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Light-induced targeting enables proteomics on endogenous condensates 光诱导靶向技术实现了对内源性凝聚物的蛋白质组学研究
IF 64.5 1区 化学 Q2 CHEMISTRY, PHYSICAL Pub Date : 2024-10-18 DOI: 10.1016/j.cell.2024.09.040
Choongman Lee, Andrea Quintana, Ida Suppanz, Alejandro Gomez-Auli, Gerhard Mittler, Ibrahim I. Cissé
Endogenous condensates with transient constituents are notoriously difficult to study with common biological assays like mass spectrometry and other proteomics profiling. Here, we report a method for light-induced targeting of endogenous condensates (LiTEC) in living cells. LiTEC combines the identification of molecular zip codes that target the endogenous condensates with optogenetics to enable controlled and reversible partitioning of an arbitrary cargo, such as enzymes commonly used in proteomics, into the condensate in a blue light-dependent manner. We demonstrate a proof of concept by combining LiTEC with proximity-based biotinylation (BioID) and uncover putative components of transcriptional condensates in mouse embryonic stem cells. Our approach opens the road to genome-wide functional studies of endogenous condensates.
具有瞬时成分的内源凝集物很难用质谱法和其他蛋白质组学分析等普通生物检测方法进行研究。在这里,我们报告了一种在活细胞中光诱导靶向内源凝聚物(LiTEC)的方法。LiTEC 将识别靶向内源凝集物的分子代码与光遗传学相结合,以蓝光依赖的方式将任意货物(如蛋白质组学中常用的酶)可控、可逆地分配到凝集物中。我们通过将 LiTEC 与基于邻近性的生物素化(BioID)相结合,证明了这一概念,并发现了小鼠胚胎干细胞中转录凝聚物的假定成分。我们的方法为内源凝聚物的全基因组功能研究开辟了道路。
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引用次数: 0
From periphery to center stage: 50 years of advancements in innate immunity 从外围到中心舞台:先天性免疫 50 年的发展历程
IF 64.5 1区 化学 Q2 CHEMISTRY, PHYSICAL Pub Date : 2024-10-18 DOI: 10.1016/j.cell.2024.10.013
Susan Carpenter, Luke A.J. O’Neill
(Cell 187, 2030–2051; April 25, 2024)
(细胞 187,2030-2051;2024 年 4 月 25 日)
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引用次数: 0
PLD3 and PLD4 synthesize S,S-BMP, a key phospholipid enabling lipid degradation in lysosomes PLD3 和 PLD4 合成 S,S-BMP,这是一种能在溶酶体中实现脂质降解的关键磷脂
IF 64.5 1区 化学 Q2 CHEMISTRY, PHYSICAL Pub Date : 2024-10-17 DOI: 10.1016/j.cell.2024.09.036
Shubham Singh, Ulrich E. Dransfeld, Yohannes A. Ambaw, Joshua Lopez-Scarim, Robert V. Farese, Tobias C. Walther
Bis(monoacylglycero)phosphate (BMP) is an abundant lysosomal phospholipid required for degradation of lipids, particularly gangliosides. Alterations in BMP levels are associated with neurodegenerative diseases. Unlike typical glycerophospholipids, lysosomal BMP has two chiral glycerol carbons in the S (rather than the R) stereo-conformation, protecting it from lysosomal degradation. How this unusual and yet crucial S,S-stereochemistry is achieved is unknown. Here, we report that phospholipases D3 and D4 (PLD3 and PLD4) synthesize lysosomal S,S-BMP, with either enzyme catalyzing the critical glycerol stereo-inversion reaction in vitro. Deletion of PLD3 or PLD4 markedly reduced BMP levels in cells or in murine tissues where either enzyme is highly expressed (brain for PLD3; spleen for PLD4), leading to gangliosidosis and lysosomal abnormalities. PLD3 mutants associated with neurodegenerative diseases, including risk of Alzheimer’s disease, diminished PLD3 catalytic activity. We conclude that PLD3/4 enzymes synthesize lysosomal S,S-BMP, a crucial lipid for maintaining brain health.
