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IF 11.6 1区 生物学
Trends in Biochemical Sciences Pub Date : 2025-04-01 DOI: 10.1016/S0968-0004(25)00069-6
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引用次数: 0
Decoding ceramide function: how localization shapes cellular fate and how to study it 解码神经酰胺功能：定位如何塑造细胞命运以及如何研究它。
IF 11.6 1区 生物学
Trends in Biochemical Sciences Pub Date : 2025-04-01 DOI: 10.1016/j.tibs.2025.01.007
Shweta Chitkara , G. Ekin Atilla-Gokcumen
{"title":"Decoding ceramide function: how localization shapes cellular fate and how to study it","authors":"Shweta Chitkara ,&nbsp;G. Ekin Atilla-Gokcumen","doi":"10.1016/j.tibs.2025.01.007","DOIUrl":"10.1016/j.tibs.2025.01.007","url":null,"abstract":"<div><div>Recent studies emphasize that lipid synthesis, metabolism, and transport are crucial in modulating lipid function, underscoring the significance of lipid localization within the cell, in addition to their chemical structure. Ceramides stand out in this context because of their multifaceted roles in cellular processes. Here, we focus on the role of ceramides in apoptosis, senescence, and autophagy as these processes offer unique and contrasting perspectives on how ceramides function and can be intricately linked to their subcellular localization, providing critical insights into their complex biological interactions. Additionally, we highlight recent advancements in tools and techniques that have boosted our understanding of ceramide dynamics and different mechanisms of lipid functioning.</div></div>","PeriodicalId":440,"journal":{"name":"Trends in Biochemical Sciences","volume":"50 4","pages":"Pages 356-367"},"PeriodicalIF":11.6,"publicationDate":"2025-04-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143497868","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Recent advances in enzymes active on lignin-derived aromatic compounds 木质素衍生芳香族化合物活性酶研究进展。
IF 11.6 1区 生物学
Trends in Biochemical Sciences Pub Date : 2025-04-01 DOI: 10.1016/j.tibs.2025.01.005
Megan E. Wolf , Lindsay D. Eltis
{"title":"Recent advances in enzymes active on lignin-derived aromatic compounds","authors":"Megan E. Wolf ,&nbsp;Lindsay D. Eltis","doi":"10.1016/j.tibs.2025.01.005","DOIUrl":"10.1016/j.tibs.2025.01.005","url":null,"abstract":"<div><div>Lignin is an attractive alternative to fossil fuels as a feedstock for the sustainable manufacture of chemicals. Emergent strategies for lignin valorization include tandem processes whereby thermochemical fractionation of the biomass yields a mixture of lignin-derived aromatic compounds (LDACs), which are then transformed into target compounds by a microbial cell factory. Identifying LDAC-degrading pathways is critical to optimize carbon yield from diverse depolymerization mixtures. Characterizing enzymes – especially those that catalyze the rate-limiting steps of <em>O</em>-demethylation, hydroxylation, and decarboxylation – informs and enables biocatalyst design. Rational, structure-based engineering of key enzymes, as well as untargeted, evolution-based approaches, further optimize biocatalysis. In this review we outline recent advances in these fields which are critical in developing biocatalysts to efficiently synthesize lignin-based bioproducts.</div></div>","PeriodicalId":440,"journal":{"name":"Trends in Biochemical Sciences","volume":"50 4","pages":"Pages 322-331"},"PeriodicalIF":11.6,"publicationDate":"2025-04-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143424687","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Balancing act: lipid-to-protein ratios steer the aggregation fate of α-synuclein 平衡作用：脂质与蛋白质的比例控制α-突触核蛋白的聚集命运。
IF 11.6 1区 生物学
Trends in Biochemical Sciences Pub Date : 2025-04-01 DOI: 10.1016/j.tibs.2025.02.001
Christian Blum , Mireille M.A.E. Claessens
