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Transcriptome-wide mRNP condensation precedes stress granule formation and excludes new mRNAs 转录组范围内的mRNP凝聚先于应激颗粒的形成,并排除新的mrna
IF 16 1区 生物学 Q1 BIOCHEMISTRY & MOLECULAR BIOLOGY Pub Date : 2025-11-24 DOI: 10.1016/j.molcel.2025.11.003
Hendrik Glauninger, Jared A.M. Bard, Caitlin J. Wong Hickernell, Karen M. Velez, Edo M. Airoldi, Weihan Li, Robert H. Singer, Sneha Paul, Jingyi Fei, Tobin R. Sosnick, Edward W.J. Wallace, D. Allan Drummond
Stress-induced messenger ribonucleoprotein (mRNP) condensation is conserved across eukaryotes, resulting in stress granule formation under intense stresses, yet the mRNA composition and function of these condensates remain unclear. Exposure of ribosome-free mRNA following stress is thought to cause condensation and stress granule formation through mRNA-sequence-dependent interactions, leading to disproportionate condensation of long mRNAs. Here, we show that, by contrast, virtually all mRNAs condense in response to multiple stresses in budding yeast with minor length dependence and often without stress granule formation. New transcripts escape mRNP condensation, enabling their selective translation. Inhibiting translation initiation causes formation of mRNP condensates distinct from stress granules and processing bodies (P bodies), and these translation-initiation-inhibited condensates (TIICs) are omnipresent, even in unstressed cells. Stress-induced mRNAs are excluded from TIICs due to the timing of their expression, indicating determinants of escape that are independent of sequence. Together, our results reveal a previously undetected level of translation-linked molecular organization and stress-responsive regulation.
胁迫诱导信使核糖核蛋白(mRNP)缩聚在真核生物中是保守的,在强胁迫下导致应激颗粒的形成,但这些缩聚物的mRNA组成和功能尚不清楚。胁迫后暴露无核糖体mRNA被认为通过mRNA序列依赖的相互作用导致冷凝和应激颗粒形成,导致长mRNA的不成比例的冷凝。在这里,我们表明,相比之下,几乎所有mrna在出芽酵母中对多种胁迫的反应中浓缩,具有较小的长度依赖性,并且通常不形成应激颗粒。新的转录本逃避mRNP凝聚,使其能够选择性翻译。抑制翻译启动导致mRNP凝析物的形成不同于应力颗粒和加工体(P体),这些翻译启动抑制凝析物(TIICs)无处不在,即使在非应激细胞中也是如此。由于应激诱导的mrna的表达时间,它们被排除在TIICs之外,这表明逃逸的决定因素与序列无关。总之,我们的研究结果揭示了以前未检测到的翻译相关分子组织和应激反应调节水平。
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引用次数: 0
Debranching enzyme DBR1-mediated lariat RNA turnover requires ALBA proteins in Arabidopsis 在拟南芥中,脱分枝酶dbr1介导的支链RNA周转需要ALBA蛋白
IF 16 1区 生物学 Q1 BIOCHEMISTRY & MOLECULAR BIOLOGY Pub Date : 2025-11-20 DOI: 10.1016/j.molcel.2025.10.021
Haoran Ge, Qi Tang, Jingjing Wu, Xiaotuo Zhang, Yuxuan Li, Weiqaing Qian, Jinbiao Ma, Binglian Zheng
Lariat RNAs, generated as byproducts of RNA splicing from excised introns, must be removed. RNA debranching enzyme (DBR1) is the core factor responsible for lariat RNA removal. However, the mechanism by which DBR1 debranches lariat RNAs remains unclear. Here, we demonstrate that six ALBA (acetylation lowers binding affinity) proteins interact with DBR1 to enhance its debranching activity and facilitate DBR1’s accessibility to lariat RNAs, thereby promoting lariat RNA turnover. Similar to dbr1, alba mutants exhibit pleiotropic developmental defects and accumulate lariat RNAs. ALBAs bind to lariat RNAs via their C-terminal Arg-Gly-Gly/Arg-Gly (RGG/RG)-rich repeats and assist DBR1 in binding to these RNAs. The N-terminal ALBA domain mediates the interaction with DBR1 and enhances its enzymatic activity. Cold stress induces lariat RNA accumulation by attenuating the ALBA-DBR1 interaction, which in turn reduces the induction of cold-responsive genes by impairing their transcription. Together, these findings uncover that lariat RNA turnover requires ALBA proteins.
