Article
Biotechnology & Applied Microbiology
Qianqin Li, Zezhou Xiao, Yongsheng Wang, Ximao Liu, Hao Liu, Zhiwen Luo, Shaoyi Zheng
Summary: In this study, RNA sequencing was used to identify various lncRNAs and mRNAs associated with vascular aging in the thoracic aortas of young and old rats. Differentially expressed mRNAs were found to be enriched in biological processes and signaling pathways related to angiogenesis. Specific lncRNAs and mRNAs, as well as signaling pathways, were identified as potential targets for improving vascular aging.
Review
Immunology
Chudai Zeng, Jason Hu, Fenghua Chen, Tianxiang Huang, Longbo Zhang
Summary: This review highlights the recent advances in the regulation of mTOR on neuroinflammatory cells and mediators, as well as the progress in understanding the interaction between ncRNAs and mTOR in epileptic neuroinflammation.
FRONTIERS IN IMMUNOLOGY
(2022)
Review
Biochemistry & Molecular Biology
Eun Gyung Park, Hongseok Ha, Du Hyeong Lee, Woo Ryung Kim, Yun Ju Lee, Woo Hyeon Bae, Heui-Soo Kim
Summary: This study reveals that non-coding RNAs (ncRNAs) have biochemical activities as epigenetic regulators at the post-transcriptional level. Transposable elements (TEs) contribute significantly to the transcription of ncRNAs, and the accumulation of TEs increases genetic diversity. TEs can also generate MDTEs, which are implicated in disease progression.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Review
Cell Biology
Melissa M. M. Rowe, Klaus H. H. Kaestner
Summary: Non-coding RNAs (ncRNAs) play important roles in liver disease and regeneration. This review focuses on key microRNAs (miRs), long non-coding RNAs (lncRNAs), and circular RNAs (circRNAs) in the liver. Specifically, it highlights the role of miR-122, miR-21, the let-7 family of miRs, miR-451a, miR-144, and MALAT1.
Article
Biochemistry & Molecular Biology
Huiwen Ren, Qiuyue Wang
Summary: Diabetic kidney disease (DKD) is a common chronic microvascular complication of diabetes with a complex pathological process involving multiple factors. Non-coding RNAs, such as micro RNA (miRNA), play a role in disease regulation and may serve as potential biomarkers for disease prediction. The research on long coding RNA (lncRNA) and circular RNA (circRNA) is still challenging and in early stages.
DNA AND CELL BIOLOGY
(2021)
Article
Cell Biology
Tan Phat Pham, Diewertje I. Bink, Laura Stanicek, Anke van Bergen, Esmee van Leeuwen, Yvonne Tran, Ljubica Matic, Ulf Hedin, Ilka Wittig, Stefanie Dimmeler, Reinier A. Boon
Summary: Aging is accompanied by various physiological changes, leading to cardiovascular diseases due to impaired vascular homeostasis. Increased DNA damage is a hallmark of aging, which can be repaired by the DNA signaling and repair system. In this study, it was found that long non-coding RNA Aerrie plays a role in DNA repair mechanism, affecting endothelial cell function and genomic stability.
FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY
(2021)
Review
Endocrinology & Metabolism
Chengshun Li, Dongxu Wang, Ziping Jiang, Yongjian Gao, Liqun Sun, Rong Li, Minqi Chen, Chao Lin, Dianfeng Liu
Summary: More than 10% of the world's population already suffers from diabetes mellitus (DM) to varying degrees, which can lead to cardiovascular disease (CVD) and become the leading cause of death in diabetes patients. Non-coding RNAs (ncRNAs) have been found to play an important role in DM and CVD, and aberrant ncRNAs may serve as potential biomarkers for diagnosis. Regulation of ncRNA expression levels may also be a key mechanism in future DM treatment.
