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Measuring Vesicle Loading with Holographic Microscopy and Bulk Light Scattering 利用全息显微镜和块体光散射测量囊泡载荷
Q2 CHEMISTRY, PHYSICAL Pub Date : 2024-05-20 DOI: 10.1021/acsphyschemau.4c00011
Lan Hai Anh Tran, Lauren A. Lowe, Yaam Deckel, Matthew Turner, James Luong, Omar Abdullah A Khamis, Megan L. Amos, Anna Wang
We report efforts to quantify the loading of cell-sized lipid vesicles using in-line digital holographic microscopy. This method does not require fluorescent reporters, fluorescent tracers, or radioactive tracers. A single-color LED light source takes the place of conventional illumination to generate holograms rather than bright field images. By modeling the vesicle’s scattering in a microscope with a Lorenz–Mie light scattering model and comparing the results to data holograms, we are able to measure the vesicle’s refractive index and thus loading. Performing the same comparison for bulk light scattering measurements enables the retrieval of vesicle loading for nanoscale vesicles.
我们报告了利用在线数字全息显微镜量化细胞大小脂质囊泡负载的工作。这种方法不需要荧光报告物、荧光示踪剂或放射性示踪剂。单色 LED 光源取代传统照明,生成全息图像而不是明视野图像。通过在显微镜中使用洛伦兹-米光散射模型对囊泡散射进行建模,并将结果与数据全息图进行比较,我们就能测量囊泡的折射率,从而测量载荷。对体光散射测量进行同样的比较,就能检索出纳米级囊泡的载荷。
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引用次数: 0
Singular Value Decomposition Quantum Algorithm for Quantum Biology 量子生物学的奇异值分解量子算法
IF 3.7 Q2 CHEMISTRY, PHYSICAL Pub Date : 2024-05-17 DOI: 10.1021/acsphyschemau.4c0001810.1021/acsphyschemau.4c00018
Emily K. Oh, Timothy J. Krogmeier, Anthony W. Schlimgen and Kade Head-Marsden*, 

There has been a recent interest in quantum algorithms for the modeling and prediction of nonunitary quantum dynamics using current quantum computers. The field of quantum biology is one area where these algorithms could prove to be useful as biological systems are generally intractable to treat in their complete form but amenable to an open quantum systems approach. Here, we present the application of a recently developed singular value decomposition (SVD) algorithm to two systems in quantum biology: excitonic energy transport through the Fenna–Matthews–Olson complex and the radical pair mechanism for avian navigation. We demonstrate that the SVD algorithm is capable of capturing accurate short- and long-time dynamics for these systems through implementation on a quantum simulator and conclude that while the implementation of this algorithm is beyond the reach of current quantum computers, it has the potential to be an effective tool for the future study of systems relevant to quantum biology.

最近,人们对利用当前量子计算机对非单元量子动力学进行建模和预测的量子算法产生了浓厚的兴趣。量子生物学领域是这些算法可以发挥作用的一个领域,因为生物系统通常难以以完整形式处理,但却适合采用开放的量子系统方法。在这里,我们介绍了最近开发的奇异值分解(SVD)算法在量子生物学两个系统中的应用:通过芬纳-马修斯-奥尔森复合体的激子能量传输和鸟类导航的激子对机制。我们通过在量子模拟器上的实施,证明了 SVD 算法能够准确捕捉这些系统的短期和长期动态,并得出结论:虽然该算法的实施超出了当前量子计算机的能力范围,但它有可能成为未来研究量子生物学相关系统的有效工具。
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引用次数: 0
Singular Value Decomposition Quantum Algorithm for Quantum Biology 量子生物学的奇异值分解量子算法
Q2 CHEMISTRY, PHYSICAL Pub Date : 2024-05-17 DOI: 10.1021/acsphyschemau.4c00018
Emily K. Oh, Timothy J. Krogmeier, Anthony W. Schlimgen, Kade Head-Marsden
There has been a recent interest in quantum algorithms for the modeling and prediction of nonunitary quantum dynamics using current quantum computers. The field of quantum biology is one area where these algorithms could prove to be useful as biological systems are generally intractable to treat in their complete form but amenable to an open quantum systems approach. Here, we present the application of a recently developed singular value decomposition (SVD) algorithm to two systems in quantum biology: excitonic energy transport through the Fenna–Matthews–Olson complex and the radical pair mechanism for avian navigation. We demonstrate that the SVD algorithm is capable of capturing accurate short- and long-time dynamics for these systems through implementation on a quantum simulator and conclude that while the implementation of this algorithm is beyond the reach of current quantum computers, it has the potential to be an effective tool for the future study of systems relevant to quantum biology.
