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Cryoelectron tomography of the cell nucleus using scanning transmission electron microscopy and deconvolution processing technology has highlighted a large-scale, 100- to 300-nm interphase chromosome structure, which is present throughout the nucleus. This study further documents and analyzes these chromosome structures. The paper is divided into four parts: 1) evidence (preliminary) for a unified interphase chromosome structure; 2) a proposed unified interphase chromosome architecture; 3) organization as chromosome territories (e.g., fitting the 46 human chromosomes into a 10-μm-diameter nucleus); and 4) structure unification into a polytene chromosome architecture and lampbrush chromosomes. Finally, the paper concludes with a living light microscopy cell study showing that the G1 nucleus contains very similar structures throughout. The main finding is that this chromosome structure appears to coil the 11-nm nucleosome fiber into a defined hollow structure, analogous to a Slinky helical spring [https://en.wikipedia.org/wiki/Slinky; motif used in Bowerman et al., eLife 10, e65587 (2021)]. This Slinky architecture can be used to build chromosome territories, extended to the polytene chromosome structure, as well as to the structure of lampbrush chromosomes.

A molecular architecture is proposed for a representative mitotic chromosome, human chromosome 10. This architecture is built on an interphase chromosome structure based on cryo-electron microscopy (cryo-EM) cellular tomography [J. Sedat et al., Proc. Natl. Acad. Sci. U.S.A., in press], thus unifying chromosome structure throughout the complete mitotic cycle. The basic organizational principle for mitotic chromosomes is specific coiling of the 11-nm nucleosome fiber into large scale, ∼200-nm interphase structures, a Slinky [https://en.wikipedia.org/wiki/Slinky; motif cited in S. Bowerman et al., eLife 10, e65587 (2021)], then further modified with subsequent additional coiling for the final mitotic chromosome structure. The final mitotic chromosome architecture accounts for the dimensional values as well as the well-known cytological configurations. In addition, proof is experimentally provided by digital PCR technology that G1 T cell nuclei are diploid with one DNA molecule per chromosome. Many nucleosome linker DNA sequences, the promotors and enhancers, are suggestive of optimal exposure on the surfaces of the large-scale coils.

Type I interferons (IFN), which activate many IFN-stimulated genes (ISG), are known to regulate tumorigenesis. However, little is known regarding how various ISGs coordinate with one another in developing antitumor effects. Here, we report that the ISG UBA7 is a tumor suppressor in breast cancer. UBA7 encodes an enzyme that catalyzes the covalent conjugation of the ubiquitin-like protein product of another ISG (ISG15) to cellular proteins in a process known as "ISGylation." ISGylation of other ISGs, including STAT1 and STAT2, synergistically facilitates production of chemokine-receptor ligands to attract cytotoxic T cells. These gene-activation events are further linked to clustering and nuclear relocalization of STAT1/2 within IFN-induced promyelocytic leukemia (PML) bodies. Importantly, this coordinated ISG-ISGylation network plays a central role in suppressing murine breast cancer growth and metastasis, which parallels improved survival in patients with breast cancer. These findings reveal a cooperative IFN-inducible gene network in orchestrating a tumor-suppressive microenvironment. SIGNIFICANCE: We report a highly cooperative ISG network, in which UBA7-mediated ISGylation facilitates clustering of transcription factors and activates an antitumor gene-expression program. These findings provide mechanistic insights into immune evasion in breast cancer associated with UBA7 loss, emphasizing the importance of a functional ISG-ISGylation network in tumor suppression.This article is highlighted in the In This Issue feature, p. 327.

During prophase I of meiosis, chromosomes become organized as loop arrays around the proteinaceous chromosome axis. As homologous chromosomes physically pair and recombine, the chromosome axis is integrated into the tripartite synaptonemal complex (SC) as this structure's lateral elements (LEs). While the components of the mammalian chromosome axis/LE-including meiosis-specific cohesin complexes, the axial element proteins SYCP3 and SYCP2, and the HORMA domain proteins HORMAD1 and HORMAD2-are known, the molecular organization of these components within the axis is poorly understood. Here, using expansion microscopy coupled with 2-color stochastic optical reconstruction microscopy (STORM) imaging (ExSTORM), we address these issues in mouse spermatocytes at a resolution of 10 to 20 nm. Our data show that SYCP3 and the SYCP2 C terminus, which are known to form filaments in vitro, form a compact core around which cohesin complexes, HORMADs, and the N terminus of SYCP2 are arrayed. Overall, our study provides a detailed structural view of the meiotic chromosome axis, a key organizational and regulatory component of meiotic chromosomes.

