A Case with Anomaly of the M. subcostalis

In an earlier paper, SATOH (\u2774) described the results of his study of the Mm. subcostales in man and monkey. In view of the relations to the Mm. intercostales and their nerve supply, as a rule they were considered to be independent muscles formed by the separation of one part of the muscle bundles of the Mm. intercostales internus (Eisler) which, instead of inserting into adjacent ribs, had extended further to other ribs. A case of abnormal type by SATOH was found, however, in which this muscle appeared to be a separation from the M. intercostalis intermedius (Eisler) and will be presented here. This condition was found in 1 case (number 777, male) during a study of the bodies of 10 Japanese. This case showed the additional abnormality of having large communicating branches between adjacent intercostal nerves. The muscle described here as being the M. subcostalis was found bilaterally in the same intercostal space with identical findings on each side. This was a band-like muscle which arose from the upper edge of the third rib and crossed over the second rib to the lower edge of the first rib, where it became tendinous and terminated apparently by union and continuation into the origin of the M. intercostalis intermedius (Eisler). Inspection of the relation between this muscle and the underlying M. intercostalis (in the outer layer) showed that the M. intercostalis internus was absent in the first intercostal space so that the M. intercostalis intermedius was in direct contact with this muscle, but no fusion was seen between these two muscles except at the site of insertion. The M. intercostalis was found to be exposed beneath the pleura even in the second intercostal space, and the M. intercostalis internus and intermedius could not be separated so that the M. inter

In Vivo Roles of Fatty Acid Biosynthesis Enzymes in Biosynthesis of Biotin and alpha-Lipoic Acid in Corynebacterium glutamicum

For fatty acid biosynthesis, Corynebacterium glutamicum uses two type I fatty acid synthases (FAS-I), FasA and FasB, in addition to acetyl-coenzyme A (CoA) carboxylase (ACC) consisting of AccBC, AccD1, and AccE. The in vivo roles of the enzymes in supplying precursors for biotin and alpha-lipoic acid remain unclear. Here, we report genetic evidence demonstrating that the biosynthesis of these cofactors is linked to fatty acid biosynthesis through the FAS-I pathway. For this study, we used wild-type C. glutamicum and its derived biotin vitamer producer BFI-5, which was engineered to express Escherichia coli bioBF and Bacillus subtilis bioI. Disruption of either fasA or fasB in strain BFI-5 led to decreased production of biotin vitamers, whereas its amplification contributed to increased production, with a larger impact of fasA in both cases. Double disruptions of fasA and fasB resulted in no biotin vitamer production. The acc genes showed a positive effect on production when amplified simultaneously. Augmented fatty acid biosynthesis was also reflected in pimelic acid production when carbon flow was blocked at the BioF reaction. These results indicate that carbon flow down the FAS-I pathway is destined for channeling into the biotin biosynthesis pathway, and that FasA in particular has a significant impact on precursor supply. In contrast, fasB disruption resulted in auxotrophy for lipoic acid or its precursor octanoic acid in both wild-type and BFI-5 strains. The phenotypes were fully complemented by plasmid-mediated expression of fasB but not fasA. These results reveal that FasB plays a specific physiological role in lipoic acid biosynthesis in C. glutamicum. IMPORTANCE For the de novo biosynthesis of fatty acids, C. glutamicum exceptionally uses a eukaryotic multifunctional type I fatty acid synthase (FAS-I) system comprising FasA and FasB, in contrast to most bacteria, such as E. coli and B. subtilis, which use an individual nonaggregating type II fatty acid synthase (FAS-II) system. In this study, we reported genetic evidence demonstrating that the FAS-I system is the source of the biotin precursor in vivo in the engineered biotin-prototrophic C. glutamicum strain. This study also uncovered the important physiological role of FasB in lipoic acid biosynthesis. Here, we present an FAS-I enzyme that functions in supplying the lipoic acid precursor, although its biosynthesis has been believed to exclusively depend on FAS-II in organisms. The findings obtained here provide new insights into the metabolic engineering of this industrially important microorganism to produce these compounds effectively.ArticleAPPLIED AND ENVIRONMENTAL MICROBIOLOGY. 83(19):UNSP e01322-17 (2017)journal articl

Dynamic organization of chromatin domains revealed by super-resolution live-dell imaging

