Review
Biology
Abdurrahman Pharmacy Yusuf, Murtala Bello Abubakar, Ibrahim Malami, Kasimu Ghandi Ibrahim, Bilyaminu Abubakar, Muhammad Bashir Bello, Naeem Qusty, Sara T. Elazab, Mustapha Umar Imam, Athanasios Alexiou, Gaber El-Saber Batiha
Summary: Zinc was established more than half a century ago as an essential micronutrient for normal human physiology, with around 10% of the human proteome potentially binding zinc. Proteins with zinc-binding domains play key roles in epigenetic modifications, such as DNA methylation and histone modifications, regulating transcription under physiological and pathological conditions. Zinc metalloproteins in epigenetics, mainly zinc metalloenzymes and zinc finger proteins, interact as writers, erasers, readers, editors, and feeders to maintain the epigenome's functioning.
Article
Computer Science, Artificial Intelligence
Chakkarai Sathyaseelan, L. Ponoop Prasad Patro, Thenmalarchelvi Rathinavelan
Summary: Zinc finger (ZnF) is an important class of nucleic acid and protein recognition domain with diverse structures and biological functions. In order to accurately predict ZnF motifs, researchers collected 74 ZnF sequence patterns and used Pfam HMM profiles for prediction. They developed a web server called ZnF-Prot that can predict 31 ZnF domains in protein sequences of any organism.
PATTERN RECOGNITION
(2023)
Article
Biotechnology & Applied Microbiology
Jiyeon Kweon, Hye-Yeon Hwang, Haesun Ryu, An-Hee Jang, Daesik Kim, Yongsub Kim
Summary: Researchers developed a method using prime editor 2 nuclease (PE2 nuclease) and paired pegRNA to achieve programmable chromosomal translocations and inversions. They successfully introduced DNA recombination and precise chromosomal translocations in human cells. This method can be used to create cancer-associated translocations and inversions as well as for disease modeling or gene therapy.
Article
Multidisciplinary Sciences
Ranjeet Maurya, Aparna Swaminathan, Uzma Shamim, Smriti Arora, Pallavi Mishra, Aakarshan Raina, Varsha Ravi, Bansidhar Tarai, Sandeep Budhiraja, Rajesh Pandey
Summary: The emergence of multiple SAR-CoV-2 variants during the COVID-19 pandemic has led to an increased understanding of the host-immune kinetics associated with these variants. A longitudinal investigation revealed a robust antiviral response in Omicron infection, which was largely absent in the Pre-VOC and Delta waves. The study also highlighted differential protein-protein interactions and gene expression patterns, particularly in relation to zinc finger proteins, that contribute to the immune response.
Article
Biochemistry & Molecular Biology
Koollawat Chupradit, Wannisa Khamaikawin, Supachai Sakkhachornphop, Chaniporn Puaninta, Bruce E. Torbett, Suparerk Borwornpinyo, Suradej Hongeng, Methichit Wattanapanitch, Chatchai Tayapiwatana
Summary: The study demonstrates the efficacy and safety of using 2LTRZFP in human CD34(+) HSPCs for gene therapy in HIV-1-infected individuals. The 2LTRZFPmCherry-transduced macrophages showed normal function and phenotype, and exhibited resistance to HIV-1 integration.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Biochemistry & Molecular Biology
Weijuan Xu, Shuguang Jian, Jianyi Li, Yusang Wang, Mingyong Zhang, Kuaifei Xia
Summary: Pitaya, a plant with tolerance to drought, heat, and poor soil, has gene expression and stress response regulated by zinc finger proteins. A total of 81 CCCH-type zinc finger protein genes were identified in the pitaya genome, and HuTZF3 was found to respond to both salt and heat stress. HuTZF3 showed expression in all tested organs of pitaya, especially with high levels in roots and stems, and its expression was induced by salt and heat stress. Subcellular localization revealed that HuTZF3 is targeted in processing bodies and stress granules. Heterologous expression of HuTZF3 in Arabidopsis improved salt and heat tolerance, reduced oxidative stress, and enhanced the activity of catalase and peroxidase. Thus, HuTZF3 may contribute to post-transcriptional regulation via its localization in processing bodies and stress granules, contributing to salt and heat tolerance in pitaya.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Engineering, Biomedical
Pedro Silva-Pinheiro, Christian D. Mutti, Lindsey Van Haute, Christopher A. Powell, Pavel A. Nash, Keira Turner, Michal Minczuk
Summary: The study developed a DNA editor called MitoKO, which can precisely eliminate each protein-coding gene in the mouse mitochondrial genome. MitoKO was used to generate knockout cells with high homoplasmy levels in vitro and a mouse model with high heteroplasmy levels and no off-target edits. This tool will aid in the comprehensive investigation of mtDNA-related pathways and the creation of clinically relevant in vivo models of mtDNA dysfunction.
NATURE BIOMEDICAL ENGINEERING
(2023)
Article
Engineering, Biomedical
Nikita Mikhailov, Riikka H. Hamalainen
Summary: Mitochondria are not only the energy factories of eukaryotic cells, but also have various signaling and metabolic functions. Mutations in the mitochondrial genome are a significant contributor to human disease. Modulating the ratio between healthy and mutant mtDNA in patients' cells offers a potential therapeutic option for mtDNA diseases.