最近,人们对利用当前量子计算机对非单元量子动力学进行建模和预测的量子算法产生了浓厚的兴趣。量子生物学领域是这些算法可能证明有用的一个领域,因为生物系统通常难以以完整形式处理,但适合采用开放的量子系统方法。在这里,我们介绍了最近开发的奇异值分解(SVD)算法在量子生物学两个系统中的应用:通过芬纳-马修斯-奥尔森复合体的激子能量传输和鸟类导航的激子对机制。我们通过在量子模拟器上的实施,证明了 SVD 算法能够准确捕捉这些系统的短期和长期动态,并得出结论:虽然该算法的实施超出了当前量子计算机的能力范围,但它有可能成为未来研究量子生物学相关系统的有效工具。
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引用次数: 0
High Throughput Correlative Electrochemistry-Microscopy Analysis on a Zn–Al Alloy Zn-Al 合金的高通量电化学-显微镜关联分析
Q2 CHEMISTRY, PHYSICAL Pub Date : 2024-05-10 DOI: 10.1021/acsphyschemau.4c00016
Gunani Jayamaha, Levi Tegg, Cameron L. Bentley, Minkyung Kang
Conventional electrodes and electrocatalysts possess complex compositional and structural motifs that impact their overall electrochemical activity. These motifs range from defects and crystal orientation on the electrode surface to layers and composites with other electrode components, such as binders. Therefore, it is vital to identify how these individual motifs alter the electrochemical activity of the electrode. Scanning electrochemical cell microscopy (SECCM) is a powerful tool that has been developed for investigating the electrochemical properties of complex structures. An example of a complex electrode surface is Zn–Al alloys, which are utilized in various sectors ranging from cathodic protection of steel to battery electrodes. Herein, voltammetric SECCM and correlative microstructure analysis are deployed to probe the electrochemical activities of a range of microstructural features, with 651 independent voltammetric measurements made in six distinctive areas on the surface of a Zn–Al alloy. Energy-dispersive X-ray spectroscopy (EDS) mapping reveals that specific phases of the alloy structure, particularly the α-phase Zn–Al, favor the early stages of metal dissolution (i.e., oxidation) and electrochemical reduction processes such as the oxygen reduction reaction (ORR) and redeposition of dissolved metal ions. A correlative analysis performed by comparing high-resolution quantitative elemental composition (i.e., EDS) with the corresponding spatially resolved cyclic voltammograms (i.e., SECCM) shows that the nanospot α-phase of the Zn–Al alloy contains high Al content (30–50%), which may facilitate local Al dissolution as the local pH increases during the ORR in unbuffered aqueous media. Overall, SECCM-based high-throughput electrochemical screening, combined with microstructure analysis, conclusively demonstrates that structure-composition heterogeneity significantly influences the local electrochemical activity on complex electrode surfaces. These insights are invaluable for the rational design of advanced electromaterials.
