How ancient RNA survives and what we can learn from it
Nat Rev Mol Cell Biol. 2024 Mar 28. doi: 10.1038/s41580-024-00726-y. Online ahead of print.NO ABSTRACTPMID:38548931 | DOI:10.1038/s41580-024-00726-y (Source: Mol Biol Cell)
Source: Mol Biol Cell - March 29, 2024 Category: Molecular Biology Authors: Marc R Friedl änder M Thomas P Gilbert Source Type: research
Methods for Intracellular Peptidomic Analysis
Methods Mol Biol. 2024;2758:199-212. doi: 10.1007/978-1-0716-3646-6_10.ABSTRACTPeptides have broad biological significance among different species. Intracellular peptides are considered a particular class of bioactive peptides, whose generation is initiated by proteasomal degradation of cytosolic, nuclear, or mitochondrial proteins. To extract and purify intracellular peptides, which may apply for biological peptides in general, it is important to consider the initial source: tissue, cell, or fluid. First, it is important to proceed fast with inactivation of proteases and/or peptidases commonly present in the biological so...
Source: Mol Biol Cell - March 29, 2024 Category: Molecular Biology Authors: Rosangela A S Eichler Luiz Felipe Martucci Leandro M de Castro Emer S Ferro Source Type: research
Neuropeptidomics of Genetically Defined Cell Types in Mouse Brain
Methods Mol Biol. 2024;2758:213-225. doi: 10.1007/978-1-0716-3646-6_11.ABSTRACTPeptidomic techniques are powerful tools to identify peptides in a biological sample. In the case of brain, which contains a complex mixture of cell types, standard peptidomics procedures reveal the major peptides in a dissected brain region. It is difficult to obtain information on peptides within a specific cell type using standard approaches, unless that cell type can be isolated. This protocol describes a targeted peptidomic approach that uses affinity chromatography to purify peptides that are substrates of carboxypeptidase E (CPE), an enzy...
Source: Mol Biol Cell - March 29, 2024 Category: Molecular Biology Authors: Lloyd D Fricker Source Type: research
An Updated Guide to the Identification, Quantitation, and Imaging of the Crustacean Neuropeptidome
Methods Mol Biol. 2024;2758:255-289. doi: 10.1007/978-1-0716-3646-6_14.ABSTRACTCrustaceans serve as a useful, simplified model for studying peptides and neuromodulation, as they contain numerous neuropeptide homologs to mammals and enable electrophysiological studies at the single-cell and neural circuit levels. Crustaceans contain well-defined neural networks, including the stomatogastric ganglion, oesophageal ganglion, commissural ganglia, and several neuropeptide-rich organs such as the brain, pericardial organs, and sinus glands. As existing mass spectrometry (MS) methods are not readily amenable to neuropeptide studie...
Source: Mol Biol Cell - March 29, 2024 Category: Molecular Biology Authors: Wenxin Wu Lauren Fields Kellen DeLaney Amanda R Buchberger Lingjun Li Source Type: research
Analysis of the Snake Venom Peptidome
Methods Mol Biol. 2024;2758:319-329. doi: 10.1007/978-1-0716-3646-6_17.ABSTRACTSnake venom peptidomes are known to be a large source of molecules with different pharmacological properties. The complexity and variability of snake venoms, the presence of proteinases, and the lack of complete species-specific genome sequences make snake venom peptidome profiling a challenging task that requires especial technical strategies for sample processing and mass spectrometric analysis. Here, we describe a method for assessing the content of snake venom peptides and highlight the importance of sampling procedures, as they substantiall...
Source: Mol Biol Cell - March 29, 2024 Category: Molecular Biology Authors: Solange M T Serrano Andr é Zelanis Jackson G Miyamoto Jackelinne Y Hayashi Eduardo S Kitano Alexandre K Tashima Source Type: research
Identification of Peptides in Spider Venom Using Mass Spectrometry
Methods Mol Biol. 2024;2758:331-340. doi: 10.1007/978-1-0716-3646-6_18.ABSTRACTSpider venoms are composed of hundreds of proteins and peptides. Several of these venom toxins are cysteine-rich peptides in the mass range of 3-9 kDa. Small peptides (<3 kDa) can be fully characterized by mass spectrometry analysis, while proteins are generally identified by the bottom-up approach in which proteins are first digested with trypsin to generate shorter peptides for MS/MS characterization. In general, it is sufficient for protein identification to sequence two or more peptides, but for venom peptidomics it is desirable to comple...