切除内含子剪接的副产物——支链RNA必须去除。RNA脱分枝酶(RNA debranches enzyme, DBR1)是毛虫RNA脱除的核心因子。然而,DBR1使分支rna脱支的机制尚不清楚。在这里,我们证明了六种ALBA(乙酰化降低结合亲和力)蛋白与DBR1相互作用,增强其去分支活性,促进DBR1接近幼虫RNA,从而促进幼虫RNA的转换。与dbr1类似,alba突变体表现出多效性发育缺陷,并积累多种rna。ALBAs通过其c -末端Arg-Gly- gly /Arg-Gly (RGG/RG)-富重复序列与分支rna结合,并协助DBR1与这些rna结合。n端ALBA结构域介导与DBR1的相互作用,增强其酶活性。冷胁迫通过减弱ALBA-DBR1相互作用诱导幼虫RNA积累,而ALBA-DBR1相互作用反过来又通过损害冷应答基因的转录来减少其诱导。总之,这些发现揭示了幼虫的RNA周转需要ALBA蛋白。
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引用次数: 0
Circadian PERIOD proteins regulate TC-DSB repair through anchoring to the nuclear envelope 昼夜周期蛋白通过锚定核膜来调节TC-DSB的修复
IF 16 1区 生物学 Q1 BIOCHEMISTRY & MOLECULAR BIOLOGY Pub Date : 2025-11-20 DOI: 10.1016/j.molcel.2025.10.027
Benjamin Le Bozec, Laure Guitton-Sert, Sarah Collins, Anne-Laure Finoux, Charlotte Payrault, Emmanuelle Guillou, Marion Aguirrebengoa, Vanessa Dougados, Virginie Jouffret, Jessica Frison, Romane Carette, Vincent Rocher, Coline Arnould, Aude Guénolé, Ikrame Lazar, Aline Marnef, Philippe Frit, Patrick Calsou, Thomas Mangeat, Nadine Puget, Gaëlle Legube
Repair of DNA double-strand breaks (DSBs) produced in transcriptionally active chromatin occurs through a poorly characterized pathway called transcription-coupled DSB repair (TC-DSBR). Here, using a screening approach scoring multiple outputs in human cells, we identified proteins from the PERIOD complex, ensuring circadian oscillations, as previously unknown TC-DSBR players. We show that PER2 is recruited at TC-DSBs and contributes to their targeting to the nuclear envelope (NE), where SUN1 and the nuclear pore complex (NPC) act as docking sites. TC-DSB anchoring at the NE fosters RAD51 assembly and prevents DSB clustering and translocations. In agreement, the circadian clock regulates TC-DSB targeting to the NE, RAD51 assembly, and DSB clustering. Our study shows a direct link between the circadian rhythm and the response to DSBs in transcribed genes, opening strategies for chrono-chemotherapies based on topoisomerase poisons that induce DSBs in active loci.
转录活性染色质中产生的DNA双链断裂(DSB)的修复是通过一种被称为转录偶联DSB修复(TC-DSBR)的途径进行的。在这里,我们使用一种筛选方法对人类细胞中的多个输出进行评分,从PERIOD复合体中鉴定出蛋白质,确保昼夜节律振荡,作为以前未知的TC-DSBR参与者。我们发现PER2在tc - dsb上被招募,并有助于它们靶向核包膜(NE),其中SUN1和核孔复合物(NPC)作为对接位点。TC-DSB锚定在NE促进RAD51组装,防止DSB聚集和易位。与此一致的是,生物钟调节TC-DSB靶向NE、RAD51组装和DSB聚集。我们的研究表明,昼夜节律与转录基因对dsb的反应之间存在直接联系,这为基于拓扑异构酶毒素在活性位点诱导dsb的定时化疗开辟了策略。
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引用次数: 0
UMP functions as an endogenous regulator of NR4A1 to control gastric cancer progression UMP作为内源性NR4A1调节因子控制胃癌进展
IF 16 1区 生物学 Q1 BIOCHEMISTRY & MOLECULAR BIOLOGY Pub Date : 2025-11-20 DOI: 10.1016/j.molcel.2025.10.030
Guodi Cai, Zhenhua Zhang, Lin Zhong, Hong Wang, Miaomiao Miao, Jingtian Su, Yana An, Chenxi Zhang, Xiaowei Luo, Huai-Qiang Ju, Jian Zhang, Wanyi Huang, Zhe Li, Peiqing Liu, Dinglan Wu, Franky Leung Chan, Huihao Zhou, Fanghai Han, Hong-Wu Chen, Tao Su, Junjian Wang
Nucleotide metabolism reprogramming drives tumor progression, yet how tumor cells sense nucleotide levels remains unclear. Here, we identified UMP as an endogenous regulator of the orphan nuclear receptor NR4A1 in gastric cancer (GCa). Under UMP sufficiency, UMP directly binds to NR4A1, inhibiting its tumor-suppressive function and promoting GCa progression. Conversely, UMP deficiency resulting from disrupted pyrimidine biosynthesis derepresses NR4A1, which suppresses GCa cell survival and progression by both increasing NR4A1 occupancy at super-enhancers to reprogram survival-gene expression and enhancing NR4A1’s pro-apoptotic activity at the mitochondria. NR4A1 loss was sufficient to rescue the effects of pyrimidine nucleotide stress on GCa cells in vitro and in vivo. NR4A1 agonists suppressed the pyrimidine salvage pathway triggered by de novo pyrimidine biosynthesis (DNPB) inhibition. Co-targeting DNPB and NR4A1 induced synergistic tumor lethality in GCa xenograft models. Together, our results establish UMP as an endogenous regulator of NR4A1 and provide an effective therapeutic strategy for GCa.
