Article
Biotechnology & Applied Microbiology
Jie Wang, Dongdong Zhao, Ju Li, Muzi Hu, Xiuqing Xin, Marcus A. Price, Qingyan Li, Li Liu, Siwei Li, Susan J. Rosser, Chunzhi Zhang, Changhao Bi, Xueli Zhang
Summary: This study demonstrates the use of CRISPR-enabled deaminase base editing to precisely edit nucleotides on the chromosome using DNA helicases fused with activation-induced cytidine deaminase. The coordinated editing process with DNA replication resulted in increased production of 8-carotene. Furthermore, the technique of fusing AID with eukaryotic helicase could potentially be applied for various applications in eukaryotic cells.
METABOLIC ENGINEERING
(2021)
Article
Virology
Karen Salas-Briceno, Susan R. Ross
Summary: This study showed the critical role of UNG in removing uracils from APOBEC3-mediated MLV retroviral DNA, reducing G-to-A mutations in proviruses. The data suggest that UNG removes uracils at two stages of infection, preventing integration of viral DNA and leading to its repair or degradation.
JOURNAL OF VIROLOGY
(2021)
Article
Biochemistry & Molecular Biology
Yuewen Luo, Xiantao Zhang, Ran Chen, Rong Li, Yang Liu, Junsong Zhang, Qin Liu, Meijun Si, Jun Liu, Bolin Wu, Xuemei Wang, Shijian Wu, Yiwen Zhang, Xu Zhang, Deyin Guo, Xin He, Ting Pan, Hui Zhang
Summary: This study found that the deubiquitinase USP10 can translocate into the nucleus and stabilize nuclear AID protein levels through AKT-mediated phosphorylation. Furthermore, the signals from BCR and TLR synergistically promote the phosphorylation of USP10. Deficiency of USP10 in B cells leads to decreased AID protein levels and reduced production of neutralizing antibodies.
SIGNAL TRANSDUCTION AND TARGETED THERAPY
(2022)
Article
Multidisciplinary Sciences
Woong Sik Jang, Da Hye Lim, Jung Yoon, Ahran Kim, Minsup Lim, Jeonghun Nam, Richard Yanagihara, Sook-Won Ryu, Bo Kyeung Jung, Nam-Hee Ryoo, Chae Seung Lim
Summary: In this study, three RT-LAMP primer sets were designed for detecting different genes of SARS CoV-2. It was found that the detection limits of two primer sets were low, showing comparable sensitivity to other widely used detection methods.
Article
Multidisciplinary Sciences
Yuqing Feng, Conglei Li, Jessica A. Stewart, Philip Barbulescu, Noe Seija Desivo, Alejandro alvarez-Quilon, Rossanna C. Pezo, Madusha L. W. Perera, Katherine Chan, Amy Hin Yan Tong, Rukshana Mohamad-Ramshan, Maribel Berru, Diana Nakib, Gavin Li, Gholam Ali Kardar, James R. Carlyle, Jason Moffat, Daniel Durocher, Javier M. Di Noia, Ashok S. Bhagwat, Alberto Martin
Summary: AID catalyzes the conversion of deoxycytidines to deoxyuracils in immunoglobulin genes to induce somatic hypermutation and class-switch recombination. FAM72A is identified as a major determinant for the error-prone processing of deoxyuracils, enabling AID to exert its full effects on antibody maturation by disabling efficient DNA repair pathways. Overexpression of FAM72A in cancer could promote mutagenesis.
Article
Biotechnology & Applied Microbiology
Likui Zhang, Donghao Jiang, Qi Gan, Haoqiang Shi, Li Miao, Yong Gong, Philippe Oger
Summary: Tba UDG247 is a novel bifunctional glycosylase that can excise uracil from DNA and further cleave the phosphodiester bond of the generated AP site. Kinetic analyses show that the enzyme has a faster rate for uracil excision than for AP cleavage, suggesting that cleaving AP site is a rate-limiting step for its bifunctionality.
APPLIED MICROBIOLOGY AND BIOTECHNOLOGY
(2021)
Article
Multidisciplinary Sciences
Yee Ling Lau, Ilyiana Binti Ismail, Nur Izati Binti Mustapa, Meng Yee Lai, Tuan Suhaila Tuan Soh, Afifah Haji Hassan, Kalaiarasu M. Peariasamy, Yee Leng Lee, Maria Kahar Bador Abdul Kahar, Jennifer Chong, Pik Pin Goh
Summary: RT-RPA is a rapid and accurate detection method for SARS-CoV-2, with a clinical sensitivity of 98% and specificity of 100%, proving to be a viable alternative to RT-qPCR.
