Article
Biotechnology & Applied Microbiology
Dieter K. K. Lam, Patricia R. R. Feliciano, Amena Arif, Tanggis Bohnuud, Thomas P. P. Fernandez, Jason M. M. Gehrke, Phil Grayson, Kin D. D. Lee, Manuel A. A. Ortega, Courtney Sawyer, Noah D. D. Schwaegerle, Leila Peraro, Lauren Young, Seung-Joo Lee, Giuseppe Ciaramella, Nicole M. M. Gaudelli
Summary: This study presents a new type of CBEs that utilize engineered variants of TadA to achieve efficient G->A mutations in a sequence-diverse set of genomic loci. These editors exhibit robust activity in primary cells and do not result in elevated genome-wide mutation rate.
NATURE BIOTECHNOLOGY
(2023)
Article
Multidisciplinary Sciences
Shuqian Zhang, Liting Song, Bo Yuan, Cheng Zhang, Jixin Cao, Jinlong Chen, Jiayi Qiu, Yilin Tai, Jingqi Chen, Zilong Qiu, Xing-Ming Zhao, Tian-Lin Cheng
Summary: The authors engineered Cas12f-derived miniCBEs and improved miniABEs, which were used to correct pathogenic mutations in cell lines and introduce mutations in vivo. This study provides alternative strategies for CBE development, expands the toolkits of miniCBEs and miniABEs, and offers promising therapeutic tools for clinical applications.
NATURE COMMUNICATIONS
(2023)
Article
Multidisciplinary Sciences
Shuqian Zhang, Bo Yuan, Jixin Cao, Liting Song, Jinlong Chen, Jiayi Qiu, Zilong Qiu, Xing-Ming Zhao, Jingqi Chen, Tian-Lin Cheng
Summary: The study demonstrates that 25 engineered TadA orthologs can generate functional ABEs, CBEs, or ACBEs with minimized off-target effects through single/double mutations. It is found that cytidine and adenosine deaminases are required for cytosine and adenine editing, respectively, and no single deaminase can enable concurrent editing of both bases. Additionally, distinct properties of cytidine and adenosine deaminases lead to different types of off-target effects.
NATURE COMMUNICATIONS
(2023)
Article
Multidisciplinary Sciences
Niannian Xue, Xu Liu, Dan Zhang, Youming Wu, Yi Zhong, Jinxin Wang, Wenjing Fan, Haixia Jiang, Biyun Zhu, Xiyu Ge, Rachel V. L. Gonzalez, Liang Chen, Shun Zhang, Peilu She, Zhilin Zhong, Jianjian Sun, Xi Chen, Liren Wang, Zhimin Gu, Ping Zhu, Mingyao Liu, Dali Li, Tao P. Zhong, Xiaohui Zhang
Summary: By fusing Rad51 DNA-binding domain, hyperactive ABE and dual base editors were generated to improve the efficiency of A-to-G and A/C conversions.
NATURE COMMUNICATIONS
(2023)
Article
Chemistry, Physical
Saptarshi Saha, Amit Acharya, Gerald J. Wang
Summary: This paper introduces a new algorithm, called the topology-accommodating direction assignment (TADA) algorithm, which can identify topological defects in liquid crystalline materials. By assigning a unique vector to each mesogen, the concept of the liquid crystal director field is extended to the scale of mesogens. The algorithm identifies line segments along which this assigned vector field is discontinuous, with the defects located at the termination points of these line segments, and can identify the mere presence of defects by searching far away from them.
JOURNAL OF CHEMICAL THEORY AND COMPUTATION
(2023)
Article
Biochemistry & Molecular Biology
Daqi Yan, Bin Ren, Lang Liu, Fang Yan, Shaofang Li, Guirong Wang, Wenxian Sun, Xueping Zhou, Huanbin Zhou
Summary: The study investigated the activities of three evolved E. coli adenosine deaminase TadA variants in transgenic rice, revealing that TadA8e outperformed TadA8.17 and TadA8.20. The newly generated variant TadA9, with V82S/Q154R mutations, showed broad compatibility and efficient editing in various CRISPR systems. These novel ABEs have great potential in the development of plant base editors and crop molecular breeding.
Article
Biotechnology & Applied Microbiology
Liang Chen, Biyun Zhu, Gaomeng Ru, Haowei Meng, Yongchang Yan, Mengjia Hong, Dan Zhang, Changming Luan, Shun Zhang, Hao Wu, Hongyi Gao, Sijia Bai, Changqing Li, Ruoyi Ding, Niannian Xue, Zhixin Lei, Yuting Chen, Yuting Guan, Stefan Siwko, Yiyun Cheng, Gaojie Song, Liren Wang, Chengqi Yi, Mingyao Liu, Dali Li
Summary: Researchers have developed improved cytosine base editors by repurposing an adenine deaminase, resulting in highly efficient and precise C·G-to-G·C editing with low off-target effects and indels. These editors show higher accuracy and safety for gene therapy and other applications.