双(单酰基甘油)磷酸酯(BMP)是一种丰富的溶酶体磷脂,用于降解脂质,尤其是神经节苷脂。BMP 水平的变化与神经退行性疾病有关。与典型的甘油磷脂不同,溶酶体 BMP 有两个手性甘油碳位于 S(而不是 R)立体构象中,从而保护它不被溶酶体降解。这种不同寻常但又至关重要的 S,S 立体化学是如何实现的,目前尚不清楚。在这里,我们报告了磷脂酶 D3 和 D4(PLD3 和 PLD4)合成溶酶体 S,S-BMP,其中任何一种酶都能在体外催化关键的甘油立体转化反应。缺失 PLD3 或 PLD4 会明显降低细胞或小鼠组织中的 BMP 水平,而这两种酶在细胞或小鼠组织中都有很高的表达量(PLD3 在脑;PLD4 在脾),从而导致神经节苷脂病和溶酶体异常。与神经退行性疾病(包括阿尔茨海默病风险)相关的 PLD3 突变体会降低 PLD3 的催化活性。我们的结论是,PLD3/4 酶合成溶酶体 S,S-BMP,这是一种维持大脑健康的重要脂质。
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引用次数: 0
Decoding the brain: From neural representations to mechanistic models 解码大脑:从神经表征到机理模型
IF 64.5 1区 化学 Q2 CHEMISTRY, PHYSICAL Pub Date : 2024-10-17 DOI: 10.1016/j.cell.2024.08.051
Mackenzie Weygandt Mathis, Adriana Perez Rotondo, Edward F. Chang, Andreas S. Tolias, Alexander Mathis
A central principle in neuroscience is that neurons within the brain act in concert to produce perception, cognition, and adaptive behavior. Neurons are organized into specialized brain areas, dedicated to different functions to varying extents, and their function relies on distributed circuits to continuously encode relevant environmental and body-state features, enabling other areas to decode (interpret) these representations for computing meaningful decisions and executing precise movements. Thus, the distributed brain can be thought of as a series of computations that act to encode and decode information. In this perspective, we detail important concepts of neural encoding and decoding and highlight the mathematical tools used to measure them, including deep learning methods. We provide case studies where decoding concepts enable foundational and translational science in motor, visual, and language processing.
神经科学的一个核心原理是,大脑内的神经元协同作用,产生感知、认知和适应行为。神经元被组织成专门的脑区,在不同程度上致力于不同的功能,它们的功能依赖于分布式电路,以持续编码相关的环境和身体状态特征,使其他区域能够解码(解释)这些表征,以计算有意义的决策和执行精确的动作。因此,分布式大脑可被视为一系列对信息进行编码和解码的计算。在这一视角中,我们详细介绍了神经编码和解码的重要概念,并强调了用于测量这些概念的数学工具,包括深度学习方法。我们提供了一些案例研究,其中解码概念促成了运动、视觉和语言处理方面的基础科学和转化科学。
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引用次数: 0
A line attractor encoding a persistent internal state requires neuropeptide signaling. 编码持久内部状态的线吸引子需要神经肽信号。
IF 45.5 1区 化学 Q2 CHEMISTRY, PHYSICAL Pub Date : 2024-10-17 Epub Date: 2024-08-26 DOI: 10.1016/j.cell.2024.08.015
George Mountoufaris, Aditya Nair, Bin Yang, Dong-Wook Kim, Amit Vinograd, Samuel Kim, Scott W Linderman, David J Anderson

Internal states drive survival behaviors, but their neural implementation is poorly understood. Recently, we identified a line attractor in the ventromedial hypothalamus (VMH) that represents a state of aggressiveness. Line attractors can be implemented by recurrent connectivity or neuromodulatory signaling, but evidence for the latter is scant. Here, we demonstrate that neuropeptidergic signaling is necessary for line attractor dynamics in this system by using cell-type-specific CRISPR-Cas9-based gene editing combined with single-cell calcium imaging. Co-disruption of receptors for oxytocin and vasopressin in adult VMH Esr1+ neurons that control aggression diminished attack, reduced persistent neural activity, and eliminated line attractor dynamics while only slightly reducing overall neural activity and sex- or behavior-specific tuning. These data identify a requisite role for neuropeptidergic signaling in implementing a behaviorally relevant line attractor in mammals. Our approach should facilitate mechanistic studies in neuroscience that bridge different levels of biological function and abstraction.

