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Regulatory landscape of enhancer-mediated transcriptional activation. 增强子介导的转录激活的调控格局。
IF 13 1区 生物学
Trends in Cell Biology Pub Date : 2024-10-01 Epub Date: 2024-02-13 DOI: 10.1016/j.tcb.2024.01.008
Koji Kawasaki, Takashi Fukaya
{"title":"Regulatory landscape of enhancer-mediated transcriptional activation.","authors":"Koji Kawasaki, Takashi Fukaya","doi":"10.1016/j.tcb.2024.01.008","DOIUrl":"10.1016/j.tcb.2024.01.008","url":null,"abstract":"<p><p>Enhancers are noncoding regulatory elements that instruct spatial and temporal specificity of gene transcription in response to a variety of intrinsic and extrinsic signals during development. Although it has long been postulated that enhancers physically interact with target promoters through the formation of stable loops, recent studies have changed this static view: sequence-specific transcription factors (TFs) and coactivators are dynamically recruited to enhancers and assemble so-called transcription hubs. Dynamic assembly of transcription hubs appears to serve as a key scaffold to integrate regulatory information encoded by surrounding genome and biophysical properties of transcription machineries. In this review, we outline emerging new models of transcriptional regulation by enhancers and discuss future perspectives.</p>","PeriodicalId":56085,"journal":{"name":"Trends in Cell Biology","volume":" ","pages":"826-837"},"PeriodicalIF":13.0,"publicationDate":"2024-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139736793","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
ER: a critical hub for STING signaling regulation. ER：STING 信号调节的关键枢纽。
IF 13 1区 生物学
Trends in Cell Biology Pub Date : 2024-10-01 Epub Date: 2024-02-28 DOI: 10.1016/j.tcb.2024.02.006
Yuan Luo, Lei Chang, Yewei Ji, Tingbo Liang
{"title":"ER: a critical hub for STING signaling regulation.","authors":"Yuan Luo, Lei Chang, Yewei Ji, Tingbo Liang","doi":"10.1016/j.tcb.2024.02.006","DOIUrl":"10.1016/j.tcb.2024.02.006","url":null,"abstract":"<p><p>The Stimulator of Interferon Genes (STING) has a crucial role in mediating the immune response against cytosolic double-stranded DNA (dsDNA) and its activation is critically involved in various diseases. STING is synthesized, modified, and resides in the endoplasmic reticulum (ER), and its ER exit is intimately connected with its signaling. The ER, primarily known for its roles in protein folding, lipid synthesis, and calcium storage, has been identified as a pivotal platform for the regulation of a wide range of STING functions. In this review, we discuss the emerging factors that regulate STING in the ER and examine the interplay between STING signaling and ER pathways, highlighting the impacts of such regulations on immune responses and their potential implications in STING-related disorders.</p>","PeriodicalId":56085,"journal":{"name":"Trends in Cell Biology","volume":" ","pages":"865-881"},"PeriodicalIF":13.0,"publicationDate":"2024-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139998341","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
Coordinated in confined migration: crosstalk between the nucleus and ion channel-mediated mechanosensation. 密闭迁移中的协调：细胞核与离子通道介导的机械感觉之间的串扰
IF 13 1区 生物学
Trends in Cell Biology Pub Date : 2024-10-01 Epub Date: 2024-01-29 DOI: 10.1016/j.tcb.2024.01.001
Panagiotis Mistriotis, Emily O Wisniewski, Bishwa R Si, Petr Kalab, Konstantinos Konstantopoulos
{"title":"Coordinated in confined migration: crosstalk between the nucleus and ion channel-mediated mechanosensation.","authors":"Panagiotis Mistriotis, Emily O Wisniewski, Bishwa R Si, Petr Kalab, Konstantinos Konstantopoulos","doi":"10.1016/j.tcb.2024.01.001","DOIUrl":"10.1016/j.tcb.2024.01.001","url":null,"abstract":"<p><p>Cell surface and intracellular mechanosensors enable cells to perceive different geometric, topographical, and physical cues. Mechanosensitive ion channels (MICs) localized at the cell surface and on the nuclear envelope (NE) are among the first to sense and transduce these signals. Beyond compartmentalizing the genome of the cell and its transcription, the nucleus also serves as a mechanical gauge of different physical and topographical features of the tissue microenvironment. In this review, we delve into the intricate mechanisms by which the nucleus and different ion channels regulate cell migration in confinement. We review evidence suggesting an interplay between macromolecular nuclear-cytoplasmic transport (NCT) and ionic transport across the cell membrane during confined migration. We also discuss the roles of the nucleus and ion channel-mediated mechanosensation, whether acting independently or in tandem, in orchestrating migratory mechanoresponses. Understanding nuclear and ion channel sensing, and their crosstalk, is critical to advancing our knowledge of cell migration in health and disease.</p>","PeriodicalId":56085,"journal":{"name":"Trends in Cell Biology","volume":" ","pages":"809-825"},"PeriodicalIF":13.0,"publicationDate":"2024-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11284253/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139643493","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Epigenetic regulation of hematopoietic stem cell fate 造血干细胞命运的表观遗传调控