Source: Mol Biol Cell - March 29, 2024 Category: Molecular Biology Authors: Erika S Nishiduka Rafael L Lomazi Pedro I da Silva Alexandre K Tashima Source Type: research
Mass Spectrometry-Based Immunopeptidomics of Peptides Presented on Human Leukocyte Antigen Proteins
Methods Mol Biol. 2024;2758:425-443. doi: 10.1007/978-1-0716-3646-6_23.ABSTRACTHuman leukocyte antigen (HLA) proteins are a group of glycoproteins that are expressed at the cell surface, where they present peptides to T cells through physical interactions with T-cell receptors (TCRs). Hence, characterizing the set of peptides presented by HLA proteins, referred to hereafter as the immunopeptidome, is fundamental for neoantigen identification, immunotherapy, and vaccine development. As a result, different methods have been used over the years to identify peptides presented by HLA proteins, including competition assays, pept...
Source: Mol Biol Cell - March 29, 2024 Category: Molecular Biology Authors: Hesham ElAbd Andre Franke Source Type: research
RNAi-mediated knockdown of exportin 1 negatively affected ovary development, survival and maize mosaic virus accumulation in its insect vector Peregrinus maidis
Insect Mol Biol. 2024 Mar 29. doi: 10.1111/imb.12910. Online ahead of print.ABSTRACTExportin 1 (XPO1) is the major karyopherin-β nuclear receptor mediating the nuclear export of hundreds of proteins and some classes of RNA and regulates several critical processes in the cell, including cell-cycle progression, transcription and translation. Viruses have co-opted XPO1 to promote nucleocytoplasmic transport of viral proteins and RNA. Maize mosaic virus (MMV) is a plant-infecting rhabdovirus transmitted in a circulative propagative manner by the corn planthopper, Peregrinus maidis. MMV replicates in the nucleus of plant and i...
Source: Mol Biol Cell - March 29, 2024 Category: Molecular Biology Authors: Cesar A D Xavier Clara Tyson Leo M Kerner Anna E Whitfield Source Type: research
Structural analysis of resistance-nodulation cell division transporters
Microbiol Mol Biol Rev. 2024 Mar 29:e0019823. doi: 10.1128/mmbr.00198-23. Online ahead of print.ABSTRACTSUMMARYInfectious bacteria have both intrinsic and acquired mechanisms to combat harmful biocides that enter the cell. Through adaptive pressures, many of these pathogens have become resistant to many, if not all, of the current antibiotics used today to treat these often deadly infections. One prominent mechanism is the upregulation of efflux systems, especially the resistance-nodulation-cell division class of exporters. These tripartite systems consist of an inner membrane transporter coupled with a periplasmic adaptor...
Source: Mol Biol Cell - March 29, 2024 Category: Molecular Biology Authors: Philip A Klenotic Edward W Yu Source Type: research
Extracellular vesicles derived from human foreskin cells (hFS-Exo) accelerate cell migration and angiogenesis through MAPK pathway: an in vitro study
CONCLUSIONS: hFS-Exo could be a new promising wound healing agent in the future.PMID:38551706 | DOI:10.1007/s11033-024-09378-9 (Source: Mol Biol Cell)
Source: Mol Biol Cell - March 29, 2024 Category: Molecular Biology Authors: Derya Sa ğraç Safa Ayd ın O ğuz Kaan Kırbaş Dilek Öztürkoğlu Fikrettin Şahin Source Type: research
Interplay between paclitaxel, gap junctions, and kinases: unraveling mechanisms of action and resistance in cancer therapy
Mol Biol Rep. 2024 Mar 29;51(1):472. doi: 10.1007/s11033-024-09411-x.ABSTRACTThis comprehensive review elucidates the multifaceted roles of paclitaxel, a key chemotherapeutic agent, in cancer therapy, with a focus on its interactions with gap junctions and related kinases. Paclitaxel, with its complex diterpene structure, mediates its anticancer effects predominantly through specific interactions with β-tubulin, instigating cell cycle arrest and triggering various cell death pathways, including apoptosis, pyroptosis, ferroptosis, and necroptosis. The paper systematically delineates the chemical attributes and action mecha...