ANNALS OF BIOMEDICAL ENGINEERING
(2022)
Article
Pharmacology & Pharmacy
Tianqi Xu, Jie Zhang, Maryam Oroujeni, Maria S. Tretyakova, Vitalina Bodenko, Mikhail Belousov, Anna Orlova, Vladimir Tolmachev, Anzhelika Vorobyeva, Torbjorn Graslund
Summary: This study investigated the influence of linker length and composition on the functionality and biodistribution of targeted drug conjugates, finding that longer linkers decreased affinity to HER2 and serum albumin but reduced liver uptake. This provides important insights into molecular design for developing drug conjugates with reduced hepatic uptake.
Article
Chemistry, Multidisciplinary
Robert J. Charman, Neil M. Kad
Summary: This study utilizes high-speed interferometric scattering microscopy and surface-bound DNA assay to uncover the early damage detection mechanism of UvrA. It reveals that the interaction between UvrA and DNA occurs in two phases, with a faster search state allowing UvrA to explore 99% of the E. coli genome within a single division cycle.
Article
Immunology
Xin Huang, Bingxuan Wu, Di Wu, Xiaoming Huang, Min Shen
Summary: Haploinsufficiency of GATA2, also known as GATA2 deficiency, can result in a wide range of clinical manifestations. In this study, we presented a case of a 28-year-old male with a GATA2 variant who also suffered from hemophagocytic lymphohistiocytosis (HLH), ultimately diagnosed as HLH triggered by Mycobacterium avium bloodstream infection due to primary immunodeficiency. We also reviewed GATA2 deficiency patients with HLH and found that GATA2 variants causing loss of zinc finger domains were associated with HLH, with erythema nodosum possibly being an accompanying symptom.
FRONTIERS IN IMMUNOLOGY
(2023)
Article
Biochemistry & Molecular Biology
Yonghong Zhang, Xiaoqian Fang, Luis Ascota, Libo Li, Lili Guerra, Audrey Vega, Amanda Salinas, Andrea Gonzalez, Claudia Garza, Andrew Tsin, Johannes W. Hell, James B. Ames
Summary: Chemical synaptic transmission is a highly regulated process and imbalanced neurotransmitters can lead to impairments. PSD-95 plays a crucial role in synaptic development and maturation, and its interaction with zinc may influence its postsynaptic membrane association and palmitoylation.
Article
Biochemistry & Molecular Biology
Wenchao Zhang, Jeremy Berthelet, Christina Michail, Linh-Chi Bui, Panhong Gou, Rongxing Liu, Romain Duval, Justine Renault, Jean-Marie Dupret, Fabien Guidez, Christine Chomienne, Fernando Rodrigues Lima
Summary: The study reveals that etoposide quinone impairs the tumor suppressor gene CREBBP by reacting with cysteine residues, leading to a reduction in hematopoiesis. This irreversible inhibition of CREBBP activity suggests a potential mechanism for therapy-related leukemia caused by etoposide.
FREE RADICAL BIOLOGY AND MEDICINE
(2021)
Article
Biochemistry & Molecular Biology
Richa Amiya, Michal Shapira
Summary: The thylakoid membrane-associated protein ZnJ6 functions as an oxidizing chaperone in Chlamydomonas reinhardtii, assisting in protein structure maintenance, preventing aggregation, and maintaining redox balance in cells.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
Article
Biochemistry & Molecular Biology
Maxim S. Bril'kov, Olena Dobrovolska, Oyvind Odegard-Fougner, Diana C. Turcu, Oyvind Stromland, Jarl Underhaug, Rein Aasland, Oyvind Halskau
Summary: The CW domain can recognize histone tail modifications and shows specificity towards different methylation states. Investigating the relationship between the selectivity of ASHH2 CW towards H3K4me1 and the stability of the binding domain and loops provides insights into the binding mechanism.
