Review
Cell Biology
Huimin Liu, Dongxu Wang, Shaoning Kan, Ming Hao, Lu Chang, Pengxu Lu, Yangyang Liu, Ye Jin, Weiwei Liu
Summary: Long non-coding RNA (lncRNA) plays a significant role in the pathogenesis of oral cancer, regulating cell growth and affecting cellular signal pathways. XIST, as the core of X chromosome inactivation, affects the proliferation, apoptosis, invasion, migration, and resistance to chemotherapy of oral cancer.
FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY
(2022)
Review
Biochemical Research Methods
Pablo Acera Mateos, You Zhou, Kathi Zarnack, Eduardo Eyras
Summary: The development of new high-throughput techniques has played a crucial role in discovering the properties of RNA modifications with the help of machine learning. Despite the challenges, this review provides a comprehensive survey of machine learning methods for detecting RNA modifications and strategies for training and testing these methods. The review also highlights current challenges and open questions in RNA modification analysis, and emphasizes the potential of machine learning in addressing these limitations.
BRIEFINGS IN BIOINFORMATICS
(2023)
Review
Pharmacology & Pharmacy
Maria Berdasco, Manel Esteller
Summary: Epitranscriptomics is a burgeoning field that studies biochemical modifications of RNA, with a focus on both normal cell fate and the development of diseases such as cancer. The challenge now is to identify mechanisms within epitranscriptomics that can be targeted effectively by drugs. Despite facing challenges in chemical biology and drug development, there is still great potential for targeted-RNA to benefit clinical outcomes.
BRITISH JOURNAL OF PHARMACOLOGY
(2022)
Review
Biochemistry & Molecular Biology
Francesco Fazi, Alessandro Fatica
Summary: RNA modifications play a crucial role in hematopoietic development by acting as post-transcriptional regulators of gene expression, providing an additional level of control. Particularly, the N-6-methylation of adenosine (m(6)A) within mRNA species has been identified as important in regulating hematopoietic differentiation.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
Review
Medical Laboratory Technology
Amandine Amalric, Amandine Bastide, Aurore Attina, Armelle Choquet, Jerome Vialaret, Sylvain Lehmann, Alexandre David, Christophe Hirtz
Summary: Despite significant progress in targeted therapies, cancer recurrence remains a major cause of mortality worldwide. Identification of accurate biomarkers through molecular profiling in healthy and cancer patient samples can improve cancer diagnosis and advance personalized medicine.
CRITICAL REVIEWS IN CLINICAL LABORATORY SCIENCES
(2022)
Review
Biotechnology & Applied Microbiology
Muthusamy Ramakrishnan, K. Shanmugha Rajan, Sileesh Mullasseri, Sarin Palakkal, Krishnan Kalpana, Anket Sharma, Mingbing Zhou, Kunnummal Kurungara Vinod, Subbiah Ramasamy, Qiang Wei
Summary: There is growing evidence that post-transcriptional RNA modifications can greatly impact crop production. However, the roles of the abundant RNA modifications of pseudouridine and 2'-O-methylation in plants remain unclear. This review discusses the latest methods and insights gained in mapping these modifications in plants, as well as the limitations in current high-throughput technologies. Future challenges in regulating the plant epitranscriptome are also highlighted.
PLANT BIOTECHNOLOGY JOURNAL
(2022)
Article
Neurosciences
Fatemeh Khani-Habibabadi, Leila Zare, Mohammad Ali Sahraian, Mohammad Javan, Mehrdad Behmanesh
Summary: The study investigated the role of long non-coding RNAs in regulating BDNF gene expression and OPC cell maturation, demonstrating significant correlations between Malat1 and Hotair with BDNF in glial cells. Fingolimod treatment was found to enhance OPC myelination and Malat1 may play a role in the last stages of intrinsic OL myelination, regardless of treatment.
MOLECULAR NEUROBIOLOGY
(2022)
Review
Biotechnology & Applied Microbiology
Jianzhong Hu, Jing Cai, Tao Xu, Hunseung Kang
Summary: This article reviews the recent research progress on mRNA modifications, particularly m(6)A modifications, and summarizes their dynamics, distribution, regulation, and biological functions in plant stress responses. In addition, potential strategies for breeding stress-tolerant crops by engineering mRNA modifications are proposed, and the future direction of RNA modification research is suggested to gain a deeper understanding of plant stress biology.
PLANT BIOTECHNOLOGY JOURNAL
(2022)
Review
Cell Biology
Emma Wilkinson, Yan-Hong Cui, Yu-Ying He
Summary: Chemical modifications of RNA molecules, mediated by writer, reader, and eraser proteins, regulate RNA metabolism and fate, impacting various cellular processes and disease development.
FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY
(2022)
Review
Cell Biology
Hatim Boughanem, Yvonne Bottcher, Joao Tome-Carneiro, Maria-Carmen Lopez de Las Hazas, Alberto Davalos, Akin Cayir, Manuel Macias-Gonzalez
Summary: Mitochondrial epitranscriptomics refers to modifications occurring in various types of RNA within mitochondria. These modifications play a critical role in accurate protein synthesis and have implications in mitochondrial-related diseases. Research has focused on mutations in mitochondrial and nuclear DNA genes encoding enzymes involved in these modifications. This article reviews current evidence on mitochondrial RNA modifications and their role in metabolic disorders, and explores the potential of using them as targets for prevention and early detection.
WILEY INTERDISCIPLINARY REVIEWS-RNA
(2023)
Article
Biochemistry & Molecular Biology
Hoda T. Amer, Reda A. Eissa, Hend M. El Tayebi
Summary: This study investigates the epigenetic regulation of CD80 and mesothelin (MSLN) in tumor-associated macrophages (TAMs) of triple-negative breast cancer (TNBC) and HER2-positive breast cancer. The results show that the manipulation of MALAT1 and HOTAIR expression can influence the expression of CD80 and MSLN in TAMs. Additionally, HOTAIR has an upstream regulatory effect on MALAT1.
FRONTIERS IN MOLECULAR BIOSCIENCES
(2022)
Article
Oncology
Shang-Ju Tang, Guo-Rong You, Joseph T. Chang, Ann-Joy Cheng
Summary: Head and neck cancer (HNC) is one of the most prevalent cancers worldwide, and dysregulation of lncRNAs may disrupt biological pathways in HNC. This study identified a panel of 31 lncRNAs associated with HNC, which could predict patient prognosis.
FRONTIERS IN ONCOLOGY
(2021)
Article
Biotechnology & Applied Microbiology
Soundhar Ramasamy, Shubham Mishra, Surbhi Sharma, Sangamithirai Subramanian Parimalam, Thangavel Vaijayanthi, Yoto Fujita, Basavaraj Kovi, Hiroshi Sugiyama, Ganesh N. Pandian
Summary: This study introduces an internal comparison strategy, IndoC, for detecting RNA modifications, which can analyze modification sites without the need for matched knockout controls. The results show that by comparing the features of modification sites on different sequences, it is possible to effectively distinguish between SNPs and true modifications. The purpose of this research is to address the limitations of current RNA modification detection methods.
Article
Chemistry, Analytical
Yixuan Xie, Kevin A. Janssen, Alessandro Scacchetti, Elizabeth G. Porter, Zongtao Lin, Roberto Bonasio, Benjamin A. Garcia
Summary: Chemical modifications of RNA play important roles in fundamental biological processes and human diseases. However, the analysis of ribonucleoside modifications is challenging due to the hydrophilicity of the molecules. In this study, we developed a solid-phase permethylation method coupled with LC-MS/MS to efficiently analyze the modifications. We successfully identified and quantified more than 60 RNA modifications, and demonstrated the improved sensitivity, efficacy, and robustness of the new method.
ANALYTICAL CHEMISTRY
(2022)
Review
Genetics & Heredity
Daniel del Valle-Morales, Patricia Le, Michela Saviana, Giulia Romano, Giovanni Nigita, Patrick Nana-Sinkam, Mario Acunzo
Summary: Epitranscriptomic modifications can affect the function and regulation of miRNAs, increasing the complexity of miRNA regulation. Recent studies have revealed crosstalk between these modifications, expanding the understanding of miRNA biology.