Source: Mol Biol Cell - March 29, 2024 Category: Molecular Biology Authors: Dong-Oh Moon Source Type: research
Adenosine receptors in breast cancer
Mol Biol Rep. 2024 Mar 29;51(1):464. doi: 10.1007/s11033-024-09382-z.ABSTRACTAdenosine receptors are important in the normal physiological function of cells and the pathogenesis of various cancer cells, including breast cancer cells. The activity of adenosine receptors in cancer cells is related to cell proliferation, angiogenesis, metastasis, immune system evasion, and interference with apoptosis. Considering the different roles of adenosine receptors in cancer cells, we intend to investigate the function of adenosine receptors and their biological pathways in breast cancer to improve understanding of therapeutically rele...
Source: Mol Biol Cell - March 29, 2024 Category: Molecular Biology Authors: Mahsa Mahdizadeh Nadia Heydari Afsaneh Shafiei Hamideh Akbari Seyyed Mehdi Jafari Source Type: research
Leveraging stem cells to combat hepatitis: a comprehensive review of recent studies
The objective of this review is to primarily concentrate on the ongoing and future clinical trials that assess the application of stem cell therapy in the context of hepatitis, including the transplantation of autologous bone marrow-derived stem cells, human induced pluripotent stem cells, and other mesenchymal stem cells. In addition, this review will explore the potential merits and constraints linked to stem cell therapy for hepatitis, as well as its prospective implications in the management of this disease.PMID:38551743 | DOI:10.1007/s11033-024-09391-y (Source: Mol Biol Cell)
Source: Mol Biol Cell - March 29, 2024 Category: Molecular Biology Authors: Ramin Raoufinia Ali Arabnezhad Neda Keyhanvar Nima Abdyazdani Ehsan Saburi Nima Naseri Fereshteh Niazi Faezeh Niazi Ali Beheshti Namdar Hamid Reza Rahimi Source Type: research
Osteosarcoma cells exhibit functional interactions with stromal cells, fostering a lung microenvironment conducive to the establishment of metastatic tumor cells
CONCLUSIONS: Our assessment focused on two complementary tumor capabilities crucial to metastatic spread, emphasizing the significance of inherent cell features. The findings underscore the pivotal role of signaling integration within the niche, with a complex interplay of migratory responses among established OS cells in the lungs, prometastatic OS cells in the primary tumor, and circulating MSCs. Pulmonary metastases continue to be a significant factor contributing to OS mortality. Understanding these mechanisms and identifying differentially expressed genes is essential for pinpointing markers and targets to manage meta...
Source: Mol Biol Cell - March 29, 2024 Category: Molecular Biology Authors: Mat ías J P Valenzuela Alvarez Luciana M Gutierrez Juan M Bayo Mar ía J Cantero Mariana G Garcia Marcela F Bolontrade Source Type: research
The implications of exosomes in psoriasis: disease: emerging as new diagnostic markers and therapeutic targets
Mol Biol Rep. 2024 Mar 29;51(1):465. doi: 10.1007/s11033-024-09449-x.ABSTRACTAs the largest human organ, the skin is continuously exposed to various external and internal triggers that affect body homeostasis. Psoriasis is a persistent inflammatory skin condition that has a major bearing on patients' physiological functioning as well as their mental well-being. It is an autoimmune disorder and has been the focus of extensive research efforts in recent years. Cells secrete exosomes into the environment surrounding them, which comprises a lipid bilayer. The movement of cellular components like microRNAs, mRNAs, DNA, lipids, ...
Source: Mol Biol Cell - March 29, 2024 Category: Molecular Biology Authors: Zahra Akbari Jonoush Roya Mahdavi Masoumeh Farahani Fatemeh Zeinali Elahe Shayan Afshin Amari Source Type: research