Author Posting. © The Author(s), 2017. This is the author's version of the work. It is posted here by permission of Cell Press for personal use, not for redistribution. The definitive version was published in Molecular Cell 67 (2017): 282-293, doi:10.1016/j.molcel.2017.06.018.The eukaryotic genome is organized within cells as chromatin. For proper information output, higher-order chromatin structures can be regulated dynamically. How such structures form and behave in various cellular processes remains unclear. Here, by combining super-resolution imaging (photoactivated localization microscopy, PALM) and single nucleosome tracking, we developed a nuclear imaging system to visualize the higher-order structures along with their dynamics in live mammalian cells. We demonstrated that nucleosomes form compact domains with a peak diameter of ~160 nm and move coherently in live cells. The heterochromatin-rich regions showed more domains and less movement. With cell differentiation, the domains became more apparent, with reduced dynamics. Furthermore, various perturbation experiments indicated that they are organized by a combination of factors, including cohesin and nucleosome–nucleosome interactions. Notably, we observed the domains during mitosis, suggesting that they act as building blocks of chromosomes and may serve as information units throughout the cell cycle.This work was supported by MEXT and JSPS grants (23115005 and 16H04746, respectively) and a JST CREST grant (JPMJCR15G2).2018-07-1

Adsorption of organics on MSC5A in supercritical CO 2: chromatographic measurements & stop & go simulation

Chromatographic measurements were made for the adsorption of benzene, toluene and m-xylene on molecular sieving carbon (MSC) in a supercritical fluid CO2 mixed with organics. A supercritical chromatograph packed with MSC was used to detect pulse responses of the organics. Adsorption equilibria and adsorption dynamic parameters for organics were obtained by moment analysis of the response peaks. Dependences of adsorption equilibrium constants, K*, and micropore diffusivity, D, on the amount adsorbed were examined. The dependencies of adsorption equilibrium constants, K*, and micropore diffusivities, D, for benzene, toluene and m-xylene, on the molarity of benzene over a range of temperature and pressure were obtained. Experimental results were simulated using the “Stop & Go” method as well as by molecular simulation

Single nucleosome imaging reveals loose genome chromatin networks via active RNA polymerase II.

© The Author(s), 2019. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Nagashima, R., Hibino, K., Ashwin, S. S., Babokhov, M., Fujishiro, S., Imai, R., Nozaki, T., Tamura, S., Tani, T., Kimura, H., Shribak, M., Kanemaki, M. T., Sasai, M., & Maeshima, K. Single nucleosome imaging reveals loose genome chromatin networks via active RNA polymerase II. Journal of Cell Biology, 218(5), (2019):1511-1530, doi:10.1083/jcb.201811090.Although chromatin organization and dynamics play a critical role in gene transcription, how they interplay remains unclear. To approach this issue, we investigated genome-wide chromatin behavior under various transcriptional conditions in living human cells using single-nucleosome imaging. While transcription by RNA polymerase II (RNAPII) is generally thought to need more open and dynamic chromatin, surprisingly, we found that active RNAPII globally constrains chromatin movements. RNAPII inhibition or its rapid depletion released the chromatin constraints and increased chromatin dynamics. Perturbation experiments of P-TEFb clusters, which are associated with active RNAPII, had similar results. Furthermore, chromatin mobility also increased in resting G0 cells and UV-irradiated cells, which are transcriptionally less active. Our results demonstrated that chromatin is globally stabilized by loose connections through active RNAPII, which is compatible with models of classical transcription factories or liquid droplet formation of transcription-related factors. Together with our computational modeling, we propose the existence of loose chromatin domain networks for various intra-/interchromosomal contacts via active RNAPII clusters/droplets.We thank Dr. Y. Hiromi, Dr. S. Hirose, Dr. H. Seino, and Dr. S. Ide for critical reading of this manuscript. We thank Dr. S. Ide, Dr. D. Kaida, Dr. T. Nagai, Dr. V. Doye, Dr. G. Felsenfeld, and Dr. K. Horie for valuable help and materials. We also thank the Maeshima laboratory members for helpful discussions and support. R. Imai and T. Nozaki are Japan Society for the Promotion of Science Fellows. R. Nagashima was supported by 2017 SOKENDAI Short-Stay Study Abroad Program. This work was supported by a Japan Society for the Promotion of Science grant (16H04746), Takeda Science Foundation, RIKEN Pioneering Project, a Japan Science and Technology Agency Core Research for Evolutional Science and Technology grant (JPMJCR15G2), a National Institute of General Medical Sciences grant (R01-GM101701), and National Institute of Genetics JOINT (2016-A2 (6))