{"title":"Balancing act: lipid-to-protein ratios steer the aggregation fate of α-synuclein","authors":"Christian Blum ,&nbsp;Mireille M.A.E. Claessens","doi":"10.1016/j.tibs.2025.02.001","DOIUrl":"10.1016/j.tibs.2025.02.001","url":null,"abstract":"<div><div>A recent report by <span><span>Makasewicz <em>et al.</em></span><svg><path></path></svg></span> delineates how α-synuclein (αSyn) membrane-binding modes drive amyloid formation. Their <em>in vitro</em> data reveal a lipid-to-protein (L/P) ratio tipping point influencing fibril formation. Preliminary validation from existing literature supports that these findings are also relevant in cellular contexts, informing potential new disease-modulating strategies.</div></div>","PeriodicalId":440,"journal":{"name":"Trends in Biochemical Sciences","volume":"50 4","pages":"Pages 285-286"},"PeriodicalIF":11.6,"publicationDate":"2025-04-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143514139","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Decoding human chemical reprogramming: mechanisms and principles. 解码人类化学重编程：机制和原理。
IF 11.6 1区 生物学
Trends in Biochemical Sciences Pub Date : 2025-03-31 DOI: 10.1016/j.tibs.2025.03.004
Lin Cheng, Yanglu Wang, Jingyang Guan, Hongkui Deng
{"title":"Decoding human chemical reprogramming: mechanisms and principles.","authors":"Lin Cheng, Yanglu Wang, Jingyang Guan, Hongkui Deng","doi":"10.1016/j.tibs.2025.03.004","DOIUrl":"https://doi.org/10.1016/j.tibs.2025.03.004","url":null,"abstract":"<p><p>Pluripotent stem cells hold great promise as an unlimited resource for regenerative medicine due to their capacity to self-renew and differentiate into various cell types. Chemical reprogramming using small molecules precisely regulates cell signaling pathways and epigenetic states, providing a novel approach for generating human pluripotent stem cells. Since its successful establishment in 2022, human chemical reprogramming has rapidly achieved significant progress, demonstrating its significant potential in regenerative medicine. Mechanistic analyses have revealed distinct molecular pathways and regulatory mechanisms unique to chemical reprogramming, differing from traditional transcription-factor-driven methods. In this review we highlight recent advancements in our understanding of the mechanisms of human chemical reprogramming, with the goal of enhancing insights into the principles of cell fate control and advancing regenerative medicine.</p>","PeriodicalId":440,"journal":{"name":"Trends in Biochemical Sciences","volume":" ","pages":""},"PeriodicalIF":11.6,"publicationDate":"2025-03-31","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143762782","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Mitochondrial heat production: the elephant in the lab…. 线粒体产热：实验室里的大象....
IF 11.6 1区 生物学
Trends in Biochemical Sciences Pub Date : 2025-03-31 DOI: 10.1016/j.tibs.2025.03.002
Pierre Rustin, Howard T Jacobs, Mügen Terzioglu, Paule Bénit
{"title":"Mitochondrial heat production: the elephant in the lab….","authors":"Pierre Rustin, Howard T Jacobs, Mügen Terzioglu, Paule Bénit","doi":"10.1016/j.tibs.2025.03.002","DOIUrl":"https://doi.org/10.1016/j.tibs.2025.03.002","url":null,"abstract":"<p><p>It has long been established that heat represents a major part of the energy released during the oxidation of mitochondrial substrates. However, with a few exceptions, the release of heat is rarely mentioned other than as being produced at the expense of ATP, without having any specific function. Here, after briefly surveying the literature on mitochondrial heat production, we argue for its cellular and organismal importance, sharing our opinions as to what could account for this unbalanced portrayal of mitochondrial energy transactions.</p>","PeriodicalId":440,"journal":{"name":"Trends in Biochemical Sciences","volume":" ","pages":""},"PeriodicalIF":11.6,"publicationDate":"2025-03-31","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143762783","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Understanding mitochondrial protein import: a revised model of the presequence translocase. 理解线粒体蛋白的输入：一个修正的前序转位酶模型。
IF 11.6 1区 生物学
Trends in Biochemical Sciences Pub Date : 2025-03-27 DOI: 10.1016/j.tibs.2025.03.001
Naintara Jain, Agnieszka Chacinska, Peter Rehling