传统电极和电催化剂具有复杂的组成和结构模式,会影响其整体电化学活性。这些图案包括电极表面的缺陷和晶体取向,以及与粘合剂等其他电极成分的层和复合材料。因此,确定这些单个结构如何改变电极的电化学活性至关重要。扫描电化学电池显微镜 (SECCM) 是一种功能强大的工具,可用于研究复杂结构的电化学特性。Zn-Al 合金就是复杂电极表面的一个例子,它被广泛应用于从钢铁阴极保护到电池电极等各个领域。本文利用伏安法 SECCM 和相关微观结构分析来探究一系列微观结构特征的电化学活性,在锌铝合金表面的六个不同区域进行了 651 次独立伏安法测量。能量色散 X 射线光谱(EDS)图显示,合金结构的特定相,特别是 Zn-Al 的 α 相,有利于金属溶解(即氧化)和电化学还原过程的早期阶段,如氧还原反应(ORR)和溶解金属离子的再沉积。通过比较高分辨率定量元素组成(即 EDS)和相应的空间分辨循环伏安图(即 SECCM)进行的相关分析表明,锌-铝合金的纳米点 α 相含有较高的铝含量(30-50%),这可能会在无缓冲水介质中发生 ORR 时,随着局部 pH 值的增加而促进局部铝的溶解。总之,基于 SECCM 的高通量电化学筛选与微观结构分析相结合,最终证明了结构-组成异质性会显著影响复杂电极表面的局部电化学活性。这些见解对于合理设计先进的电材料非常宝贵。
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引用次数: 0
High Throughput Correlative Electrochemistry-Microscopy Analysis on a Zn–Al Alloy Zn-Al 合金的高通量电化学-显微镜关联分析
IF 3.7 Q2 CHEMISTRY, PHYSICAL Pub Date : 2024-05-10 DOI: 10.1021/acsphyschemau.4c0001610.1021/acsphyschemau.4c00016
Gunani Jayamaha, Levi Tegg, Cameron L. Bentley and Minkyung Kang*, 

Conventional electrodes and electrocatalysts possess complex compositional and structural motifs that impact their overall electrochemical activity. These motifs range from defects and crystal orientation on the electrode surface to layers and composites with other electrode components, such as binders. Therefore, it is vital to identify how these individual motifs alter the electrochemical activity of the electrode. Scanning electrochemical cell microscopy (SECCM) is a powerful tool that has been developed for investigating the electrochemical properties of complex structures. An example of a complex electrode surface is Zn–Al alloys, which are utilized in various sectors ranging from cathodic protection of steel to battery electrodes. Herein, voltammetric SECCM and correlative microstructure analysis are deployed to probe the electrochemical activities of a range of microstructural features, with 651 independent voltammetric measurements made in six distinctive areas on the surface of a Zn–Al alloy. Energy-dispersive X-ray spectroscopy (EDS) mapping reveals that specific phases of the alloy structure, particularly the α-phase Zn–Al, favor the early stages of metal dissolution (i.e., oxidation) and electrochemical reduction processes such as the oxygen reduction reaction (ORR) and redeposition of dissolved metal ions. A correlative analysis performed by comparing high-resolution quantitative elemental composition (i.e., EDS) with the corresponding spatially resolved cyclic voltammograms (i.e., SECCM) shows that the nanospot α-phase of the Zn–Al alloy contains high Al content (30–50%), which may facilitate local Al dissolution as the local pH increases during the ORR in unbuffered aqueous media. Overall, SECCM-based high-throughput electrochemical screening, combined with microstructure analysis, conclusively demonstrates that structure-composition heterogeneity significantly influences the local electrochemical activity on complex electrode surfaces. These insights are invaluable for the rational design of advanced electromaterials.