核苷酸代谢重编程驱动肿瘤进展,但肿瘤细胞如何感知核苷酸水平仍不清楚。在这里,我们发现UMP是胃癌(GCa)中孤儿核受体NR4A1的内源性调节因子。在UMP充足的情况下,UMP直接与NR4A1结合,抑制其抑瘤功能,促进GCa进展。相反,嘧啶生物合成中断导致的UMP缺乏会抑制NR4A1,通过增加NR4A1在重编程生存基因表达的超增强子上的占用和增强NR4A1在线粒体上的促凋亡活性,从而抑制GCa细胞的存活和进展。NR4A1缺失足以在体外和体内恢复嘧啶核苷酸胁迫对GCa细胞的影响。NR4A1激动剂抑制由新生嘧啶生物合成(DNPB)抑制引发的嘧啶回收途径。共同靶向DNPB和NR4A1诱导GCa异种移植模型的协同肿瘤致死。总之,我们的研究结果确定了UMP是NR4A1的内源性调节剂,并为GCa提供了有效的治疗策略。
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引用次数: 0
A new horizon unfolding for insulin signaling in health and disease 胰岛素信号在健康和疾病中的新领域正在展开
IF 16 1区 生物学 Q1 BIOCHEMISTRY & MOLECULAR BIOLOGY Pub Date : 2025-11-20 DOI: 10.1016/j.molcel.2025.10.032
Morris F. White
Wang et al.1 use innovative computational methods to design polypeptides that bind to and activate the insulin receptor tyrosine kinase, revealing strategies to resolve the composite insulin signal into distinct components for therapeutic use.
Wang等人1使用创新的计算方法设计了结合并激活胰岛素受体酪氨酸激酶的多肽,揭示了将复合胰岛素信号分解成不同成分用于治疗的策略。
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引用次数: 0
Getting sticky: How nuclear speckles tune the condensation-prone proteome 变粘:核斑点如何调节容易凝结的蛋白质组
IF 16 1区 生物学 Q1 BIOCHEMISTRY & MOLECULAR BIOLOGY Pub Date : 2025-11-20 DOI: 10.1016/j.molcel.2025.10.029
Michaela Müller-McNicoll
Recent work by Faraway et al.1 uncovers interstasis—a feedback mechanism whereby the stiffening of nuclear condensates caused by the accumulation of condensation-prone resident proteins entraps mRNAs encoding these proteins, thereby limiting their translation to restore proteome balance.
Faraway等人最近的研究揭示了间质作用——一种反馈机制,通过这种机制,易凝结的驻留蛋白积累导致核凝析物的硬化,从而捕获编码这些蛋白的mrna,从而限制它们的翻译,以恢复蛋白质组平衡。
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引用次数: 0
Divergent proteome tolerance against gain and loss of chromosome arms 不同蛋白质组对染色体臂增减的耐受性
IF 16 1区 生物学 Q1 BIOCHEMISTRY & MOLECULAR BIOLOGY Pub Date : 2025-11-20 DOI: 10.1016/j.molcel.2025.10.023
Yi Di, Wenxue Li, Joan Josep Castellano, Wenjie Jin, Joanna N. Modi, Barbora Salovska, Delyar Khosroabadi, Wei Hu, Alison M. Taylor, Yansheng Liu
How aneuploid cells tolerate chromosome arm gains or losses remains an open question. Using an isogenic human lung cell model with either chromosome 3p loss or 3q gain, combined with quantitative mass spectrometry and isotopic labeling, we reveal distinct proteostasis mechanisms for gain- and loss-type aneuploidy. Surprisingly, while compensation for 3q gain is primarily driven by increased degradation of excess protein complex subunits, 3p loss is neither counteracted by global protein degradation nor selectively reduced degradation. Rather, there is a relative upregulation in protein synthesis of those 3p-encoded proteins that participate in stable protein complexes to maintain functional complex stoichiometry. Additionally, 3p-encoded proteins that are in a complex show increased thermal stability in loss-type aneuploidy, potentially via their interactions with other proteins from euploid chromosomes. Together, our findings uncover distinct proteomic buffering strategies that enable cells to tolerate either excessive or deficient single-arm aneuploidy.