FRONTIERS IN MOLECULAR BIOSCIENCES
(2022)
Article
Clinical Neurology
Eric J. Kildebeck, Ram Narayan, Avindra Nath, Howard Weiner, Shin Beh, Peter A. Calabresi, Lawrence Steinman, Eugene O. Major, Teresa C. Frohman, Elliot M. Frohman
JOURNAL OF NEUROLOGY
(2017)
Article
Oncology
Michelle L. Churchman, Maoxiang Qian, Geertruy te Kronnie, Ranran Zhang, Wenjian Yang, Hui Zhang, Tobia Lana, Paige Tedrick, Rebekah Baskin, Katherine Verbist, Jennifer L. Peters, Meenakshi Devidas, Eric Larsen, Ian M. Moore, Zhaohui Gu, Chunxu Qu, Hiroki Yoshihara, Shaina N. Porter, Shondra M. Pruett-Miller, Gang Wu, Elizabeth Raetz, Paul L. Martin, W. Paul Bowman, Naomi Winick, Elaine Mardis, Robert Fulton, Martin Stanulla, William E. Evans, Mary V. Relling, Ching-Hon Pui, Stephen P. Hunger, Mignon L. Loh, Rupert Handgretinger, Kim E. Nichols, Jun J. Yang, Charles G. Mullighan
Article
Medicine, Research & Experimental
Bo Wang, Joung Hyuck Joo, Rebecca Mount, Brett J. W. Teubner, Alison Krenzer, Amber L. Ward, Viraj P. Ichhaporia, Elizabeth J. Adams, Rami Khoriaty, Samuel T. Peters, Shondra M. Pruett-Miller, Stanislav S. Zakharenko, David Ginsburg, Mondira Kundu
JOURNAL OF CLINICAL INVESTIGATION
(2018)
Article
Clinical Neurology
Millad J. Sobhanian, Rohit Agarwal, Ethan Meltzer, Eric Kildebeck, Benjamin S. Frohman, Ashley N. Frohman, Steven L. Galetta, Shiv Saidha, Owen White, Pablo Villoslada, Friedemann Paul, Axel Petzold, Robert L. Rennaker, Elena H. Martinez-Lapiscina, Laura J. Balcer, Randy Kardon, Elliot M. Frohman, Teresa C. Frohman
JOURNAL OF THE NEUROLOGICAL SCIENCES
(2018)
Article
Multidisciplinary Sciences
Monica F. Sentmanat, Samuel T. Peters, Colin P. Florian, Jon P. Connelly, Shondra M. Pruett-Miller
SCIENTIFIC REPORTS
(2018)
Article
Biology
Daniel P. Stewart, Suresh Marada, William J. Bordeen, Ashley Truong, Sadie Miki Sakurada, Tanushree Pandit, Shondra M. Pruett-Miller, Stacey K. Ogden
Article
Cell & Tissue Engineering
Yi-Hsien Chen, Shondra M. Pruett-Miller
STEM CELL RESEARCH
(2018)
Article
Peripheral Vascular Disease
Harshal Waghulde, Xi Cheng, Sarah Galla, Blair Mell, Jingwei Cai, Shondra M. Pruett-Miller, Guillermo Vazquez, Andrew Patterson, Matam Vijay Kumar, Bina Joe
Article
Biochemistry & Molecular Biology
Bo Wang, Brian A. Maxwell, Joung Hyuck Joo, Youngdae Gwon, James Messing, Ashutosh Mishra, Timothy I. Shaw, Amber L. Ward, Honghu Quan, Sadie Miki Sakurada, Shondra M. Pruett-Miller, Tulio Bertorini, Peter Vogel, Hong Joo Kim, Junmin Peng, J. Paul Taylor, Mondira Kundu
Article
Multidisciplinary Sciences
Mara Pavel-Dinu, Volker Wiebking, Beruh T. Dejene, Waracharee Srifa, Sruthi Mantri, Carmencita E. Nicolas, Ciaran Lee, Gang Bao, Eric J. Kildebeck, Niraj Punjya, Camille Sindhu, Matthew A. Inlay, Nivedita Saxena, Suk See DeRavin, Harry Malech, Maria Grazia Roncarolo, Kenneth Weinberg, Matthew H. Porteus
NATURE COMMUNICATIONS
(2019)
Article
Multidisciplinary Sciences
Mohammad S. Esfahani, Luke J. Lee, Young-Jun Jeon, Ryan A. Flynn, Henning Stehr, Angela B. Hui, Noriko Ishisoko, Eric Kildebeck, Aaron M. Newman, Scott V. Bratman, Matthew H. Porteus, Howard Y. Chang, Ash A. Alizadeh, Maximilian Diehn
NATURE COMMUNICATIONS
(2019)
Article
Physiology
Shaina N. Porter, Rachel M. Levine, Shondra M. Pruett-Miller
COMPREHENSIVE PHYSIOLOGY
(2019)
Article
Multidisciplinary Sciences
Daniel P. Dever, Samantha G. Scharenberg, Joab Camarena, Eric J. Kildebeck, Joseph T. Clark, Renata M. Martin, Rasmus O. Bak, Yuming Tang, Monika Dohse, Johannes A. Birgmeier, Karthik A. Jagadeesh, Gill Bejerano, Ann Tsukamoto, Natalia Gomez-Ospina, Nobuko Uchida, Matthew H. Porteus
Article
Multidisciplinary Sciences
Jon P. Connelly, Shondra M. Pruett-Miller
SCIENTIFIC REPORTS
(2019)
Meeting Abstract
Immunology
Mara Pavel-Dinu, Volker Wiebking, Beruh T. Dejene, Waracharee Srifa, Sruthi Mantri, Carmencita Nicolas, Ciaran M. Lee, Gang Bao, Eric Kildebeck, Niraj Rajiv Punjya, Camille Sindhu, Matthew A. Inlay, Nivedita S. Saxena, Suk See De Ravin, Harry L. Malech, Maria Grazia Roncarolo, Kenneth Weinberg, Matthew Porteus
JOURNAL OF CLINICAL IMMUNOLOGY
(2018)