传统电极和电催化剂具有复杂的组成和结构模式,会影响其整体电化学活性。这些图案包括电极表面的缺陷和晶体取向,以及与粘合剂等其他电极成分的层和复合材料。因此,确定这些单个结构如何改变电极的电化学活性至关重要。扫描电化学电池显微镜 (SECCM) 是一种功能强大的工具,可用于研究复杂结构的电化学特性。Zn-Al 合金就是复杂电极表面的一个例子,它被广泛应用于从钢铁阴极保护到电池电极等各个领域。本文利用伏安法 SECCM 和相关微结构分析来探究一系列微结构特征的电化学活性,在锌铝合金表面的六个不同区域进行了 651 次独立伏安法测量。能量色散 X 射线光谱(EDS)图显示,合金结构的特定相,特别是 Zn-Al 的 α 相,有利于金属溶解(即氧化)和电化学还原过程的早期阶段,如氧还原反应(ORR)和溶解金属离子的再沉积。通过比较高分辨率定量元素组成(即 EDS)和相应的空间分辨循环伏安图(即 SECCM)进行的相关分析表明,锌铝合金的纳米点 α 相含有较高的铝含量(30-50%),这可能会在无缓冲水介质中发生 ORR 时,随着局部 pH 值的增加而促进局部铝溶解。总之,基于 SECCM 的高通量电化学筛选与微观结构分析相结合,最终证明了结构-组成异质性会显著影响复杂电极表面的局部电化学活性。这些见解对于合理设计先进的电材料非常宝贵。
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引用次数: 0
Theoretical Studies of Anisotropic Melting of Ice Induced by Ultrafast Nonthermal Heating 超快非热加热诱导冰各向异性熔化的理论研究
Q2 CHEMISTRY, PHYSICAL Pub Date : 2024-05-08 DOI: 10.1021/acsphyschemau.3c00072
Ibrahim Dawod, Kajwal Patra, Sebastian Cardoch, H. Olof Jönsson, Jonas A. Sellberg, Andrew V. Martin, Jack Binns, Oscar Grånäs, Adrian P. Mancuso, Carl Caleman, Nicusor Timneanu
Water and ice are routinely studied with X-rays to reveal their diverse structures and anomalous properties. We employ a hybrid collisional-radiative/molecular-dynamics method to explore how femtosecond X-ray pulses interact with hexagonal ice. We find that ice makes a phase transition into a crystalline plasma where its initial structure is maintained up to tens of femtoseconds. The ultrafast melting process occurs anisotropically, where different geometric configurations of the structure melt on different time scales. The transient state and anisotropic melting of crystals can be captured by X-ray diffraction, which impacts any study of crystalline structures probed by femtosecond X-ray lasers.
人们经常用 X 射线研究水和冰,以揭示它们的不同结构和异常特性。我们采用碰撞-辐射/分子动力学混合方法来探索飞秒 X 射线脉冲如何与六角冰相互作用。我们发现,冰会发生相变,转变为晶体等离子体,其初始结构可维持数十飞秒。超快熔化过程以各向异性的方式发生,不同几何构型的结构在不同的时间尺度上熔化。晶体的瞬态和各向异性熔化可通过 X 射线衍射捕捉到,这对任何利用飞秒 X 射线激光探测晶体结构的研究都有影响。
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引用次数: 0
Theoretical Studies of Anisotropic Melting of Ice Induced by Ultrafast Nonthermal Heating 超快非热加热诱导冰各向异性熔化的理论研究
IF 3.7 Q2 CHEMISTRY, PHYSICAL Pub Date : 2024-05-08 DOI: 10.1021/acsphyschemau.3c0007210.1021/acsphyschemau.3c00072
Ibrahim Dawod*, Kajwal Patra, Sebastian Cardoch, H. Olof Jönsson, Jonas A. Sellberg, Andrew V. Martin, Jack Binns, Oscar Grånäs, Adrian P. Mancuso, Carl Caleman and Nicusor Timneanu*, 

Water and ice are routinely studied with X-rays to reveal their diverse structures and anomalous properties. We employ a hybrid collisional-radiative/molecular-dynamics method to explore how femtosecond X-ray pulses interact with hexagonal ice. We find that ice makes a phase transition into a crystalline plasma where its initial structure is maintained up to tens of femtoseconds. The ultrafast melting process occurs anisotropically, where different geometric configurations of the structure melt on different time scales. The transient state and anisotropic melting of crystals can be captured by X-ray diffraction, which impacts any study of crystalline structures probed by femtosecond X-ray lasers.