IF 19 1区 生物学
Trends in Cell Biology Pub Date : 2024-09-12 DOI: 10.1016/j.tcb.2024.08.005
Yiran Meng, Claus Nerlov
{"title":"Epigenetic regulation of hematopoietic stem cell fate","authors":"Yiran Meng, Claus Nerlov","doi":"10.1016/j.tcb.2024.08.005","DOIUrl":"https://doi.org/10.1016/j.tcb.2024.08.005","url":null,"abstract":"<p>Hematopoietic stem cells (HSCs) sustain blood cell production throughout the mammalian life span. However, it has become clear that at the single cell level a subset of HSCs is stably biased in their lineage output, and that such heterogeneity may play a key role in physiological processes including aging and adaptive immunity. Analysis of chromatin accessibility, DNA methylation, and histone modifications has revealed that HSCs with different lineage bias exhibit distinct epigenetic traits inscribed at poised, lineage-specific enhancers. This allows for lineage priming without initiating lineage-specific gene expression in HSCs, controlling lineage bias while preserving self-renewal and multipotency. Here, we review our current understanding of epigenetic regulation in the establishment and maintenance of HSC fate decisions under different physiological conditions.</p>","PeriodicalId":56085,"journal":{"name":"Trends in Cell Biology","volume":"74 1","pages":""},"PeriodicalIF":19.0,"publicationDate":"2024-09-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142193189","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
Gut microbial metabolism in ferroptosis and colorectal cancer 肠道微生物代谢与铁中毒和结直肠癌的关系
IF 19 1区 生物学
Trends in Cell Biology Pub Date : 2024-09-10 DOI: 10.1016/j.tcb.2024.08.006
Weiwei Cui, Meng Hao, Xin Yang, Chengqian Yin, Bo Chu
{"title":"Gut microbial metabolism in ferroptosis and colorectal cancer","authors":"Weiwei Cui, Meng Hao, Xin Yang, Chengqian Yin, Bo Chu","doi":"10.1016/j.tcb.2024.08.006","DOIUrl":"https://doi.org/10.1016/j.tcb.2024.08.006","url":null,"abstract":"<p>Ferroptosis is programmed cell death induced by iron-driven lipid peroxidation. Numerous studies have shown that ferroptosis is implicated in the progression of colorectal cancer (CRC) and has emerged as a promising strategy to combat therapy-resistant CRC. While the intrinsic antiferroptotic and proferroptotic pathways in CRC cells have been well characterized, extrinsic metabolism pathways regulating ferroptosis in CRC pathogenesis remain less understood. Emerging evidence shows that gut microbial metabolism is tightly correlated with the progression of CRC. This review provides an overview of gut microbial metabolism and discusses how these metabolites derived from intestinal microflora contribute to cancer plasticity through ferroptosis. Targeting gut microbe-mediated ferroptosis is a potential approach for CRC treatment.</p>","PeriodicalId":56085,"journal":{"name":"Trends in Cell Biology","volume":"96 1","pages":""},"PeriodicalIF":19.0,"publicationDate":"2024-09-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142224978","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
Telomere dynamics as mediators of gut microbiota–host interactions 端粒动力学是肠道微生物与宿主相互作用的媒介
IF 19 1区 生物学
Trends in Cell Biology Pub Date : 2024-09-09 DOI: 10.1016/j.tcb.2024.08.003
Michael L. Pepke, Søren B. Hansen, Morten T. Limborg
{"title":"Telomere dynamics as mediators of gut microbiota–host interactions","authors":"Michael L. Pepke, Søren B. Hansen, Morten T. Limborg","doi":"10.1016/j.tcb.2024.08.003","DOIUrl":"https://doi.org/10.1016/j.tcb.2024.08.003","url":null,"abstract":"<p>The highly proliferative gut tissue exhibits rapid telomere shortening with systemic effects on the host organism. Recent studies have demonstrated a bidirectionality in interactions between intestinal telomere length dynamics and the composition and activity of the gut microbiome thus linking processes of inflammation, dysbiosis and aging across different vertebrate species.</p>","PeriodicalId":56085,"journal":{"name":"Trends in Cell Biology","volume":"25 1","pages":""},"PeriodicalIF":19.0,"publicationDate":"2024-09-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142193187","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