Review
Biochemistry & Molecular Biology
Elena-Georgiana Dobre, Mihaela Surcel, Carolina Constantin, Mihaela Adriana Ilie, Ana Caruntu, Constantin Caruntu, Monica Neagu
Summary: Early diagnosis is crucial for effectively treating skin cancer. Emerging optical imaging techniques, such as RCM, OCT, MRI, NIR bioimaging, and PET, can provide non-invasive imaging data for early detection and monitoring of cutaneous tumors. These techniques can observe dynamic processes relevant to disease evolution, including blood flow, immune cell activation, and tumor energy metabolism. This review discusses the latest advances in imaging techniques for skin cancer detection and monitoring, highlighting the challenges and opportunities for their implementation in clinical practice and their potential to complement molecular and histological approaches.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Biochemistry & Molecular Biology
Aida Selaru, Alexandra-Elena Mocanu-Dobranici, Elena Olaret, Raluca-Elena Ginghina, Izabela-Cristina Stancu, Marieta Costache, Sorina Dinescu
Summary: In this study, fibrous nanostructured substrates based on fish gelatin enriched with graphene oxide and magnetic nanoparticles were fabricated. The biological properties of these substrates, including cell viability, adhesion, and differentiation, were evaluated. The results showed good interaction between the materials and cells, indicating their potential for tissue engineering applications, with a concentration of 0.5% graphene oxide and magnetic nanoparticles being the most suitable option for biological testing.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Review
Biochemistry & Molecular Biology
Alexandra-Elena Mocanu-Dobranici, Marieta Costache, Sorina Dinescu
Summary: Magnetic materials and stimulation have been widely studied in tissue engineering, especially in the reconstruction of bone and nervous tissue. Magnetic fields and nanoparticles can modulate cell responses and influence cellular structures and gene expression through complex mechanisms. The use of magnetic stimuli can promote stem cell evolution and neurogenic differentiation, as well as regulate calcium channels and CREB phosphorylation in neurodifferentiation. This review provides an updated perspective on the molecular mechanisms behind the cell response to magnetic cues and their potential applications in nervous tissue engineering.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Review
Biochemistry & Molecular Biology
Liliana-Roxana Balahura Stamat, Sorina Dinescu, Marieta Costache
Summary: Researchers have studied the molecular mechanisms of breast cancer initiation and progression, particularly TNBC, to find specific biomarkers for innovative therapeutic strategies. TNBC is characterized by the absence of certain receptors, making it dynamic and aggressive. TNBC progression is associated with dysregulation of the NLRP3 inflammasome, leading to the release of pro-inflammatory cytokines and caspase-1 dependent cell death. Non-coding RNAs play a significant role in the assembly of the NLRP3 inflammasome, TNBC progression, and metastasis, offering potential for diagnosis and therapy.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Biochemistry & Molecular Biology
Andreea D. Lazar, Sorina Dinescu, Lea Sleiman, Adrian V. V. Dumitru, Mariana Costache, Marieta Costache
Summary: Cutaneous melanoma is a highly aggressive and often fatal cancer in its metastatic stages. Limited treatment options are available, and its global incidence is rapidly increasing. By comparing gene and small non-coding RNA expression profiles from different stages of melanoma progression, we have identified abnormal regulation of molecular markers involved in processes such as extracellular matrix remodeling, migration, and angiogenesis. Our findings suggest potential targets for microRNAs and have implications for targeted therapy and clinical management.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Green & Sustainable Science & Technology
Lisa Sougrati, Sophie Wendels, Sorina Dinescu, Liliana-Roxana Balahura (Stamat), Lea Sleiman, Luc Averous
Summary: In this study, sustainable macromolecular architectures were designed and tested to synthesize fully biobased polyfunctional NCO terminated prepolymers. Two-component adhesive systems were prepared, and the properties of the resulting biobased polyurethanes were studied, showing good biocompatibility and potential biomedical application.
SUSTAINABLE MATERIALS AND TECHNOLOGIES
(2023)
Article
Biochemistry & Molecular Biology
Roxana-Olimpia Gheorghe, Andreea Violeta Grosu, Melania Magercu, Mihail-Sebastian Ghenghea, Cristina Elena Zbarcea, Alexandra Tanase, Simona Negres, Alexandru Filippi, Gabriela Chiritoiu, Mihaela Gherghiceanu, Sorina Dinescu, Gisela Gaina, Damir Sapunar, Violeta Ristoiu
Summary: In the early stages after traumatic nerve injury, resident macrophages in the dorsal root ganglia play a crucial role in the development of neuropathic pain. By interacting with the cytoskeleton, these macrophages can be transformed into an anti-inflammatory phenotype, leading to a reduction in neuropathic pain.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Review
Nutrition & Dietetics
Carolina Constantin, Mihaela Surcel, Adriana Munteanu, Monica Neagu, Jean Christopher Chamcheu
Summary: Psoriasis, an autoimmune chronic inflammatory skin condition, is influenced by genetic factors, immune disturbances, and environmental factors, especially the Western lifestyle and overall diet. Obesity is identified as a significant risk factor for psoriasis, aggravating the disease, while weight reduction can improve clinical outcomes. The connection between obesity and psoriasis lies in the pro-inflammatory effects of white adipose tissue, which is an important endocrine organ. This paper emphasizes the importance of nutrition strategies in psoriasis management.
Article
Materials Science, Biomaterials
Andreea M. Pandele, Aida Selaru, Sorina Dinescu, Marieta Costache, Eugeniu Vasile, Constanta Dascalu, Matei D. Raicopol, Mircea Teodorescu
Summary: This study aims to obtain porous scaffolds with improved mechanical properties and biocompatibility by using polymer-modified graphene oxide (GO@PPF) in poly(propylene fumarate)/N-vinyl pyrrolidone(PPF/NVP) networks. The GO@PPF nanofiller was synthesized through a facile and convenient surface esterification reaction, and its successful functionalization was demonstrated. The incorporation of GO@PPF in the polymer matrix leads to denser and more homogenous networks, enhancing the mechanical properties, and the mineralized PPF/NVP/GO@PPF scaffolds showed good biocompatibility with murine pre-osteoblasts in terms of cell viability and proliferation.
JOURNAL OF MATERIALS CHEMISTRY B
(2023)
