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
Veterinary Sciences
Shuyu Guo, Ge Gao, Cuizhen Zhang, Gang Peng
Summary: This study describes an efficient multiplexed genome editing strategy to generate zebrafish mutants and identified a new candidate gene for hearing loss through behavioral tests and histological examination.
VETERINARY SCIENCES
(2022)
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)
Article
Biochemistry & Molecular Biology
Qinan Cai, Dongmei Guo, Yujun Cao, Yuan Li, Rui Ma, Wenping Liu
Summary: The study successfully utilized Cas Phi 2 protein to perform genome modification in Arabidopsis and tobacco, resulting in the generation of mutant seedlings with expected phenotypes. The results demonstrate the effectiveness of Cas Phi 2 in editing target genes in the presence of Mg2+ ions. This highlights the significance of the CRISPR/Cas Phi 2 system in plant genome editing.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(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
Genetics & Heredity
Yen-Ho Chen, Shakuntala Sharma, William P. P. Bewg, Liang-Jiao Xue, Cole R. R. Gizelbach, Chung-Jui Tsai
Summary: The CRISPR-Cas9 system was used to perform precise mutagenesis in a tandem array of seven genes in Populus tremula x Populus alba. Efficient multiplex editing was achieved with a single guide RNA in 42 transgenic lines, resulting in a range of mutation profiles including small insertions/deletions, local deletions, large genomic rearrangements, and complex rearrangements. Target capture sequencing was used to analyze repair outcomes and reconstruct mutant alleles. This work demonstrates the power of CRISPR-Cas9 for generating diverse mutants with structural and copy number variations in tandemly duplicated genes.
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
Biochemical Research Methods
Jeong Sun Lee, Su-Ji Bae, Jin-Soo Kim, Changsoo Kim, Beum-Chang Kang
Summary: In this study, we optimized a system for predicting the activity of sgRNAs for genome editing in sorghum, which is efficient and straightforward. This system will reduce the time and effort required for sorghum genome editing.
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)
Article
Plant Sciences
Qingbin Chen, Ling Bai, Wenjing Wang, Huazhong Shi, Jose Ramon Botella, Qidi Zhan, Kang Liu, Hong-Quan Yang, Chun-Peng Song
Summary: COP1 regulates stomatal closure by promoting degradation of Clade A type PP2Cs in ABA signaling pathway, providing a new insight into the interaction between ABA and light signaling components in stomatal movement regulation.
Review
Biochemistry & Molecular Biology
Xiangqiang Zhan, Yuming Lu, Jian-Kang Zhu, Jose Ramon Botella
Summary: The CRISPR technology has significantly impacted plant biology and crop improvement, with developments ranging from gene disruption to precise editing techniques like base editing and gene targeting. Advances have also been made in using different CRISPR systems for gene transcription and epigenome control.
JOURNAL OF INTEGRATIVE PLANT BIOLOGY
(2021)
Article
Parasitology
Oyime Poise Aula, Donald Peter McManus, Michael Glenn Mason, Jose Ramon Botella, Catherine Amy Gordon
Summary: Researchers have optimized DNA dipstick technology to quickly purify Schistosoma japonicum DNA, successfully detecting it in various life stages and enabling on-site disease detection.
EXPERIMENTAL PARASITOLOGY
(2021)
Article
Plant Sciences
Karen Massel, Yasmine Lam, Jessica Hintzsche, Nicholas Lester, Jose R. Botella, Ian D. Godwin
Summary: Utilizing endogenous U6 promoters can enhance CRISPR/Cas9 editing efficiency in sorghum and may have potential applications for gene editing in other cereals.
PLANT CELL REPORTS
(2022)
Article
Plant Sciences
Yusen Zhou, Xiaomin Zhang, Jing Chen, Xiaopeng Guo, Hongyan Wang, Weibo Zhen, Junli Zhang, Zhubing Hu, Xuebing Zhang, Jose Ramon Botella, Toshiro Ito, Siyi Guo
Summary: In this study, we identified AHL9 as a positive regulator of leaf senescence in Arabidopsis thaliana. AHL9 accelerates leaf senescence through ethylene synthesis or signaling.
Article
Plant Sciences
Kun Li, Qianyun Jia, Jinggong Guo, Zhijuan Zhu, Mengying Shao, Jin Wang, Weiqiang Li, Jie Dai, Minghui Guo, Rui Li, Jieqiong Song, Fengbo Yang, Jingyi Du, Jose R. Botella, Chun-Peng Song, Yuchen Miao
Summary: Mutations in the GPX7 gene in plants lead to increased photo-bleaching under high light conditions, and GPX7 plays a crucial role in chloroplast function.