The limited resolution of a conventional optical imaging system stems from the fact that the fine feature information of an object is carried by evanescent waves, which exponentially decays in space and thus cannot reach the imaging plane. We introduce here an adiabatic lens, which utilizes a geometrically conformal surface to mediate the interference of slowly decompressed electromagnetic waves at far field to form images. The decompression is satisfying an adiabatic condition, and by bridging the gap between far field and near field, it allows far-field optical systems to project an image of the near-field features directly. Using these designs, we demonstrated the magnification can be up to 20 times and it is possible to achieve sub-50 nm imaging resolution in visible. Our approach provides a means to extend the domain of geometrical optics to a deep sub-wavelength scale.

Natural proteins often rely on the disulfide bond to covalently link side chains. Here we genetically introduce a new type of covalent bond into proteins by enabling an unnatural amino acid to react with a proximal cysteine. We demonstrate the utility of this bond for enabling irreversible binding between an affibody and its protein substrate, capturing peptide-protein interactions in mammalian cells, and improving the photon output of fluorescent proteins.

When light illuminates a rough metallic surface, hotspots can appear, where the light is concentrated on the nanometre scale, producing an intense electromagnetic field. This phenomenon, called the surface enhancement effect (1,2), has a broad range of potential applications, such as the detection of weak chemical signals. Hotspots are believed to be associated with localized electromagnetic modes (3,4), caused by the randomness of the surface texture. Probing the electromagnetic field of the hotspots would offer much insight towards uncovering the mechanism generating the enhancement; however, it requires a spatial resolution of 1-2 nm, which has been a long-standing challenge in optics. The resolution of an optical microscope is limited to about half the wavelength of the incident light, approximately 200-300 nm. Although current state-of-the-art techniques, including near-field scanning optical microscopy (5), electron energy-loss spectroscopy (6), cathode luminescence imaging (7) and two-photon photoemission imaging (8) have subwavelength resolution, they either introduce a non-negligible amount of perturbation, complicating interpretation of the data, or operate only in a vacuum. As a result, after more than 30 years since the discovery of the surface enhancement effect (9-11), how the local field is distributed remains unknown. Here we present a technique that uses Brownian motion of single molecules to probe the local field. It enables two-dimensional imaging of the fluorescence enhancement profile of single hotspots on the surfaces of aluminium thin films and silver nanoparticle clusters, with accuracy down to 1.2 nm. Strong fluorescence enhancements, up to 54 and 136 times respectively, are observed in those two systems. This strong enhancement indicates that the local field, which decays exponentially from the peak of a hotspot, dominates the fluorescence enhancement profile., The study of the surface enhancement effect mirrors the development of surface analysis techniques. Previous optical experiments revealed that the roughness of the surface has a critical role in determining [...]

A comparison is made of the dynamics observed over wide ranges of time and temperature between five supercooled liquids and four isotropic phase liquid crystals that have been previously studied separately. Optical-heterodyne-detected optical Kerr effect (OHD-OKE) measurements were employed to obtain the orientational relaxation dynamics over time scales from sub-ps to tens of ns. For the supercooled liquids, the temperatures range from above the melting point down to ∼ T[SUBc], the mode coupling theory critical temperature. For the liquid crystals, the temperatures range from well above the isotropic-to-nematic phase transition temperature T[SUBNI] down to ∼ T[SUBNI]. For time scales longer than those dominated by intramolecular vibrational dynamics (≲1 ps), the fundamental details of the dynamics are identical. All nine liquids exhibit decays of the OHD-OKE signal that begin (> 1 ps) with a temperature-independent power law t[SUP-z], where z is somewhat less than or equal to 1. The power law decay is followed in both the supercooled liquids and liquid crystals by a crossover region, modeled as a second power law. The longest time scale decay for all nine liquids is exponential. In supercooled liquids, the exponential decay is the a relaxation (complete structural relaxation). In liquid crystals, the exponential decay is the Landau-de Gennes decay (relaxation of pseudonematic domains). As T[SUBc] (supercooled liquids) and T[SUBNI] (liquid crystals) are approached from above, the time range over which the ''intermediate'' power law can be observed increases, until near T[SUBc] and T[SUBNI], the power law can be observed from >1 ps to many ns. The data for all nine liquids are described accurately by the same functional form and exhibit a scaling relation in common. The nature of the dynamics in the liquid crystals is understood in terms of pseudonematic domains that have a correlation length j, which increases as T[SUBNI] is approached. It is... [ABSTRACT FROM AUTHOR]