FRONTIERS IN ENDOCRINOLOGY
(2022)
Review
Biochemistry & Molecular Biology
Juan Antonio Moreno, Eya Hamza, Melania Guerrero-Hue, Sandra Rayego-Mateos, Cristina Garcia-Caballero, Mercedes Vallejo-Mudarra, Laurent Metzinger, Valerie Metzinger-Le Meuth
Summary: Recent genomic research has uncovered a previously underestimated level of transcription within the genome, particularly involving long non-coding RNAs (lncRNAs) and their role in gene regulation. Understanding the intricate crosstalk between lncRNAs, microRNAs (miRNAs), and messenger RNAs (mRNAs) presents a significant challenge in modern molecular biology. Additionally, lncRNAs are emerging as potential prognostic biomarkers for both acute and chronic kidney diseases, with therapeutic opportunities being explored through targeting lncRNAs with antisense oligonucleotides.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
Review
Biochemistry & Molecular Biology
Anshika Goenka, Deanna Marie Tiek, Xiao Song, Rebeca Piatniczka Iglesia, Minghui Lu, Bo Hu, Shi-Yuan Cheng
Summary: Research in cancer biology has predominantly focused on protein-coding genes, but the discovery of non-coding RNAs (ncRNAs) has shed light on their crucial role in various biological processes and human diseases including cancer. Dysregulated ncRNA expression affects cancer initiation, progression, and therapy resistance. This review emphasizes the recent developments and advances in ncRNA biology relevant to glioma tumorigenesis and therapy response, highlighting the potential of ncRNAs as biomarkers and therapeutic agents in glioma.
Review
Cell Biology
Chaohua Si, Chen Chen, Yaxin Guo, Qiaozhen Kang, Zhenqiang Sun
Summary: This review discusses the significant role of m6A RNA modifications in the tumor microenvironment, highlighting their potential as biomarkers and therapeutic targets for cancer therapy. Understanding the relationship between TME and m6A RNA modifications may lead to new approaches for future cancer treatment.
FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY
(2021)
Review
Biochemistry & Molecular Biology
Julie Xia Zhou, Xiaogang Li
Summary: Recent advances in molecular genetics have revealed single-gene defects as the etiologies of many kidney diseases, with microRNAs playing a key role in the progression of ADPKD and emerging as potential therapeutic targets. Studies have also focused on microRNAs as potential biomarkers for ADPKD and other hereditary kidney diseases.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
Article
Biotechnology & Applied Microbiology
Tuhin Das, Tushar Kanti Das, Anne Khodarkovskaya, Sabyasachi Dash
Summary: The field of cellular biomolecular engineering offers creative therapeutic opportunities but faces technical challenges. Recent studies suggest the potential of non-coding RNAs, such as microRNAs and long non-coding RNAs, in treating neurological diseases. As the list of non-coding RNAs in mammals continues to evolve, there are numerous hidden possibilities for biomedical applications.
Review
Endocrinology & Metabolism
Guanqing Zhou, Mimi Zhang, Jingzhi Zhang, Yaofeng Feng, Zhishen Xie, Siyi Liu, Detu Zhu, Yumei Luo
Summary: Non-coding RNAs play important roles in cell differentiation, proliferation, apoptosis, and the pathogenesis of various diseases. Especially in non-obstructive azoospermia, the expression of non-coding RNAs is associated with pathological conditions.
FRONTIERS IN ENDOCRINOLOGY
(2022)
Review
Cell Biology
Syed Aoun Mehmood Sherazi, Asim Abbasi, Abdullah Jamil, Mohammad Uzair, Ayesha Ikram, Shanzay Qamar, Adediji Ayomide Olamide, Muhammad Arshad, Peter J. Fried, Milos Ljubisavljevic, Ran Wang, Shahid Bashir
Summary: Aging is associated with the deterioration of physical and cognitive abilities, and is a major risk factor for Alzheimer's disease. Investigating the underlying aging processes in the growing aging population is crucial for better understanding and addressing this global healthcare problem. Advances in microarrays and sequencing techniques have allowed for deeper analyses of diverse genomes and their involvement in aging, including the study of long non-coding RNAs as powerful gene regulatory elements. However, the functional significance of long non-coding RNAs in the aging process and senescence still needs to be investigated and identified.
