FEBS LettersPub Date : 2025-06-26DOI: 10.1002/1873-3468.70101
Margarida D Amaral, Ines Pankonien
{"title":"Cystic fibrosis as a paradigmatic disease in bringing science to the bedside.","authors":"Margarida D Amaral, Ines Pankonien","doi":"10.1002/1873-3468.70101","DOIUrl":"https://doi.org/10.1002/1873-3468.70101","url":null,"abstract":"<p><p>Cystic fibrosis (CF) is a recessive disorder caused by mutations in the gene encoding cystic fibrosis transmembrane conductance regulator (CFTR), a chloride/bicarbonate channel that balances fluid homeostasis in epithelia. CFTR dysfunction results in chronic lung infections, pancreatic insufficiency, and salty sweat. Since the discovery of the CFTR gene in 1989, a unique scientific community in both academia and industry has significantly increased our understanding of CF mechanisms. Such knowledge led to spectacular advancements in treatment, from symptom management to CFTR modulators (CFTRm) that alter the mutant protein properties in a mutation-specific way, significantly improving life quality and expectancy of people with CF (pwCF). Emerging genotype-agnostic approaches, such as gene/mRNA therapy, hold promise for future curative treatments for all pwCF. In parallel, precision medicine is revolutionizing CF care through patient-specific therapies, namely for pwCF with genotypes not eligible for CFTRm. However, challenges remain, including high treatment costs, accessibility issues, variable patient responses, and, importantly, the high cancer propensity in pwCF. CF is a model for translational medicine, highlighting the relevance of fundamental research. Insights gained from CF research may also inform therapeutic advancements for other (genetic) diseases.</p>","PeriodicalId":12142,"journal":{"name":"FEBS Letters","volume":" ","pages":""},"PeriodicalIF":3.5,"publicationDate":"2025-06-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144505203","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
FEBS LettersPub Date : 2025-06-24DOI: 10.1002/1873-3468.70097
Bing Yao, Qiangbing Yang, Christian J.B. Snijders Blok, Mark A. Daniels, Pieter A. Doevendans, Raymond Schiffelers, Joost P.G. Sluijter, Zhiyong Lei
{"title":"Insights into pegRNA design from editing of the cardiomyopathy-associated phospholamban R14del mutation","authors":"Bing Yao, Qiangbing Yang, Christian J.B. Snijders Blok, Mark A. Daniels, Pieter A. Doevendans, Raymond Schiffelers, Joost P.G. Sluijter, Zhiyong Lei","doi":"10.1002/1873-3468.70097","DOIUrl":"10.1002/1873-3468.70097","url":null,"abstract":"<p>Prime editing (PE) represents a transformative genome-editing technology and enables precise insertions, deletions, and base substitutions without introducing double-strand breaks, thereby reducing undesired indels and off-target effects. Despite advancements in enhanced prime editors and optimized prime editing guide RNAs (pegRNAs), designing effective pegRNAs remains a major challenge. The phospholamban (<i>PLN</i>) R14del mutation is associated with cardiomyopathies, making it a crucial target for precise gene-editing strategies. In this study, we explored pegRNA features that contribute to high editing efficiency using the FluoPEER.<i>PLN</i> R14del reporter cell line. Through systematic screening, we identified three pegRNAs with significantly enhanced editing efficiency. Our findings underscore the importance of pegRNA secondary structure and stability in optimizing prime editing, providing valuable insights into precise gene correction strategies.</p>","PeriodicalId":12142,"journal":{"name":"FEBS Letters","volume":"599 17","pages":"2543-2554"},"PeriodicalIF":3.0,"publicationDate":"2025-06-24","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://febs.onlinelibrary.wiley.com/doi/epdf/10.1002/1873-3468.70097","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144474387","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
FEBS LettersPub Date : 2025-06-17DOI: 10.1002/1873-3468.70096
Saubhik Som, Gopalapura J. Vishalakshi, Lekha E. Manjunath, Debraj Manna, Kirtana Vasu, Anumeha Singh, Humaira Siddiqua, Sandeep M. Eswarappa
