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Shimada, T.

Publications and source records attributed to Shimada, T..

25 records · Page 2Linked to original sources

Virological characteristics of SARS-CoV-2 BA.2 variant

Soon after the emergence and global spread of a new severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) Omicron lineage, BA.1 (ref1, 2), another Omicron lineage, BA.2, has initiated outcompeting BA.1. Statistical analysis shows that the effective reproduction number of BA.2 is 1.4-fold higher than that of BA.1. Neutralisation experiments show that the vaccine-induced humoral immunity fails to function against BA.2 like BA.1, and notably, the antigenicity of BA.2 is different from BA.1. Cell culture experiments show that BA.2 is more replicative in human nasal epithelial cells and more fusogenic than BA.1. Furthermore, infection experiments using hamsters show that BA.2 is more pathogenic than BA.1. Our multiscale investigations suggest that the risk of BA.2 for global health is potentially higher than that of BA.1.

microbiology↗

Three-Component Model of the Spinal Nerve Branching Pattern, based on the View of the Lateral Somitic Frontier and Experimental Validation

One of the decisive questions about human gross anatomy is unmatching the adult branching pattern of the spinal nerve to the embryonic lineages of the peripheral target muscles. The two principal branches in the adult anatomy, the dorsal and ventral rami of the spinal nerve, innervate the intrinsic back muscles (epaxial muscles), as well as the body wall and appendicular muscles (hypaxial muscles), respectively. However, progenitors from the dorsomedial myotome develop into the back and proximal body wall muscles (primaxial muscles) within the sclerotome-derived connective tissue environment. In contrast, those from the ventrolateral myotome develop into the distal body wall and appendicular muscles (abaxial muscles) within the lateral plate-derived connective tissue environment. Thus, the ventral rami innervate muscles that belong to two different embryonic compartments. Because strict correspondence between an embryonic compartment and its cognate innervation is a way to secure the development of functional neuronal circuits, this mismatch indicates that we may need to reconcile our current understanding of the branching pattern of the spinal nerve with regard to embryonic compartments. Accordingly, we first built a model for the branching pattern of the spinal nerve, based on the primaxial-abaxial distinction, and then validated it using mouse embryos. In our model, we hypothesized the following: 1) a single spinal nerve consists of three nerve components: primaxial compartment-responsible branches, a homologous branch to the canonical intercostal nerve bound for innervation to the abaxial compartment in the ventral body wall, and a novel class of nerves that travel along the lateral cutaneous branch to the appendicles; 2) the three nerve components are discrete only during early embryonic periods but are later modified into the elaborate adult morphology; and 3) each of the three components has its own unique morphology regarding trajectory and innervation targets. Notably, the primaxial compartment-responsible branches from the ventral rami have the same features as the dorsal rami. Under the above assumptions, our model comprehensively describes the logic for innervation patterns when facing the intricate anatomy of the spinal nerve in the human body. In transparent whole-mount specimens of embryonic mouse thoraces, the single thoracic spinal nerve in early developmental periods trifurcated into superficial, deep, and lateral cutaneous branches; however, it later resembled the adult branching pattern by contracting the superficial branch. The superficial branches remained segmental while the other two branches were free from axial restriction. Injection of a tracer into the superficial branches of the intercostal nerve labeled Lhx3-positive motoneurons in the medial portion of the medial motor column (MMCm). However, the injection into the deep branches resulted in retrograde labeling of motoneurons that expressed Oct6 in the lateral portion of the medial motor column (MMCl). Collectively, these observations on the embryonic intercostal nerve support our model that the spinal nerve consists of three distinctive components. We believe that our model provides a framework to conceptualize the innervation pattern of the spinal nerve based on the distinction of embryonic mesoderm compartments. Because such information about the spinal nerves is essential, we further anticipate that our model will provide new insights into a broad range of research fields, from basic to clinical sciences.

developmental biology↗

Neural correlates of temporal presentness in theprecuneus: a crosslinguistic fMRI study based on speech stimuli

AbstractsThe position of any event in time could be either present, past, or future. This temporal discrimination is vitally important in our daily conversations, but it remains elusive how the human brain distinguishes among the past, present, and future. To address this issue, we searched for neural correlates of presentness, pastness, and futurity, each of which is automatically evoked when we hear sentences such as it is raining now, it rained yesterday, or it will rain tomorrow. Here, we show that sentences that evoked presentness activated the bilateral precuneus more strongly than those that evoked pastness or futurity. Interestingly, this contrast was shared across native speakers of Japanese, English, and Chinese, languages which vary considerably in their verb tense systems. The results suggest that the precuneus serves as a key region that provides the origin, the Now, to our time perception irrespective of differences in tense systems across languages.