NEURAL REGENERATION RESEARCH
(2023)
Review
Biochemistry & Molecular Biology
Qingmin Zeng, Chang-Hai Liu, Dongbo Wu, Wei Jiang, Nannan Zhang, Hong Tang
Summary: Non-alcoholic fatty liver disease (NAFLD) is the most common chronic liver disease worldwide. Long non-coding RNA (lncRNA) and circular RNA (circRNA) have emerged as potential non-invasive biomarkers for predicting NAFLD. This systematic review highlights the potential of lncRNA and circRNA, such as NEAT1, MEG3, MALAT1, and SCAR, for early diagnosis and progression assessment of NAFLD, NASH, and fibrosis. Large-cohort studies and further exploration of the functional mechanisms are needed to validate their clinical value.
Article
Biochemical Research Methods
Roxanne Oshidari, Karim Mekhail
Review
Genetics & Heredity
Amanda C. Hall, Lauren A. Ostrowski, Karim Mekhail
TRENDS IN GENETICS
(2019)
Review
Cell Biology
Roxanne Oshidari, Karim Mekhail, Andrew Seeber
TRENDS IN CELL BIOLOGY
(2020)
Article
Multidisciplinary Sciences
Roxanne Oshidari, Richard Huang, Maryam Medghalchi, Elizabeth Y. W. Tse, Nasser Ashgriz, Hyun O. Lee, Haley Wyatt, Karim Mekhail
NATURE COMMUNICATIONS
(2020)
Review
Cell Biology
Negin Khosraviani, Lauren A. Ostrowski, Karim Mekhail
FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY
(2019)
Article
Multidisciplinary Sciences
Karan J. Abraham, Negin Khosraviani, Janet N. Y. Chan, Aparna Gorthi, Anas Samman, Dorothy Y. Zhao, Miling Wang, Michael Bokros, Elva Vidya, Lauren A. Ostrowski, Roxanne Oshidari, Violena Pietrobon, Parasvi S. Patel, Arash Algouneh, Rajat Singhania, Yupeng Liu, V. Talya Yerlici, Daniel D. De Carvalho, Michael Ohh, Brendan C. Dickson, Razq Hakem, Jack F. Greenblatt, Stephen Lee, Alexander J. R. Bishop, Karim Mekhail
Article
Multidisciplinary Sciences
Lauren A. Todd, Amanda C. Hall, Violena Pietrobon, Janet N. Y. Chan, Guillaume Laflamme, Karim Mekhail
SCIENTIFIC REPORTS
(2020)
Review
Biology
Guillaume Laflamme, Karim Mekhail
COMMUNICATIONS BIOLOGY
(2020)
Article
Medicine, Research & Experimental
Parasvi S. Patel, Karan Joshua Abraham, Kiran Kumar Naidu Guturi, Marie-Jo Halaby, Zahra Khan, Luis Palomero, Brandon Ho, Shili Duan, Jonathan St-Germain, Arash Algouneh, Francesca Mateo, Samah El Ghamrasni, Haithem Barbour, Daniel R. Barnes, Jonathan Beesley, Otto Sanchez, Hal K. Berman, Grant W. Brown, El Bachir Affar, Georgia Chenevix-Trench, Antonis C. Antoniou, Cheryl H. Arrowsmith, Brian Raught, Miquel Angel Pujana, Karim Mekhail, Anne Hakem, Razqallah Hakem
Summary: Germline mutations in BRCA1 and BRCA2 genes increase the risk of breast and ovarian cancer, while the loss of RNF168 can protect Brca1-mutant mice against mammary tumorigenesis. Studies have shown that RNF168 deficiency leads to accumulation of R-loops in BRCA1/2-mutant breast and ovarian cancer cells, causing cell death.