{"title":"A rapid in vivo assay to study the regulation of gene expression","authors":"Saubhik Som, Gopalapura J. Vishalakshi, Lekha E. Manjunath, Debraj Manna, Kirtana Vasu, Anumeha Singh, Humaira Siddiqua, Sandeep M. Eswarappa","doi":"10.1002/1873-3468.70096","DOIUrl":"10.1002/1873-3468.70096","url":null,"abstract":"<p>Traditional <i>in vivo</i> studies of gene regulation often require labor-intensive protocols and animal sacrifice. Here, we present a minimally invasive method—<i>In Vivo</i> Imaging of Subcutaneous Luminescence (IVISc-L)—for analyzing gene regulation in live mice. The assay involves subcutaneous injection of plasmid DNA encoding firefly luciferase, the expression of which is controlled by the regulatory mechanism under investigation. Luminescence from the injection site is detected and quantified noninvasively using an <i>in vivo</i> imaging system within 24 h. We demonstrate the utility of this approach to study promoter activity, microRNA-mediated regulation, stop codon readthrough, and rare codon effects. IVISc-L eliminates the need for tissue extraction, offering a rapid and scalable platform for investigating gene expression dynamics and screening gene regulatory modulators <i>in vivo</i>.</p>","PeriodicalId":12142,"journal":{"name":"FEBS Letters","volume":"599 17","pages":"2523-2532"},"PeriodicalIF":3.0,"publicationDate":"2025-06-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144316229","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
FEBS LettersPub Date : 2025-06-17DOI: 10.1002/1873-3468.70092
Jiping Yang, Tao Liu, Xianqing Mai, Shengyan Kong, Jingjing He, Zhenhua Wang, Jie Shen, Xiaohua He, Yongmei Xing, Hongwu Qian, Pei Tong
{"title":"An amphipol-stabilized multi-pass transmembrane protein as an immunogen to generate mouse memory B cells against native VMAT2","authors":"Jiping Yang, Tao Liu, Xianqing Mai, Shengyan Kong, Jingjing He, Zhenhua Wang, Jie Shen, Xiaohua He, Yongmei Xing, Hongwu Qian, Pei Tong","doi":"10.1002/1873-3468.70092","DOIUrl":"10.1002/1873-3468.70092","url":null,"abstract":"<p>Multi-pass transmembrane proteins (MPTPs) are essential for sensing and processing cellular signals and are the primary drug targets of more than half of the approved drugs, the majority being small molecules. However, monoclonal antibodies with favorable properties in modulating MPTPs are rare. Such antibody discovery is limited by the challenging preparation of correctly folded antigens and the generation of antibodies against the natural conformation of MPTPs. Here, we developed an amphipol-trapped antigen as an immunogen and induced efficient mouse memory B cell responses. We generated antibodies unbiasedly by culturing single memory B cells and characterized their specificities. We implemented our strategy to generate high-affinity antibodies against the native conformation of vesicular monoamine transporter 2 (VMAT2; also known as SLC18A2), demonstrating the potential use in discovering antibodies against MPTPs for therapeutics.</p>","PeriodicalId":12142,"journal":{"name":"FEBS Letters","volume":"599 18","pages":"2629-2643"},"PeriodicalIF":3.0,"publicationDate":"2025-06-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144316230","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Purification tags markedly affect self-aggregation of CPEB3.","authors":"Harunobu Saito, Yujin Lee, Motoharu Ueno, Naotaka Sekiyama, Masatomo So, Ayako Furukawa, Kenji Sugase","doi":"10.1002/1873-3468.70090","DOIUrl":"https://doi.org/10.1002/1873-3468.70090","url":null,"abstract":"<p><p>Since protein aggregation-including liquid-liquid phase separation (LLPS) and amyloid fibril formation-plays a critical role in both diseases and biological functions, understanding the mechanisms underlying protein aggregation is essential. Recombinant proteins are commonly used in vitro to investigate protein aggregation processes. However, if the purification tags remain uncleaved, they may affect the results and hinder accurate interpretation. Our findings demonstrate that the His<sub>6</sub>-GFP and His<sub>12</sub> tags significantly affect liquid droplet and amyloid fibril formation in the intrinsically disordered region (IDR) of mouse cytoplasmic polyadenylation element-binding protein 3 (CPEB3) and its fragments. This study shows that the purification tags significantly affect aggregation assays, making it essential to account for their influence to accurately interpret protein aggregation.</p>","PeriodicalId":12142,"journal":{"name":"FEBS Letters","volume":" ","pages":""},"PeriodicalIF":3.5,"publicationDate":"2025-06-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144316234","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
FEBS LettersPub Date : 2025-06-17DOI: 10.1002/1873-3468.70095
Yuya Hanazono, Saaya Yabuno, Takahiro Hayashi, Nobutaka Numoto, Yuji O. Kamatari, Nobutoshi Ito, Masayuki Oda