CDK11, a splicing-associated kinase regulating gene expression. CDK11，一种调节基因表达的剪接相关激酶。
IF 13 1区 生物学
Trends in Cell Biology Pub Date : 2024-09-07 DOI: 10.1016/j.tcb.2024.08.004
Milan Hluchý, Dalibor Blazek
{"title":"CDK11, a splicing-associated kinase regulating gene expression.","authors":"Milan Hluchý, Dalibor Blazek","doi":"10.1016/j.tcb.2024.08.004","DOIUrl":"https://doi.org/10.1016/j.tcb.2024.08.004","url":null,"abstract":"<p><p>The ability of a cell to properly express its genes depends on optimal transcription and splicing. RNA polymerase II (RNAPII) transcribes protein-coding genes and produces pre-mRNAs, which undergo, largely co-transcriptionally, intron excision by the spliceosome complex. Spliceosome activation is a major control step, leading to a catalytically active complex. Recent work has showed that cyclin-dependent kinase (CDK)11 regulates spliceosome activation via the phosphorylation of SF3B1, a core spliceosome component. Thus, CDK11 arises as a major coordinator of gene expression in metazoans due to its role in the rate-limiting step of pre-mRNA splicing. This review outlines the evolution of CDK11 and SF3B1 and their emerging roles in splicing regulation. It also discusses how CDK11 and its inhibition affect transcription and cell cycle progression.</p>","PeriodicalId":56085,"journal":{"name":"Trends in Cell Biology","volume":" ","pages":""},"PeriodicalIF":13.0,"publicationDate":"2024-09-07","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142156774","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
Advisory Board and Contents 咨询委员会和内容
IF 19 1区 生物学
Trends in Cell Biology Pub Date : 2024-09-05 DOI: 10.1016/s0962-8924(24)00166-1
{"title":"Advisory Board and Contents","authors":"","doi":"10.1016/s0962-8924(24)00166-1","DOIUrl":"https://doi.org/10.1016/s0962-8924(24)00166-1","url":null,"abstract":"No Abstract","PeriodicalId":56085,"journal":{"name":"Trends in Cell Biology","volume":"141 1","pages":""},"PeriodicalIF":19.0,"publicationDate":"2024-09-05","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142193188","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
Subscription and Copyright Information 订阅和版权信息
IF 19 1区 生物学
Trends in Cell Biology Pub Date : 2024-09-05 DOI: 10.1016/s0962-8924(24)00169-7
{"title":"Subscription and Copyright Information","authors":"","doi":"10.1016/s0962-8924(24)00169-7","DOIUrl":"https://doi.org/10.1016/s0962-8924(24)00169-7","url":null,"abstract":"No Abstract","PeriodicalId":56085,"journal":{"name":"Trends in Cell Biology","volume":"61 1","pages":""},"PeriodicalIF":19.0,"publicationDate":"2024-09-05","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142193190","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
Chromosome compartmentalization: causes, changes, consequences, and conundrums. 染色体区隔：原因、变化、后果和难题。
IF 13 1区 生物学
Trends in Cell Biology Pub Date : 2024-09-01 Epub Date: 2024-02-22 DOI: 10.1016/j.tcb.2024.01.009
Heng Li, Christopher Playter, Priyojit Das, Rachel Patton McCord
{"title":"Chromosome compartmentalization: causes, changes, consequences, and conundrums.","authors":"Heng Li, Christopher Playter, Priyojit Das, Rachel Patton McCord","doi":"10.1016/j.tcb.2024.01.009","DOIUrl":"10.1016/j.tcb.2024.01.009","url":null,"abstract":"<p><p>The spatial segregation of the genome into compartments is a major feature of 3D genome organization. New data on mammalian chromosome organization across different conditions reveal important information about how and why these compartments form and change. A combination of epigenetic state, nuclear body tethering, physical forces, gene expression, and replication timing (RT) can all influence the establishment and alteration of chromosome compartments. We review the causes and implications of genomic regions undergoing a 'compartment switch' that changes their physical associations and spatial location in the nucleus. About 20-30% of genomic regions change compartment during cell differentiation or cancer progression, whereas alterations in response to a stimulus within a cell type are usually much more limited. However, even a change in 1-2% of genomic bins may have biologically relevant implications. Finally, we review the effects of compartment changes on gene regulation, DNA damage repair, replication, and the physical state of the cell.</p>","PeriodicalId":56085,"journal":{"name":"Trends in Cell Biology","volume":" ","pages":"707-727"},"PeriodicalIF":13.0,"publicationDate":"2024-09-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11339242/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139941260","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
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