人们经常用 X 射线研究水和冰,以揭示它们的不同结构和异常特性。我们采用碰撞辐射/分子动力学混合方法来探索飞秒 X 射线脉冲如何与六角冰相互作用。我们发现,冰会发生相变,转变为晶体等离子体,其初始结构可维持数十飞秒。超快熔化过程以各向异性的方式发生,不同几何构型的结构在不同的时间尺度上熔化。晶体的瞬态和各向异性熔化可通过 X 射线衍射捕捉到,这对任何利用飞秒 X 射线激光探测晶体结构的研究都有影响。
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引用次数: 0
Rational Design of Far-Red Archaerhodopsin-3-Based Fluorescent Genetically Encoded Voltage Indicators: from Elucidation of the Fluorescence Mechanism in Archers to Novel Red-Shifted Variants 基于远红弓形虫核素-3 的荧光基因编码电压指示器的合理设计:从阐明弓形虫的荧光机制到新型红移变体
Q2 CHEMISTRY, PHYSICAL Pub Date : 2024-04-29 DOI: 10.1021/acsphyschemau.3c00073
Dmitrii M. Nikolaev, Vladimir N. Mironov, Ekaterina M. Metelkina, Andrey A. Shtyrov, Andrey S. Mereshchenko, Nikita A. Demidov, Sergey Yu. Vyazmin, Tatiana B. Tennikova, Svetlana E. Moskalenko, Stanislav A. Bondarev, Galina A. Zhouravleva, Andrey V. Vasin, Maxim S. Panov, Mikhail N. Ryazantsev
Genetically encoded voltage indicators (GEVIs) have found wide applications as molecular tools for visualization of changes in cell membrane potential. Among others, several classes of archaerhodopsin-3-based GEVIs have been developed and have proved themselves promising in various molecular imaging studies. To expand the application range for this type of GEVIs, new variants with absorption band maxima shifted toward the first biological window and enhanced fluorescence signal are required. Here, we integrate computational and experimental strategies to reveal structural factors that distinguish far-red bright archaerhodopsin-3-based GEVIs, Archers, obtained by directed evolution in a previous study (McIsaac et al., PNAS, 2014) and the wild-type archaerhodopsin-3 with an extremely dim fluorescence signal, aiming to use the obtained information in subsequent rational design. We found that the fluorescence can be enhanced by stabilization of a certain conformation of the protein, which, in turn, can be achieved by tuning the pKa value of two titratable residues. These findings were supported further by introducing mutations into wild-type archeorhodopsin-3 and detecting the enhancement of the fluorescence signal. Finally, we came up with a rational design and proposed previously unknown Archers variants with red-shifted absorption bands (λmax up to 640 nm) and potential-dependent bright fluorescence (quantum yield up to 0.97%).
基因编码电压指示剂(GEVIs)作为可视化细胞膜电位变化的分子工具得到了广泛应用。其中,已经开发出几类基于古核素-3 的 GEVIs,并在各种分子成像研究中证明了自己的前景。为了扩大这类 GEVI 的应用范围,需要新的变体,其吸收带最大值向第一个生物窗口移动,并增强荧光信号。在这里,我们整合了计算和实验策略,揭示了区分基于弓形视蛋白-3 的远红光 GEVIs(Archers,在之前的研究中通过定向进化获得)和荧光信号极弱的野生型弓形视蛋白-3 的结构因素,旨在将获得的信息用于后续的合理设计。我们发现,稳定蛋白质的某种构象可以增强荧光,而稳定构象又可以通过调整两个可滴定残基的 pKa 值来实现。通过在野生型原核视蛋白-3中引入突变并检测荧光信号的增强情况,我们进一步证实了这些发现。最后,我们提出了一种合理的设计方案,并提出了以前未知的阿彻变体,它们具有红移吸收带(λmax 高达 640 纳米)和电位依赖性明亮荧光(量子产率高达 0.97%)。
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引用次数: 0
Rational Design of Far-Red Archaerhodopsin-3-Based Fluorescent Genetically Encoded Voltage Indicators: from Elucidation of the Fluorescence Mechanism in Archers to Novel Red-Shifted Variants 基于远红弓形虫核素-3 的荧光基因编码电压指示器的合理设计:从阐明弓形虫的荧光机制到新型红移变体
IF 3.7 Q2 CHEMISTRY, PHYSICAL Pub Date : 2024-04-29 DOI: 10.1021/acsphyschemau.3c0007310.1021/acsphyschemau.3c00073
Dmitrii M. Nikolaev, Vladimir N. Mironov, Ekaterina M. Metelkina, Andrey A. Shtyrov, Andrey S. Mereshchenko, Nikita A. Demidov, Sergey Yu. Vyazmin, Tatiana B. Tennikova, Svetlana E. Moskalenko, Stanislav A. Bondarev, Galina A. Zhouravleva, Andrey V. Vasin, Maxim S. Panov and Mikhail N. Ryazantsev*, 

Genetically encoded voltage indicators (GEVIs) have found wide applications as molecular tools for visualization of changes in cell membrane potential. Among others, several classes of archaerhodopsin-3-based GEVIs have been developed and have proved themselves promising in various molecular imaging studies. To expand the application range for this type of GEVIs, new variants with absorption band maxima shifted toward the first biological window and enhanced fluorescence signal are required. Here, we integrate computational and experimental strategies to reveal structural factors that distinguish far-red bright archaerhodopsin-3-based GEVIs, Archers, obtained by directed evolution in a previous study (McIsaac et al., PNAS, 2014) and the wild-type archaerhodopsin-3 with an extremely dim fluorescence signal, aiming to use the obtained information in subsequent rational design. We found that the fluorescence can be enhanced by stabilization of a certain conformation of the protein, which, in turn, can be achieved by tuning the pKa value of two titratable residues. These findings were supported further by introducing mutations into wild-type archeorhodopsin-3 and detecting the enhancement of the fluorescence signal. Finally, we came up with a rational design and proposed previously unknown Archers variants with red-shifted absorption bands (λmax up to 640 nm) and potential-dependent bright fluorescence (quantum yield up to 0.97%).