JOURNAL OF CLINICAL INVESTIGATION
(2021)
Review
Cell Biology
Mitra Shokrollahi, Karim Mekhail
Summary: Microtubules play a crucial role in mediating fundamental cellular processes, including cell division, and recent evidence suggests they also regulate the nucleus during the interphase stage of the cell cycle. By exerting cytoplasmic forces on the nucleus, transporting molecular cargo like DNA, and establishing connections with nuclear envelope elements, microtubules impact genome function and organismal health. Overall, the literature indicates that interphase microtubules are critical regulators of nuclear structure and genome stability.
TRENDS IN CELL BIOLOGY
(2021)
Review
Genetics & Heredity
Mia Stanic, Karim Mekhail
Summary: The maintenance of genome stability and cellular homeostasis relies on the coordination of DNA damage response (DDR) with other cellular processes. This review examines the crosstalk between DNA repair factors, chromatin remodeling, replication, transcription, genome organization, cytoskeletal forces, and liquid-liquid phase separation (LLPS) in mediating DNA repair. The authors present an overarching DNA repair framework that incorporates these dynamic processes in the nucleus.
TRENDS IN GENETICS
(2022)
Article
Multidisciplinary Sciences
Yanli Liu, Aman Iqbal, Weiguo Li, Zuyao Ni, Yalong Wang, Jurupula Ramprasad, Karan Joshua Abraham, Mengmeng Zhang, Dorothy Yanling Zhao, Su Qin, Peter Loppnau, Xinghua Guo, Mengqi Zhou, Peter J. Brown, Xuechu Zhen, Guoqiang Xu, Karim Mekhail, Xingyue Ji, Mark T. Bedford, Jack F. Greenblatt, Jinrong Min
Summary: In this study, a potent and selective antagonist targeting the Tudor domain of SMN is reported, which disrupts the interaction between SMN and RNA Polymerase II, mimicking the effects of SMN deficiency.
NATURE COMMUNICATIONS
(2022)
Article
Biochemistry & Molecular Biology
Parasvi S. Patel, Arash Algouneh, Rehna Krishnan, John J. Reynolds, Kevin C. J. Nixon, Jun Hao, Jihoon Lee, Yue Feng, Chehronai Fozil, Mia Stanic, Talya Yerlici, Peiran Su, Fraser Soares, Elisabeth Liedtke, Gil Prive, Gary D. Baider, Miquel Angel Pujana, Karim Mekhail, Housheng Hansen He, Anne Hakem, Grant S. Stewart, Razqallah Hakem
Summary: BRCA1 mutations increase the risk of breast and ovarian cancer. This study identified MEPCE and PAF1 as synthetic lethal partners of BRCA1 by targeting CRISPR-Cas9 screening. Depletion of MEPCE and PAF1 resulted in dysregulated RNAPII promoter-proximal pausing, R-loop accumulation, replication stress, and genomic instability, leading to the loss of viability in BRCA1-deficient cells. These findings suggest that targeting transcription-replication collision-inducing factors could be a potential therapeutic approach for cancers associated with BRCA1 mutations.
NUCLEIC ACIDS RESEARCH
(2023)
Article
Biochemical Research Methods
Negin Khosraviani, Karan J. Abraham, Janet N. Y. Chan, Karim Mekhail
Summary: This study presents a locus-associated R-loop-modulating system that can attribute functions to R-loops in a locus-specific manner using an inducible RNaseH1-EGFP-dCas9 chimaera. The study confirms the expression, localization, locus-targeted association, and modulation of R-loops in cis or trans using immunoblotting, microscopy, and chromatin and DNA-RNA immunoprecipitation.
Article
Biology
Lauren A. Ostrowski, Amanda C. Hall, Kirk J. Szafranski, Roxanne Oshidari, Karan J. Abraham, Janet N. Y. Chan, Christian Krustev, Kevin Zhang, Ashley Wang, Yupeng Liu, Ru Guo, Karim Mekhail
COMMUNICATIONS BIOLOGY
(2018)