ENVIRONMENTAL AND EXPERIMENTAL BOTANY
(2022)
Article
Plant Sciences
Qing-Bin Chen, Wen-Jing Wang, Yue Zhang, Qi-Di Zhan, Kang Liu, Jose Ramon Botella, Ling Bai, Chun-Peng Song
Summary: Seed germination is regulated by multiple factors, including the phytohormone abscisic acid (ABA) and the light signal repressor COP1. Disruption of COP1 enhances the sensitivity of seeds to ABA, leading to increased levels of reactive oxygen species (ROS). COP1 is translocated to the cytoplasm upon ABA induction, resulting in increased nuclear localization of HY5 and ABI5 proteins and the upregulation of ABI5 target genes and ROS levels during ABA-mediated inhibition of seed germination.
PLANT CELL AND ENVIRONMENT
(2022)
Article
Plant Sciences
Chunjie Wei, Hao Liu, Wenwen Wang, Pengyu Luo, Qiuling Chen, Rou Li, Chong Wang, Jose Ramon Botella, Hui Zhang
Summary: Recently developed base editors have been proven to be a powerful tool for plant research and crop improvement. Researchers have fused a non-sequence-specific single-stranded DNA-binding domain (DBD) from the human Rad51 protein with Cas9 nickase and deaminase, resulting in dramatically increased editing efficiency and expanded editing window. This strategy has been successfully applied in rice, demonstrating improved editing range.
FRONTIERS IN PLANT SCIENCE
(2022)
Review
Plant Sciences
Yijie Wang, Jose Ramon Botella
Summary: As sessile organisms, plants have evolved mechanisms to adapt to environmental fluctuations. Heterotrimeric G proteins play essential roles in the response to stress in plants, regulating multiple signaling pathways. Understanding the functions of G proteins in stress reactions can contribute to the development of resilient crops and global food security.
Review
Plant Sciences
Jose R. Botella
Summary: Early detection of pests and pathogens is crucial for reducing agricultural losses. Point-of-care (POC) diagnostics, especially those based on nucleic acid amplification, have shown great potential in providing early warning and allowing prompt preventive measures. POC amplification technologies that do not require thermocycling offer high sensitivity and specificity. However, the success of POC amplification ultimately relies on the availability of POC-friendly nucleic acid extraction methods and amplification readouts.
ANNUAL REVIEW OF PHYTOPATHOLOGY
(2022)
Article
Plant Sciences
Zhengjing Zhang, Wenjie Zeng, Wenxin Zhang, Jing Li, Dali Kong, Lei Zhang, Rui Wang, Fangnan Peng, Zhe Kong, Yongping Ke, Heng Zhang, Chanhong Kim, Huiming Zhang, Jose Ramon Botella, Jian-Kang Zhu, Daisuke Miki
Summary: The study established a CRISPR/Cas9-mediated technique for heritable gene targeting in Arabidopsis, achieving precise GT using the sequential transformation method and obtaining vector-free GT plants. The research sheds light on the molecular mechanisms of CRISPR/Cas9-mediated GT in Arabidopsis and provides a broadly applicable technology for precise genome manipulation.
Article
Plant Sciences
Liangliang Li, Linxiao Li, Shenghui Cui, Dongdong Qian, Shijie Lyu, Wencheng Liu, Jose Ramon Botella, Huilin Li, David J. Burritt, Lam-Son Phan Tran, Weiqiang Li, Yu Zhang
Summary: Seed germination in Arabidopsis is regulated by ABA through the activation of PDC1 gene, which promotes fatty acid beta-oxidation and ROS accumulation, resulting in inhibition of seed germination.
ENVIRONMENTAL AND EXPERIMENTAL BOTANY
(2023)
Article
Biotechnology & Applied Microbiology
Yiping Zou, Michael Glenn Mason, Jose Ramon Botella
Summary: Amplification-based diagnostics is widely used in plant disease diagnostics due to its sensitivity, rapidness, and flexibility. However, there is a high demand for modules that can interpret amplification results rapidly, reliably, and easily in resource-limited settings. Therefore, we have developed a portable, low-cost, and easy-to-perform device named Dr. Diagnose, which allows users to accurately and unbiasedly read amplification reactions in a user-friendly manner.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY
(2023)
Article
Microbiology
J. M. Templeton, J. R. Botella, P. J. Blackall
Summary: This article describes the research on low cost, low technology POM assays in the field of food safety as applied to the poultry industries, and discusses the advantages and disadvantages of these assays.
MICROBIOLOGY AUSTRALIA
(2022)
Review
Biochemistry & Molecular Biology
Natsumi Maruta, Yuri Trusov, Alan M. Jones, Jose R. Botella
Summary: Plant G proteins consist of canonical G alpha subunits and unconventional XLG subunits, interacting with G beta gamma dimers and RGS protein, and participating in development, stress responses, and immunity. Despite the overall similarity between plant and animal G alpha subunits, they convey signals differently.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