基因编码电压指示剂(GEVIs)作为可视化细胞膜电位变化的分子工具,已得到广泛应用。其中,已经开发出几类基于古核素-3 的 GEVIs,并在各种分子成像研究中证明了自己的前景。为了扩大这类 GEVI 的应用范围,需要新的变体,其吸收带最大值向第一个生物窗口移动,并增强荧光信号。在这里,我们整合了计算和实验策略,揭示了区分基于弓形视蛋白-3 的远红光 GEVIs(Archers,在之前的研究中通过定向进化获得)和荧光信号极弱的野生型弓形视蛋白-3 的结构因素,旨在将获得的信息用于后续的合理设计。我们发现,稳定蛋白质的某种构象可以增强荧光,而稳定构象又可以通过调整两个可滴定残基的 pKa 值来实现。通过在野生型原核视蛋白-3中引入突变并检测荧光信号的增强情况,我们进一步证实了这些发现。最后,我们提出了一种合理的设计方案,并提出了以前未知的阿彻变体,它们具有红移吸收带(λmax 高达 640 纳米)和电位依赖性明亮荧光(量子产率高达 0.97%)。
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引用次数: 0
Important Elements of Spin-Exciton and Magnon-Exciton Coupling 自旋-激子和磁子-激子耦合的重要元素
IF 3.7 Q2 CHEMISTRY, PHYSICAL Pub Date : 2024-04-26 DOI: 10.1021/acsphyschemau.4c0001010.1021/acsphyschemau.4c00010
Nicholas J. Brennan, Cora A. Noble, Jiacheng Tang, Michael E. Ziebel* and Youn Jue Bae*, 

The recent discovery of spin-exciton and magnon-exciton coupling in a layered antiferromagnetic semiconductor, CrSBr, is both fundamentally intriguing and technologically significant. This discovery unveils a unique capability to optically access and manipulate spin information using excitons, opening doors to applications in quantum interconnects, quantum photonics, and opto-spintronics. Despite their remarkable potential, materials exhibiting spin-exciton and magnon-exciton coupling remain limited. To broaden the library of such materials, we explore key parameters for achieving and tuning spin-exciton and magnon-exciton couplings. We begin by examining the mechanisms of couplings in CrSBr and drawing comparisons with other recently identified two-dimensional magnetic semiconductors. Furthermore, we propose various promising scenarios for spin-exciton coupling, laying the groundwork for future research endeavors.

最近在层状反铁磁性半导体 CrSBr 中发现了自旋-激子和磁子-激子耦合,这一发现从根本上讲既引人入胜,又具有重要的技术意义。这一发现揭示了利用激子光学获取和操纵自旋信息的独特能力,为量子互连、量子光子学和光自旋电子学的应用打开了大门。尽管自旋-激子和磁子-激子耦合材料具有非凡的潜力,但它们的应用仍然有限。为了扩大此类材料的库,我们探索了实现和调整自旋-激子和磁子-激子耦合的关键参数。我们首先研究了 CrSBr 的耦合机制,并与最近发现的其他二维磁性半导体进行了比较。此外,我们还提出了自旋-外激子耦合的各种可行方案,为未来的研究工作奠定了基础。
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引用次数: 0
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ACS Physical Chemistry Au
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