非整倍体细胞如何容忍染色体臂的增加或减少仍然是一个悬而未决的问题。利用染色体3p缺失或3q增加的等基因人肺细胞模型,结合定量质谱法和同位素标记,我们揭示了获得型和损失型非整倍体的不同蛋白质平衡机制。令人惊讶的是,虽然对3q增益的补偿主要是由过量蛋白质复合物亚基的降解增加所驱动的,但3p的损失既不会被整体蛋白质降解所抵消,也不会被选择性地减少降解。相反,那些参与稳定蛋白复合物以维持功能性复合物化学计量的3p编码蛋白的蛋白质合成存在相对上调。此外,在一个复合体中,3p编码的蛋白质在损失型非整倍体中表现出更高的热稳定性,这可能是通过它们与来自整倍体染色体的其他蛋白质的相互作用。总之,我们的发现揭示了不同的蛋白质组缓冲策略,使细胞能够耐受过度或缺乏单臂非整倍体。
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引用次数: 0
Succinate puts the brakes on de novo purine synthesis 琥珀酸盐抑制了嘌呤的重新合成
IF 16 1区 生物学 Q1 BIOCHEMISTRY & MOLECULAR BIOLOGY Pub Date : 2025-11-20 DOI: 10.1016/j.molcel.2025.10.020
Timothy C. Kenny, Kıvanç Birsoy
In this issue of Molecular Cell, Nengroo et al.1 report that the tricarboxylic acid (TCA) cycle enzyme succinate dehydrogenase (SDH) is essential for de novo purine synthesis, revealing a previously unrecognized metabolic dependency in cancer that can be leveraged therapeutically.
在本期的《分子细胞》杂志上,Nengroo等人报道了三羧酸(TCA)循环酶琥珀酸脱氢酶(SDH)对嘌呤合成至关重要,揭示了癌症中以前未被认识到的代谢依赖性,可以用于治疗。
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引用次数: 0
Let’s wrap things up: Open and closed hypernucleosomes in Asgard archaea 让我们总结一下:阿斯加德古菌中的开放和封闭超核小体
IF 16 1区 生物学 Q1 BIOCHEMISTRY & MOLECULAR BIOLOGY Pub Date : 2025-11-20 DOI: 10.1016/j.molcel.2025.10.024
Daniela Barillà
Asgard archaea are widely considered the closest living relatives of eukaryotes. In this issue of Molecular Cell, Ranawat et al.1 report high-resolution structures of hypernucleosomes formed by the hodarchaeal HHoB histone, disclosing open and closed chromatin conformations.
阿斯加德古菌被广泛认为是真核生物的近亲。Ranawat等人在本期《分子细胞》(Molecular Cell)上报道了由hochaeal HHoB组蛋白形成的高分辨率高核小体结构,揭示了开放和封闭的染色质构象。
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引用次数: 0
Leveraging biochemical covariance to better understand biology 利用生化协方差来更好地理解生物学
IF 16 1区 生物学 Q1 BIOCHEMISTRY & MOLECULAR BIOLOGY Pub Date : 2025-11-20 DOI: 10.1016/j.molcel.2025.10.031
Emeline Joulia, Christian M. Metallo
In a recent Nature article, Xiao et al.1 report development of a metabolite-protein covariation architecture (MPCA) database from a diversity outbred mouse cohort that facilitates the deciphering of metabolite-protein relationships in liver and brown adipose tissue (BAT). Using these correlations, the authors describe a role for LRRC58 in controlling cysteine-taurine metabolism.
在《自然》杂志最近的一篇文章中,Xiao等人1报道了从一个多样性近交小鼠队列中建立的代谢物-蛋白质共变结构(MPCA)数据库的发展,该数据库有助于破译肝脏和棕色脂肪组织(BAT)中代谢物-蛋白质的关系。利用这些相关性,作者描述了LRRC58在控制半胱氨酸-牛磺酸代谢中的作用。
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引用次数: 0
期刊
Molecular Cell
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