neuroscience↗

A synthetic synaptic organizer protein restores glutamatergic neuronal circuits

Neuronal synapses undergo structural and functional changes throughout life, essential for nervous system physiology. However, these changes may also perturb the excitatory/inhibitory neurotransmission balance and trigger neuropsychiatric and neurological disorders. Molecular tools to restore this balance are highly desirable. Here, we report the design and characterization of CPTX, a synthetic synaptic organizer combining structural elements from cerebellin-1 and neuronal pentraxin-1 to interact with presynaptic neurexins and postsynaptic AMPA-type ionotropic glutamate receptors. CPTX induced the formation of excitatory synapses in vitro and in vivo and restored synaptic functions, motor coordination, spatial and contextual memories, and locomotion in mouse models for cerebellar ataxia, Alzheimers disease and spinal cord injury, respectively. Thus, CPTX represents a prototype for novel structure-guided biologics that can efficiently repair or remodel neuronal circuits. One Sentence SummaryStructural biology information was used to design CPTX, a synthetic protein that induces functional excitatory synapses and restores normal behaviors in mouse models of neurological diseases.

neuroscience↗

Stomatal density affects gas diffusion and CO2 assimilation dynamics in Arabidopsis under fluctuating light

Stomatal density (SD) is closely associated with photosynthetic and growth characteristics in plants. In the field, light intensity can fluctuate drastically throughout a day. The objective of the present study is to examine how the change in SD affects stomatal conductance (gs) and CO2 assimilation rate (A) dynamics, biomass production, and water use under fluctuating light. Here, we compared the photosynthetic and growth characteristics under constant and fluctuating light among four lines of Arabidopsis thaliana (L.): a wild-type (WT), a STOMAGEN/EPFL9-overexpressing line, STOMAGEN/EPFL9-silencing line, and an EPIDERMAL PATTERNING FACTOR 1 knockout line (epf1). Lower SD resulted in faster response of A owing to the faster response of gs to fluctuating light and higher water use efficiency without decreasing A. Higher SD resulted in a faster response of A because of the higher initial gs. epf1, with a moderate increase in SD, showed the larger carbon gain, attributable to the high capacity and fast response of A, yielding higher biomass production than WT under fluctuating light. The present study suggests that higher SD can be beneficial to improve biomass production in the plant under field conditions.

plant biology↗

GUN1 regulates tetrapyrrole biosynthesis

The biogenesis of the photosynthetic apparatus in developing chloroplasts requires the assembly of proteins encoded on both nuclear and chloroplast genomes1. To co-ordinate this process there needs to be communication between these organelles, and while we have a good understanding of how the nucleus controls chloroplast development, how the chloroplast communicates with the nucleus at this time is still essentially unknown2. What we do know comes from pioneering work in which a series of genomes uncoupled (gun) mutants were identified that show elevated nuclear gene expression after chloroplast damage3. Of the six reported gun mutations, five are in tetrapyrrole biosynthesis proteins4-6 and this has led to the development of a model for chloroplast-to-nucleus retrograde signaling in which ferrochelatase 1 (FC1)-dependent heme synthesis generates a positive signal promoting expression of photosynthesis-related genes6. However, the molecular consequences of the strongest of the gun mutants, gun17, is unknown, preventing the development of a unifying hypothesis for chloroplast-to-nucleus signaling. Here, we show that GUN1 directly binds to heme and other metal-porphyrins, affects flux through the tetrapyrrole biosynthesis pathway and can increase the chelatase activity of FC1. These results raise the possibility that the signaling role of GUN1 may be manifested through changes in tetrapyrrole metabolism and supports a role for tetrapyrroles as mediators of a single biogenic chloroplast-to-nucleus retrograde signaling pathway.

plant biology↗

Efficient CRISPR/Cas9-based genome editing and its application to conditional genetic analysis in Marchantia polymorpha

Marchantia polymorpha is one of the model species of basal land plants. Although CRISPR/Cas9-based genome editing has already been demonstrated for this plant, the efficiency was too low to apply to functional analysis. In this study, we show the establishment of CRISPR/Cas9 genome editing vectors with high efficiency for both construction and genome editing. Codon optimization of Cas9 to Arabidopsis achieved over 70% genome editing efficiency at two loci tested. Systematic assessment revealed that guide sequences of 17 nt or shorter dramatically decreased this efficiency. We also demonstrated that a combinatorial use of this system and a floxed complementation construct enabled conditional analysis of a nearly essential gene. This study reports that simple, rapid, and efficient genome editing is feasible with the series of developed vectors.

plant biology↗