内部状态是生存行为的驱动力,但人们对它们的神经实现却知之甚少。最近,我们在腹内侧下丘脑(VMH)中发现了一种代表攻击性状态的线性吸引子。线性吸引子可以通过递归连接或神经调节信号来实现,但后者的证据很少。在这里,我们利用基于细胞特异性 CRISPR-Cas9 的基因编辑技术并结合单细胞钙成像,证明神经肽能信号是该系统中线吸引子动态变化的必要条件。在控制攻击的成年 VMH Esr1+ 神经元中同时破坏催产素和血管加压素的受体会减少攻击、降低持续的神经活动并消除线性吸引子动力学,同时只略微降低整体神经活动和性别或行为特异性调谐。这些数据确定了神经肽能信号在实施哺乳动物行为相关的线性吸引子中的必要作用。我们的研究方法将有助于神经科学的机理研究,在生物功能和抽象概念的不同层次之间架起一座桥梁。
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引用次数: 0
Understanding the neural basis of natural intelligence 了解自然智能的神经基础
IF 64.5 1区 化学 Q2 CHEMISTRY, PHYSICAL Pub Date : 2024-10-17 DOI: 10.1016/j.cell.2024.07.049
Angelo Forli, Michael M. Yartsev
Understanding the neural basis of natural intelligence necessitates a paradigm shift: from strict reductionism toward embracing complexity and diversity. New tools and theories enable us to tackle this challenge, providing unprecedented access to neural dynamics and behavior across time, contexts, and species. Principles for intelligent behavior and learning in the natural world are now, more than ever, within reach.
要了解自然智能的神经基础,就必须进行范式转变:从严格的还原论转向接受复杂性和多样性。新的工具和理论使我们能够应对这一挑战,为我们提供了前所未有的跨时间、跨环境和跨物种的神经动态和行为。自然界中的智能行为和学习原理现在比以往任何时候都更加触手可及。
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引用次数: 0
A conserved fertilization complex bridges sperm and egg in vertebrates 脊椎动物中连接精子和卵子的保守受精复合体
IF 64.5 1区 化学 Q2 CHEMISTRY, PHYSICAL Pub Date : 2024-10-17 DOI: 10.1016/j.cell.2024.09.035
Victoria E. Deneke, Andreas Blaha, Yonggang Lu, Johannes P. Suwita, Jonne M. Draper, Clara S. Phan, Karin Panser, Alexander Schleiffer, Laurine Jacob, Theresa Humer, Karel Stejskal, Gabriela Krssakova, Elisabeth Roitinger, Dominik Handler, Maki Kamoshita, Tyler D.R. Vance, Xinyin Wang, Joachim M. Surm, Yehu Moran, Jeffrey E. Lee, Andrea Pauli
Fertilization, the basis for sexual reproduction, culminates in the binding and fusion of sperm and egg. Although several proteins are known to be crucial for this process in vertebrates, the molecular mechanisms remain poorly understood. Using an AlphaFold-Multimer screen, we identified the protein Tmem81 as part of a conserved trimeric sperm complex with the essential fertilization factors Izumo1 and Spaca6. We demonstrate that Tmem81 is essential for male fertility in zebrafish and mice. In line with trimer formation, we show that Izumo1, Spaca6, and Tmem81 interact in zebrafish sperm and that the human orthologs interact in vitro. Notably, complex formation creates the binding site for the egg fertilization factor Bouncer in zebrafish. Together, our work presents a comprehensive model for fertilization across vertebrates, where a conserved sperm complex binds to divergent egg proteins—Bouncer in fish and JUNO in mammals—to mediate sperm-egg interaction.
受精是有性生殖的基础,精子和卵子的结合与融合是受精的高潮。尽管已知脊椎动物中有几种蛋白质对这一过程至关重要,但人们对其分子机制仍然知之甚少。通过 AlphaFold 多聚体筛选,我们鉴定出了蛋白 Tmem81,它与重要的受精因子 Izumo1 和 Spaca6 是保守的三聚体精子复合物的一部分。我们证明了 Tmem81 对斑马鱼和小鼠的雄性生育能力至关重要。与三聚体的形成相一致,我们证明了 Izumo1、Spaca6 和 Tmem81 在斑马鱼精子中的相互作用以及人类直向同源物在体外的相互作用。值得注意的是,复合物的形成为斑马鱼的卵子受精因子 Bouncer 创造了结合位点。我们的工作为脊椎动物的受精过程提供了一个全面的模型,在这个模型中,一个保守的精子复合物与不同的卵蛋白结合--鱼类中的Bouncer和哺乳动物中的JUNO--从而介导精子与卵子的相互作用。
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引用次数: 0
Actions of thyroid hormones and thyromimetics on the liver 甲状腺激素和拟甲状腺激素对肝脏的作用
IF 65.1 1区 化学 Q2 CHEMISTRY, PHYSICAL Pub Date : 2024-10-17 DOI: 10.1038/s41575-024-00991-4
Rohit A. Sinha, Eveline Bruinstroop, Paul M. Yen

Thyroid hormones (triiodothyronine and thyroxine) are pivotal for metabolic balance in the liver and entire body. Dysregulation of the hypothalamus–pituitary–thyroid axis can contribute to hepatic metabolic disturbances, affecting lipid metabolism, glucose regulation and protein synthesis. In addition, reductions in circulating and intrahepatic thyroid hormone concentrations increase the risk of metabolic dysfunction-associated steatotic liver disease by inducing lipotoxicity, inflammation and fibrosis. Amelioration of hepatic metabolic disease by thyroid hormones in preclinical and clinical studies has spurred the development of thyromimetics that target THRB (the predominant thyroid hormone receptor isoform in the liver) and/or the liver itself to provide more selective activation of hepatic thyroid hormone-regulated metabolic pathways while reducing thyrotoxic side effects in tissues that predominantly express THRA such as the heart and bone. Resmetirom, a liver and THRB-selective thyromimetic, recently became the first FDA-approved drug for metabolic dysfunction-associated steatohepatitis (MASH). Thus, a better understanding of the metabolic actions of thyroid hormones and thyromimetics in the liver is timely and clinically relevant. Here, we describe the roles of thyroid hormones in normal liver function and pathogenesis of MASH, as well as some potential clinical issues that might arise when treating patients with MASH with thyroid hormone supplementation or thyromimetics.