DialMAT: Dialogue-Enabled Transformer with Moment-Based Adversarial Training

This paper focuses on the DialFRED task, which is the task of embodied instruction following in a setting where an agent can actively ask questions about the task. To address this task, we propose DialMAT. DialMAT introduces Moment-based Adversarial Training, which incorporates adversarial perturbations into the latent space of language, image, and action. Additionally, it introduces a crossmodal parallel feature extraction mechanism that applies foundation models to both language and image. We evaluated our model using a dataset constructed from the DialFRED dataset and demonstrated superior performance compared to the baseline method in terms of success rate and path weighted success rate. The model secured the top position in the DialFRED Challenge, which took place at the CVPR 2023 Embodied AI workshop.Comment: Accepted for presentation at Fourth Annual Embodied AI Workshop at CVP

Coupled spin-charge-phonon fluctuation in the all-in/all-out antiferromagnet Cd2Os2O7

We report on a spin-charge fluctuation in the all-in/all-out pyrochlore magnet Cd2Os2O7, where the spin fluctuation is driven by the conduction of thermally excited electrons/holes and associated fluctuation of Os valence. The fluctuation exhibits an activation energy significantly greater than the spin-charge excitation gap and a peculiar frequency range of 10(6)-10(10) s(-1). These features are attributed to the hopping motion of carriers as small polarons in the insulating phase, where the polaron state is presumably induced by the magnetoelastic coupling via the strong spin-orbit interaction. Such a coupled spin-charge-phonon fluctuation manifests as a part of the metal-insulator transition that is extended over a wide temperature range due to the modest electron correlation comparable with other interactions characteristic for 5d-subshell systems

A Transient Rise in Free Mg 2+ Ions Released from ATP-Mg Hydrolysis Contributes to Mitotic Chromosome Condensation

細胞分裂期の染色体凝縮はマグネシウムイオンの増加によって起こる --生細胞イメージングにより新たなメカニズムを検証--. 京都大学プレスリリース. 2018-01-19.For cell division, negatively charged chromatin, in which nucleosome fibers (10 nm fibers) are irregularly folded [ 1–5 ], must be condensed into chromosomes and segregated. While condensin and other proteins are critical for organizing chromatin into the appropriate chromosome shape [ 6–17 ], free divalent cations such as Mg2+ and Ca2+, which condense chromatin or chromosomes in vitro [ 18–28 ], have long been considered important, especially for local condensation, because the nucleosome fiber has a net negative charge and is by itself stretched like “beads on a string” by electrostatic repulsion. For further folding, other positively charged factors are required to decrease the charge and repulsion [ 29 ]. However, technical limitations to measure intracellular free divalent cations, but not total cations [ 30 ], especially Mg2+, have prevented us from elucidating their function. Here, we developed a Förster resonance energy transfer (FRET)-based Mg2+ indicator that monitors free Mg2+ dynamics throughout the cell cycle. By combining this indicator with Ca2+ [ 31 ] and adenosine triphosphate (ATP) [ 32 ] indicators, we demonstrate that the levels of free Mg2+, but not Ca2+, increase during mitosis. The Mg2+ increase is coupled with a decrease in ATP, which is normally bound to Mg2+ in the cell [ 33 ]. ATP inhibited Mg2+-dependent chromatin condensation in vitro. Chelating Mg2+ induced mitotic cell arrest and chromosome decondensation, while ATP reduction had the opposite effect. Our results suggest that ATP-bound Mg2+ is released by ATP hydrolysis and contributes to mitotic chromosome condensation with increased rigidity, suggesting a novel regulatory mechanism for higher-order chromatin organization by the intracellular Mg2+-ATP balance

Dynamic Organization of Chromatin Domains Revealed by Super-Resolution Live-Cell Imaging

The eukaryotic genome is organized within cells as chromatin. For proper information output, higher-order chromatin structures can be regulated dynamically. How such structures form and behave in various cellular processes remains unclear. Here, by combining super-resolution imaging (photoactivated localization microscopy [PALM]) and single-nucleosome tracking, we developed a nuclear imaging system to visualize the higher-order structures along with their dynamics in live mammalian cells. We demonstrated that nucleosomes form compact domains with a peak diameter of ∼160 nm and move coherently in live cells. The heterochromatin-rich regions showed more domains and less movement. With cell differentiation, the domains became more apparent, with reduced dynamics. Furthermore, various perturbation experiments indicated that they are organized by a combination of factors, including cohesin and nucleosome-nucleosome interactions. Notably, we observed the domains during mitosis, suggesting that they act as building blocks of chromosomes and may serve as information units throughout the cell cycle