{"title":"Understanding mitochondrial protein import: a revised model of the presequence translocase.","authors":"Naintara Jain, Agnieszka Chacinska, Peter Rehling","doi":"10.1016/j.tibs.2025.03.001","DOIUrl":"https://doi.org/10.1016/j.tibs.2025.03.001","url":null,"abstract":"<p><p>Mitochondrial function relies on the precise targeting and import of cytosolic proteins into mitochondrial subcompartments. Most matrix-targeted proteins follow the presequence pathway, which directs precursor proteins across the outer mitochondrial membrane (OMM) via the Translocase of the Outer Membrane (TOM) complex and into the matrix or inner mitochondrial membrane (IMM) via the Translocase of the Inner Membrane 23 (TIM23) complex. While classical biochemical studies provided detailed mechanistic insights into the composition and mechanism of the TIM23 complex, recent cryogenic-electron microscopy (cryo-EM) data challenge these established models and propose a revised model of translocation in which the TIM17 subunit acts as a 'slide' for precursor proteins, with Tim23 acting as a structural element. In this review, we summarize existing models, highlighting the questions and data needed to reconcile these perspectives, and enhance our understanding of TIM23 complex function.</p>","PeriodicalId":440,"journal":{"name":"Trends in Biochemical Sciences","volume":" ","pages":""},"PeriodicalIF":11.6,"publicationDate":"2025-03-27","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143741927","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
The emerging roles of S-acylation in autophagy. s -酰化在自噬中的新作用。
IF 11.6 1区 生物学
Trends in Biochemical Sciences Pub Date : 2025-03-26 DOI: 10.1016/j.tibs.2025.02.007
Jia Yao, Chunyang Xie, Aimin Yang
{"title":"The emerging roles of S-acylation in autophagy.","authors":"Jia Yao, Chunyang Xie, Aimin Yang","doi":"10.1016/j.tibs.2025.02.007","DOIUrl":"https://doi.org/10.1016/j.tibs.2025.02.007","url":null,"abstract":"<p><p>Autophagy is an intracellular degradation system that delivers cytoplasmic materials to the lysosome. S-acylation, a reversible post-translational modification that attaches long-chain fatty acids to cysteine residues within proteins, has recently emerged as an important regulatory mechanism for autophagy. In this forum article, we review and discuss the emerging roles of S-acylation in autophagy.</p>","PeriodicalId":440,"journal":{"name":"Trends in Biochemical Sciences","volume":" ","pages":""},"PeriodicalIF":11.6,"publicationDate":"2025-03-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143727509","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
AID/APOBEC: an expanding repertoire of targets and functions. AID/APOBEC：目标和职能的扩展曲目。
IF 11.6 1区 生物学
Trends in Biochemical Sciences Pub Date : 2025-03-24 DOI: 10.1016/j.tibs.2025.02.006
Lucyna Budzko, Aleksandra Mierzwa, Marek Figlerowicz
{"title":"AID/APOBEC: an expanding repertoire of targets and functions.","authors":"Lucyna Budzko, Aleksandra Mierzwa, Marek Figlerowicz","doi":"10.1016/j.tibs.2025.02.006","DOIUrl":"https://doi.org/10.1016/j.tibs.2025.02.006","url":null,"abstract":"<p><p>Deaminases belonging to the AID/APOBEC family are known as ssDNA and mRNA mutators involved in innate/adaptive immunity, mRNA editing, genome stabilization by restricting retrotransposons, and carcinogenesis. Recent studies suggest that the repertoire of AID/APOBEC targets is more diverse than previously thought and imply a broader biological impact of these proteins.</p>","PeriodicalId":440,"journal":{"name":"Trends in Biochemical Sciences","volume":" ","pages":""},"PeriodicalIF":11.6,"publicationDate":"2025-03-24","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143708066","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Thermal proteome profiling of protein-centric interactions and modifications. 蛋白质中心相互作用和修饰的热蛋白质组分析。
IF 11.6 1区 生物学
Trends in Biochemical Sciences Pub Date : 2025-03-17 DOI: 10.1016/j.tibs.2025.02.002
Zhenghui Chen, Anhui Wang, Yiqun Geng
{"title":"Thermal proteome profiling of protein-centric interactions and modifications.","authors":"Zhenghui Chen, Anhui Wang, Yiqun Geng","doi":"10.1016/j.tibs.2025.02.002","DOIUrl":"https://doi.org/10.1016/j.tibs.2025.02.002","url":null,"abstract":"","PeriodicalId":440,"journal":{"name":"Trends in Biochemical Sciences","volume":" ","pages":""},"PeriodicalIF":11.6,"publicationDate":"2025-03-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143655572","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
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