Article
Virology
Wael Muselmani, Naail Kashif-Khan, Claire Bagneris, Rosalia Santangelo, Mark A. Williams, Renos Savva
Summary: Proteins encoded by viruses that mimic DNA can regulate processes like innate cellular immunity. An example is the inhibition of Ung-family uracil-DNA glycosylase, which blocks Ung-mediated degradation by binding to the DNA-binding site. This is important for the replication and distribution of virus genomes where uracil-DNA plays a crucial role.
Article
Hematology
Ping Zhang, Mengting Qin, Yang Wang, Xiaodong Chen, Yinsha Miao, Meng Yuan, Wen Zhou, Dandan Li, Dan Wang, Mengying Wang, Li Ai, Yunfeng Ma, Yanying Dong, Yanhong Ji
Summary: Inflammation plays an important role in the initiation and disease progression of BCR-ABL1(+) B-cell acute lymphoblastic leukemia (BCR-ABL1(+) B-ALL). The study found that inflammatory stimulation promotes the growth and genomic instability of BCR-ABL1(+) B-ALL cells and accelerates the development of the disease in a mouse model. Activation-induced deaminase (AID) is found to be required for the cell growth and disease progression of BCR-ABL1(+) B-ALL, and it modulates the expression of genes involved in apoptosis suppression and DNA damage repair, facilitating BCR-ABL1(+) B-ALL progression.
Review
Genetics & Heredity
Karla Cervantes-Gracia, Anna Gramalla-Schmitz, Julian Weischedel, Richard Chahwan
Summary: APOBEC proteins play a role in deaminating cytosine residues in DNA and RNA, which can have various effects on cellular functions and genetic modifications. Their cumulative impact on genomic and epigenomic editing may contribute to aging-related changes.
TRENDS IN GENETICS
(2021)
Article
Multidisciplinary Sciences
Bettina Trimmel, Andre Oszwald, Christoph Diemand, Iris E. Ertl, Ursula Lemberger, Andreas Bruchbacher, Robert Brettner, Stephan Korn, Irene Resch, Eva Comperat, Shahrokh F. Shariat, Melanie R. Hassler
Summary: This study aimed to evaluate the mRNA expression levels of APOBEC3 family members in HPV+ and HPV- PSC and their association with clinicopathological features and prognosis. The results showed lower expression of APOBEC3A, APOBEC3B, and APOBEC3C in advanced PSC stages, while HPV+ samples had higher expression of APOBEC3s compared to HPV- samples. However, multivariable analyses failed to confirm these associations with outcome.
SCIENTIFIC REPORTS
(2022)
Article
Biochemistry & Molecular Biology
Paul B. Orndorff, Arjan van der Vaart
Summary: Uracil damaged DNA largely follows trends in flexibility of undamaged DNA. The flexibility of DNA is increased by uracil, and U:G base paired strands are more flexible than U:A strands. Certain sequence contexts, especially the 3' base next to uracil, play a key role in DNA deformability.
JOURNAL OF BIOMOLECULAR STRUCTURE & DYNAMICS
(2023)
Article
Multidisciplinary Sciences
Talin Ebrahimian, France Dierick, Vincent Ta, Maria Kotsiopriftis, Jonathan O'Connor Miranda, Koren K. Mann, Alexandre Orthwein, Stephanie Lehoux
Summary: Naive B cells producing IgM have a protective effect against atherosclerosis, while mature B cells producing class-switched antibodies promote atherosclerosis. Activation-induced cytidine deaminase (AID), which mediates class switch recombination (CSR), plays a significant role in both atherosclerosis and B cell tolerance. Depletion of AID inhibits atherosclerotic plaque formation.
SCIENTIFIC REPORTS
(2023)
Review
Virology
Ananda Ayyappan Jaguva Vasudevan, Daniel Becker, Tom Luedde, Holger Gohlke, Carsten Munk
Summary: Non-human primates are a significant source of viruses that can be transmitted to humans, including a unique class of retroviruses called foamy viruses. These viruses are common in various mammalian natural hosts but not in humans, and their viral life cycle differs significantly from other retroviruses. Foamy viruses can replicate in the presence of many well-defined retroviral restriction factors, presenting unique challenges for understanding their interaction with host cells.
Article
Chemistry, Analytical
Guohua Qi, Chen Xu, Jiafeng Wang, Yu Tian, Bo Wang, Ying Zhang, Kongshuo Ma, Xingkang Diao, Yongdong Jin
Summary: This study presents a new technique for promoting cell differentiation through optoplasmonic method, which can significantly shorten cell differentiation time, enhance cellular bioenergetics levels, and potentially be applied in tissue repair and regeneration.
ANALYTICAL CHEMISTRY
(2022)