{"title":"Crystal structures reveal how the multispecific antibody G2 achieves binding to different peptides","authors":"Yuya Hanazono, Saaya Yabuno, Takahiro Hayashi, Nobutaka Numoto, Yuji O. Kamatari, Nobutoshi Ito, Masayuki Oda","doi":"10.1002/1873-3468.70095","DOIUrl":"10.1002/1873-3468.70095","url":null,"abstract":"<p>Monoclonal antibody G2, obtained via immunization with the chicken prion protein (ChPrP), has unique antigen-binding specificity. G2 specifically binds to the ChPrP-derived peptide (Pep18mer) as expected, but also to three other peptides. In this study, we determined the crystal structures of G2 single-chain Fv antibodies covalently linked to Pep18mer and another peptide, PepH4P6. Both bound peptides formed similar U-shaped structures that stuck into the G2 antigen-binding pocket. Their three-dimensional structures were stabilized by interactions within the peptides, and the structure of the bound Pep18mer was similar to that of the corresponding ChPrP region. G2 acquired the binding ability to both Pep18mer and PepH4P6 via deletion of the 95th residue of the light chain during affinity maturation, consistent with our structural analysis.</p>","PeriodicalId":12142,"journal":{"name":"FEBS Letters","volume":"599 13","pages":"1925-1934"},"PeriodicalIF":3.0,"publicationDate":"2025-06-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144316233","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
FEBS LettersPub Date : 2025-06-17DOI: 10.1002/1873-3468.70094
Soma Sato, Mitsuaki Hirose, Hitoshi Tamiaki, Hisashi Ito
{"title":"Chelatase activity of magnesium dechelatase associated with chlorophyll degradation","authors":"Soma Sato, Mitsuaki Hirose, Hitoshi Tamiaki, Hisashi Ito","doi":"10.1002/1873-3468.70094","DOIUrl":"10.1002/1873-3468.70094","url":null,"abstract":"<p>Metalated tetrapyrrole molecules play crucial roles in respiration, photosynthesis, and biocatalysis. In this study, the chelatase activity of the bacterial magnesium dechelatase homologous gene, which encodes an enzyme that extracts the central magnesium ion from chlorophyll, was demonstrated. The recombinant protein inserted metal ions, such as zinc, into methyl pyropheophorbide <i>a</i>, a synthetic derivative of chlorophyll <i>a</i>. Mutation analysis and structural modeling suggested H32, D34, and D62 as key residues involved in coordinating metal ions and facilitating proton extraction from methyl pyropheophorbide <i>a</i>. Chelatase activity was also found in the recombinant plant magnesium dechelatase protein. The bacterial gene complemented <i>Escherichia coli</i> ferrochelatase mutants. These findings provide novel insights into the mechanisms underlying chelation reactions.</p>","PeriodicalId":12142,"journal":{"name":"FEBS Letters","volume":"599 15","pages":"2210-2219"},"PeriodicalIF":3.0,"publicationDate":"2025-06-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144316231","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
FEBS LettersPub Date : 2025-06-17DOI: 10.1002/1873-3468.70093
José Luis García-Gimenez, Juan Carlos Ruiz-Rodríguez, Ricard Ferrer, Raquel Durá, Antonio Artigas, Iván Bajaña, David Bolado López de Andujar, Irene Cánovas-Cervera, Adrián Ceccato, Luis Chiscano-Camón, Elena Climent-Martinez, Georgia García Fernández, Gemma Goma, Verónica Monforte, Beatriz Quevedo-Sánchez, Adolf Ruiz-Sanmartín, Antonio Sierra-Rivera, Nieves Carbonell Monleón
{"title":"Circulating histones as clinical biomarkers in critically ill conditions.","authors":"José Luis García-Gimenez, Juan Carlos Ruiz-Rodríguez, Ricard Ferrer, Raquel Durá, Antonio Artigas, Iván Bajaña, David Bolado López de Andujar, Irene Cánovas-Cervera, Adrián Ceccato, Luis Chiscano-Camón, Elena Climent-Martinez, Georgia García Fernández, Gemma Goma, Verónica Monforte, Beatriz Quevedo-Sánchez, Adolf Ruiz-Sanmartín, Antonio Sierra-Rivera, Nieves Carbonell Monleón","doi":"10.1002/1873-3468.70093","DOIUrl":"https://doi.org/10.1002/1873-3468.70093","url":null,"abstract":"<p><p>Extracellular histones, primarily nuclear proteins involved in chromatin organization, have emerged as key mediators in pathological processes in critically ill patients. When released into circulation due to cell death mechanisms such as NETosis, histones act as damage-associated molecular patterns (DAMPs), contributing to excessive inflammation, endothelial dysfunction, immune response dysregulation, coagulation activation, cell death, and multi-organ damage. Increasing evidence supports their role in the pathophysiology of sepsis, acute lung injury, cardiac injury, pancreatitis, and other life-threatening conditions. Given their strong association with disease severity