CRISPR-mediated dual-deaminase base editing system named iSpider was developed for precise and high-throughput genomic manipulation in microorganisms. By weakening the DNA glycosylase-based repair pathway and tethering two copies of adenosine deaminase, the A-to-G editing efficiency was significantly improved. The iSpider system was successfully applied for multiplexed base editing and improving the performance of an inner membrane component called CymA. This study demonstrates that the iSpider system allows efficient base editing in a PAM-flexible manner, providing insights for the design of novel genomic tools for Shewanella engineering.
ACS SYNTHETIC BIOLOGY
(2023)
Article
Biotechnology & Applied Microbiology
Zhandong Wei, Dongdong Zhao, Jie Wang, Ju Li, Ning Xu, Chao Ding, Jun Liu, Siwei Li, Chunzhi Zhang, Changhao Bi, Xueli Zhang, Nicole R. Buan
Summary: A dual-functional system called T7-DualMuta has been created, which enables simultaneous C-to-T and A-to-G mutations in vivo. This system can be used for directed protein evolution and provides an efficient way for base conversions in target regions.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY
(2023)
Article
Multidisciplinary Sciences
Yidong Wu, Xiaoling Wan, Dongdong Zhao, Xuxu Chen, Yujie Wang, Xinxin Tang, Ju Li, Siwei Li, Xiaodong Sun, Changhao Bi, Xueli Zhang
Summary: The study demonstrates the successful restoration of visual functions in a mouse model of retinitis pigmentosa using base editing technology. The researchers propose a translational therapeutic solution for the treatment of retinitis pigmentosa in humans, which may accelerate the development of base-editing based gene therapies.
NATURE COMMUNICATIONS
(2023)