NATURE BIOTECHNOLOGY
(2023)
Article
Developmental Biology
Patricia Mendoza-Garcia, Swaraj Basu, Sanjay Kumar Sukumar, Badrul Arefin, Georg Wolfstetter, Vimala Anthonydhason, Linnea Molander, Ezgi Uckun, Henrik Lindehell, Cristina Lebrero-Fernandez, Jan Larsson, Erik Larsson, Mats Bemark, Ruth H. Palmer
Summary: This study identified some target genes of Alk, including Kah, which may play an important role in the regulation of embryonic midgut morphogenesis dependent on Alk signaling in Drosophila visceral muscle development.
Article
Astronomy & Astrophysics
Y. Xu, C. Pinto, E. Kara, M. Masterson, J. A. Garcia, A. C. Fabian, M. L. Parker, D. Barret, W. N. Alston, G. Cusumano
Summary: Accretion and ejection of matter in active galactic nuclei (AGNs) are studied in the narrow line Seyfert 1 (NLS1) AGN 1H 1934-063. A potentially variable warm absorber and a relatively stable ultra-fast outflow (UFO) were discovered. The emission lines of unknown origin suggest a link between the accretion flow and the ejection process.
MONTHLY NOTICES OF THE ROYAL ASTRONOMICAL SOCIETY
(2022)
Review
Microbiology
Weixue Liao, Wenhan Nie, Iftikhar Ahmad, Gongyou Chen, Bo Zhu
Summary: A-to-I RNA editing is an important modification that increases protein diversity by modifying adenosine to inosine in RNA molecules. ADAR-dependent A-to-I mRNA editing is common in animals, but TadA-mediated editing has been found in E. coli. Some editing events in bacterial proteins, such as S128P on FliC and T408A on XfeA, enhance bacterial tolerance to oxidative stress and control iron uptake, respectively. Most of the editing events in bacteria have adaptive benefits, and there may be other enzymes similar to TadA involved in the editing process.
FRONTIERS IN MICROBIOLOGY
(2023)
Article
Radiology, Nuclear Medicine & Medical Imaging
Zhuang Sha, Xinjie Zhang, Zhanying Li, Jiancheng Feng, Wei Quan, Shiying Dong, Mingqi Liu, Weiwei Jiang, Jiangyuan Yuan, Jinhao Huang, Chuang Gao, Ye Tian, Shuo An, Chunming Li, Yuanquan Wang, Rongcai Jiang
Summary: In this study, the Tada formula was improved to increase the accuracy and efficiency in calculating intracerebral hemorrhage (ICH) volume. The new C-Tada formula was found to be more clinically valuable than the Tada formula, given its sufficient efficiency and greater accuracy and reliability in ICH volume calculation.
QUANTITATIVE IMAGING IN MEDICINE AND SURGERY
(2023)
Article
Radiology, Nuclear Medicine & Medical Imaging
Zhuang Sha, Xinjie Zhang, Zhanying Li, Jiancheng Feng, Wei Quan, Shiying Dong, Mingqi Liu, Weiwei Jiang, Jiangyuan Yuan, Jinhao Huang, Chuang Gao, Ye Tian, Shuo An, Chunming Li, Yuanquan Wang, Rongcai Jiang
Summary: An improved formula (C-Tada formula) was proposed to calculate the volume of intracerebral hemorrhage (ICH), which showed higher accuracy and reliability compared to the Tada formula. It was also suitable for calculating irregular and small volume hematomas.
QUANTITATIVE IMAGING IN MEDICINE AND SURGERY
(2023)
Article
Pharmacology & Pharmacy
B. Onal, O. Can, B. Ermec, M. G. Culha
Summary: This study evaluated the efficacy and safety of daily paroxetine and tadalafil combination therapy for patients with premature ejaculation (PE) and erectile dysfunction (ED). The results showed significant improvements in intra-vaginal ejaculation latency time, premature ejaculation profile, and erectile function scores after combination therapy. Although the treatment methods are different, combined therapies are effective compared to monotherapies for patients with simultaneous PE and ED.
EUROPEAN REVIEW FOR MEDICAL AND PHARMACOLOGICAL SCIENCES
(2023)
Article
Biotechnology & Applied Microbiology
Jakob Hertzberg, Stefan Mundlos, Martin Vingron, Giuseppe Gallone
Summary: Functional annotation-based prioritization of pathogenic CNVs is a promising approach to support clinical diagnostics and further the understanding of mechanisms controlling the disease impact of larger genomic alterations. Our method, TADA, demonstrates accurate prediction of pathogenic CNVs, outperforming current alternative methods, and producing a well-calibrated pathogenicity score.
Article
Immunology
Chongxiao Xu, Weijia Zhang, Yuefeng Pan, Guowei Wang, Qikai Yin, Shihong Fu, Fan Li, Ying He, Songtao Xu, Zhenhai Wang, Guodong Liang, Kai Nie, Huanyu Wang
Summary: Japanese encephalitis (JE) is a mosquito-borne disease caused by the Japanese encephalitis virus (JEV). The research on JE has been ongoing for nearly 90 years, mainly in Asia. The analysis of English publications shows an increasing number of studies on JE, with a focus on the pathogenic mechanism of the virus, outbreak control, and immunization.
FRONTIERS IN CELLULAR AND INFECTION MICROBIOLOGY
(2022)