and prognosis, circulating histones have gained attention as potential clinical biomarkers for early diagnosis, prognosis, and therapeutic monitoring in critically ill patients. This review discusses the biological roles of extracellular histones, their potential as biomarkers, different approaches to measure them, and emerging therapeutic strategies aimed at neutralizing or removing circulating histones to improve patient outcomes in severe medical conditions. Impact statement This review highlights extracellular histones as key mediators and biomarkers in sepsis, proposing their use in diagnosis, prognosis, and treatment monitoring. Integrating quantitative proteomics for the detection of circulating histones may enhance patient stratification and guide therapeutic strategies, advancing personalized medicine in critical care.</p>","PeriodicalId":12142,"journal":{"name":"FEBS Letters","volume":" ","pages":""},"PeriodicalIF":3.5,"publicationDate":"2025-06-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144316232","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
FEBS LettersPub Date : 2025-06-12DOI: 10.1002/1873-3468.70091
Macarena Las Heras, Benjamín Szenfeld, Valeria Olguín, Juan Carlos Rubilar, Juan Francisco Calderón, Yanireth Jimenez, Silvana Zanlungo, Emanuele Buratti, Andrea Dardis, Francisco A. Cubillos, Andrés D. Klein
{"title":"Genomic modifiers of neurological resilience in a Niemann-Pick C family","authors":"Macarena Las Heras, Benjamín Szenfeld, Valeria Olguín, Juan Carlos Rubilar, Juan Francisco Calderón, Yanireth Jimenez, Silvana Zanlungo, Emanuele Buratti, Andrea Dardis, Francisco A. Cubillos, Andrés D. Klein","doi":"10.1002/1873-3468.70091","DOIUrl":"10.1002/1873-3468.70091","url":null,"abstract":"<p>Niemann-Pick type C (NPC) disease, caused by <i>NPC1</i> or <i>NPC2</i> variants, disrupts cholesterol and glycolipid trafficking, leading to diverse clinical manifestations. To understand the genetic basis of neurological resilience, we analyzed an NPC family with variable phenotypes, identifying loss-of-function variants in <i>CCDC115</i>, <i>SLC4A5</i>, <i>DEPDC5</i>, <i>ETFDH</i>, <i>SNRNP200</i>, and <i>DOCK1</i> that co-segregated with milder neurological involvement. Using yeast models, we successfully predicted NPC-like severity based on orthologous gene variants. RNA-seq revealed a positive correlation between mitochondrial transcripts and cellular fitness. Modeling NPC in yeast lacking the <i>SLC4A5</i> ortholog, <i>bor1</i>, enhanced cellular fitness, improved mitochondrial function, and reduced sterol accumulation. Our findings identify potential modifiers and biomarkers of NPC severity, highlighting mitochondrial pathways and <i>SLC4A5</i> as a therapeutic target.</p><p>\u0000 \u0000 </p>","PeriodicalId":12142,"journal":{"name":"FEBS Letters","volume":"599 18","pages":"2582-2597"},"PeriodicalIF":3.0,"publicationDate":"2025-06-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144283072","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Mycobacterium tuberculosis virulence-associated small RNA MTS1338 is posttranscriptionally regulated by the ribonuclease YbeY","authors":"Reena Nirban, Saumya Singh, Rajkumar Kulandaisamy, Krishna Kishore Inampudi, Tanmay Dutta","doi":"10.1002/1873-3468.70089","DOIUrl":"10.1002/1873-3468.70089","url":null,"abstract":"<p>The bacterial protein YbeY is essential for ribosome biogenesis, heat stress response, small RNA regulation, and virulence, with its deletion proving lethal or severely detrimental to cell viability. Despite its importance, the role of YbeY in <i>Mycobacterium tuberculosis</i> remains unclear. In this study, we purified mycobacterial YbeY (MtbYbeY), characterized its catalytic properties, and investigated its role in regulating the virulence-associated small RNA MTS1338. MtbYbeY exhibits <i>in vitro</i> rRNA degradation and metal-dependent phosphodiesterase activity. It degrades MTS1338 into distinct RNA fragments, and its overexpression leads to a marked reduction in MTS1338 levels <i>in vivo</i>. This degradation is further supported by their inverse abundance under acidic conditions. Our findings reveal a previously unrecognized ribonuclease-mediated mechanism of small RNA regulation in <i>M. tuberculosis</i>.</p><p>\u0000 \u0000 </p>","PeriodicalId":12142,"journal":{"name":"FEBS Letters","volume":"599 12","pages":"1669-1681"},"PeriodicalIF":3.0,"publicationDate":"2025-06-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144257668","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}