甲状腺激素(三碘甲状腺原氨酸和甲状腺素)对肝脏和全身的新陈代谢平衡至关重要。下丘脑-垂体-甲状腺轴的失调会导致肝脏代谢紊乱,影响脂质代谢、葡萄糖调节和蛋白质合成。此外,循环和肝内甲状腺激素浓度的降低会诱发脂肪毒性、炎症和纤维化,从而增加代谢功能障碍相关性脂肪性肝病的风险。在临床前和临床研究中,甲状腺激素可改善肝脏代谢疾病,这促使人们开发了以THRB(肝脏中最主要的甲状腺激素受体同工酶)和/或肝脏本身为靶点的甲状腺激素模拟物,以更有选择性地激活肝脏甲状腺激素调节的代谢途径,同时减少主要表达THRA的组织(如心脏和骨骼)的甲状腺毒副作用。Resmetirom是一种具有肝脏和THRB选择性的拟甲状腺药物,最近成为美国食品及药物管理局批准的首个治疗代谢功能障碍相关性脂肪性肝炎(MASH)的药物。因此,更好地了解甲状腺激素和拟甲状腺激素在肝脏中的代谢作用是非常及时和具有临床意义的。在此,我们将介绍甲状腺激素在正常肝功能和MASH发病机制中的作用,以及用甲状腺激素补充剂或拟甲状腺药物治疗MASH患者时可能出现的一些潜在临床问题。
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引用次数: 0
In search of problems 寻找问题
IF 64.5 1区 化学 Q2 CHEMISTRY, PHYSICAL Pub Date : 2024-10-17 DOI: 10.1016/j.cell.2024.09.017
Mu-ming Poo
With early training in physics, my career was marked by continuous learning and searching for interesting problems in biology. Here, I recount some key events that influenced my choices of research topics. The diversity of topics could be attributed to my own lack of a particular focus and the interests of students and postdocs who happened to join my laboratory. My scientific and educational ventures led to my extensive involvement in Chinese neuroscience and various studies in non-human primates.
我早年接受过物理学训练,在我的职业生涯中,我不断学习和探索生物学中有趣的问题。在此,我将讲述影响我选择研究课题的一些重要事件。研究课题的多样性可归因于我自己缺乏特定的研究重点,以及碰巧加入我实验室的学生和博士后的兴趣。我的科研和教育经历使我广泛参与了中国神经科学和非人灵长类动物的各种研究。
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引用次数: 0
The expanding world of neuroscience 不断扩大的神经科学世界
IF 64.5 1区 化学 Q2 CHEMISTRY, PHYSICAL Pub Date : 2024-10-17 DOI: 10.1016/j.cell.2024.09.015
Understanding the brain fascinates and intrigues many across the world. In this 50th Anniversary “Focus on Neuroscience” issue, we present Leading Edge content reflecting on the progress of the field, highlighting emerging topics, and paving the way toward many more years of exciting neuroscience research.
了解大脑令全世界许多人着迷和好奇。在这期 50 周年 "聚焦神经科学 "特刊中,我们将介绍前沿内容,反映该领域的进展,重点介绍新出现的主题,并为未来更多年激动人心的神经科学研究铺平道路。
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引用次数: 0
期刊
Journal of Chemical Theory and Computation
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