Dynamics of supercooled ortho-terphenyl, salol, benzophenone, 2-biphenylmethanol, and dibutylphthalate have been studied using optical heterodyne detected optical Kerr effect experiments over a broad range of time, <1 ps to tens of ns. On time scales longer than those influenced by intramolecular vibrational dynamics, "intermediate" power law decays with temperature independent exponents close to -1 have been observed from ∼2 ps to 1-10 ns in all five samples. The intermediate power law decays occur over a wide range of temperatures from well above to somewhat below T[sub c], the mode-coupling theory (MCT) critical temperature. The intermediate power law corresponds to approximately a logarithmic decay of the polarizability-polarizability (orientational) correlation function. The amplitude of the intermediate power law increases with increasing temperature as [(T-T[sub c])/T[sub c]]½. The intermediate power law decay is followed by a second longer time scale power law, and the final portion of the decay is exponential. As a framework for discussion, the results are compared to the quantitative predictions of the MCT. The observations are in contrast to the standard MCT for the longer time portions of the decays. The observed intermediate power law decays may be consistent with MCT if the dynamics occur in the part of the MCT parameter space near a high order singularity (end point case). [ABSTRACT FROM AUTHOR]

The dynamics of three liquid crystals, 4′(pentyloxy)-4-biphenylcarbonitrile (5-OCB), 4′-pentyl-4-biphenylcarbonitrile (5-CB), and 1-isothiocyanato-(4-propylcyclohexyl)benzene (3-CHBT), are investigated from very short time (∼1 ps) to very long time (> 100 ns) as a function of temperature using optical heterodyne detected optical Kerr effect experiments. For all three liquid crystals, the data decay exponentially only on the longest time scale (> several ns). The temperature dependence of the long time scale exponential decays is described well by the Landau-de Gennes theory of the randomization of pseudonematic domains that exist in the isotropic phase of liquid crystals near the isotropic to nematic phase transition. At short time, all three liquid crystals display power law decays. Over the full range of times, the data for all three liquid crystals are fit with a model function that contains a short time power law. The power law exponents for the three liquid crystals range between 0.63 and 0.76, and the power law exponents are temperature independent over a wide range of temperatures. Integration of the fitting function gives the empirical polarizability-polarizability (orientational) correlation function. A preliminary theoretical treatment of collective motions yields a correlation function that indicates that the data can decay as a power law at short times. The power law component of the decay reflects intradomain dynamics. [ABSTRACT FROM AUTHOR]

The dynamics in the isotropic phase of the liquid crystal 1-isothiocyanato-(4-propylcyclohexyl) benzene (3-CHBT) are investigated from very short time (∼1 ps) to very long time (>100 ns) as function of temperature. The data decay exponentially only on the longest time scale (>10 ns). The temperature dependence of the long time scale exponential decays is described well by the Landau–de Gennes theory of the randomization of pseudo-nematic domains that exist in the isotropic phase of liquid crystals near the isotropic to nematic phase transition. Over the full range of times, the data are fit with a model function that contains a short time power law. The power law exponent is temperature independent over a wide range of temperatures. Integration of the function gives the empirical polarizability–polarizability (orientational) correlation function. A preliminary theoretical treatment of collective motions yields a correlation function that indicates that the data can decay as a power law at short times. The power law component of the decay reflects intradomain dynamics. © 2002 American Institute of Physics. [ABSTRACT FROM AUTHOR]