A5070111509- Crystallization and Solubility Studies
- X-ray Diffraction in Crystallography
- Connexins and lens biology
- melanin and skin pigmentation
- Crystallography and molecular interactions
- Endodontics and Root Canal Treatments
- Protein Structure and Dynamics
- RNA and protein synthesis mechanisms
- Genetic diversity and population structure
- Enzyme Structure and Function
- Genomics and Phylogenetic Studies
- Developmental Biology and Gene Regulation
- Dental materials and restorations
- Photoreceptor and optogenetics research
- Nicotinic Acetylcholine Receptors Study
- RNA modifications and cancer
- Microbial Natural Products and Biosynthesis
- Photosynthetic Processes and Mechanisms
- Protist diversity and phylogeny
- Dental Radiography and Imaging
- Zebrafish Biomedical Research Applications
- Retinal Development and Disorders
- Nonlinear Dynamics and Pattern Formation
- Cell Adhesion Molecules Research
- Dental Trauma and Treatments
Osaka University
2015-2024
Ube Frontier University
2018-2023
University of Saint Mary
2020
Photonics (United States)
2014
Tokyo Institute of Technology
1997-2013
Japan Science and Technology Agency
2013
The Graduate University for Advanced Studies, SOKENDAI
2007-2010
Food Research Institute
2001-2003
National Institute for Basic Biology
1991-2001
University of Maryland, Baltimore
1998-2001
New protein parameters are reported for the all-atom empirical energy function in CHARMM program. The parameter evaluation was based on a self-consistent approach designed to achieve balance between internal (bonding) and interaction (nonbonding) terms of force field among solvent-solvent, solvent-solute, solute-solute interactions. Optimization used experimental gas-phase geometries, vibrational spectra, torsional surfaces supplemented with ab initio results. peptide backbone bonding were...
If an ergodic Hamiltonian is changing slowly in time, its energy shell adiabatic invariant: Even though the changes, initial surface of constant mapped into a continuous family surfaces, each which also energy. This observation allows efficient and direct dynamical calculation entropy classical fluids, exemplified here by simple model liquid water. The results depend substantially on form ``switching'' function, suggesting possible improvements traditional thermodynamic switching processes....
Divergent natural selection acting on ecological traits, which also affect mate choice, is a key element of speciation theory, but has not previously been demonstrated at the molecular gene level to our knowledge. Here we demonstrate parallel evolution in two cichlid genera under strong divergent that affects both. Strong fixed opsin proteins with different predicted light absorbance properties opposite ends an environmental gradient. By expressing them and measuring absorbance, show...
The endemic cichlid fishes in Lake Victoria are a model system for speciation through adaptive radiation. Although the evolution of sex-determination may also play role speciation, little is known about cichlids. To understand these fish, we performed cytogenetic analysis 11 species from Victoria. B chromosomes, which present addition to standard were found at high prevalence rate (85%) In one species, chromosomes female-specific. Cross-breeding using females with and without demonstrated...
The skin pigment pattern of zebrafish is a good model system in which to study the mechanism biological formation. Although it known that interactions between melanophores and xanthophores play key role formation adult stripes, molecular mechanisms for these remain largely unknown. Here, we show Delta/Notch signaling contributes interactions. Ablation yellow stripes induced death black suggesting require survival signal from distant xanthophores. We found deltaC notch1a were expressed by...
Pannexin (PANX) family proteins form large-pore channels that mediate purinergic signaling. We analyzed the cryo-EM structures of human PANX1 in lipid nanodiscs to elucidate gating mechanism and its regulation by amino terminus phospholipids. The wild-type channel has an amino-terminal funnel pore, but presence inhibitor probenecid, a cytoplasmically oriented phospholipids obstruct pore. Functional analysis using whole-cell patch-clamp oocyte voltage clamp showed lacking did not open had...
Many animals have a variety of pigment patterns, even within species, and these patterns may be one the driving forces speciation. Recent molecular genetic studies on zebrafish revealed that interaction among cells plays key role in pattern formation, but mechanism formation is unclear. The jaguar/obelix mutant has broader stripes than wild-type fish. In this mutant, development normal their distribution altered, making fish ideal for studying process formation. Here, we utilized positional...
The zebrafish adult pigment pattern has emerged as a useful model for understanding the development and evolution of form well pattern-forming mechanisms more generally. In this species, series horizontal melanophore stripes arises during larval-to-adult transformation, but genetic cellular bases stripe formation remain largely unknown. Here, we show that seurat mutant phenotype, consisting an irregular spotted pattern, from lesions in gene encoding Immunoglobulin superfamily member 11...
Although domesticated goldfish strains exhibit highly diversified phenotypes in morphology, the genetic basis underlying these is poorly understood. Here, based on analysis of transposable elements allotetraploid genome, we found that its two subgenomes have evolved asymmetrically since a whole-genome duplication event ancestor and common carp. We conducted sequencing 27 wild goldfish. identified more than 60 million variations established population structure major strains. Genome-wide...
Cryo-EM structures of the undocked INX-6 hemichannels reveal a pore obstruction and N-terminal rearrangement in lipids.
Rodent animal models for vital pulp therapy are commonly used in dental research because their tooth anatomy and cellular processes similar to the humans. However, most studies have been conducted using uninfected sound teeth, which makes it difficult adequately assess inflammatory shift after therapy. In present study, we aimed establish a caries-induced pulpitis model based on conventional rat caries then evaluate changes during wound-healing process capping of reversible induced by...
In molecular dynamics simulations of flexible molecules, the treatment motions that take place on different time scales (e.g., bond stretching and angle bending vs dihedral librations overall translation rotation) or forces vary differently with distance bonding electrostatic forces) is a major consideration. The most rapidly varying quantity limits integration step, while slowly usually determines simulation required. reversible multiple time-step methods introduced by Tuckerman, Berne,...
The skin patterns of animals are very important for their survival, yet the mechanisms involved in pattern formation remain unresolved. Turing's reaction-diffusion model presents a well-known mathematical explanation how animal formed, and this can predict various that observed nature. In study, we used transgenic zebrafish to generate artificial including narrow stripe with wide interstripe, labyrinth, 'leopard' (or donut-like ring pattern). process, connexin41.8 its mutant form) was...
Abstract— Using a computerized videomicroscope motion analysis system, we investigated the photomovements of two Synechocystis sp. (PCC 6803 and ATCC 27184). PCC displays relatively slow gliding motion. The phototactic photokinetic speeds this cyanobacterium in liquid media were 5μm/min 15.8 μm/min, respectively, at 3μmol/m2/s stimulant white light. senses light direction rather than intensity for phototaxis. 27184 showed weak photokinesis but no Analysis suggests that loss phototaxis...
A modeling approach that can significantly speed up the dynamics simulation of large molecular systems is presented herein. multigranular approach, whereby different parts molecule are modeled at levels detail, enabled by substructuring. Substructuring system accomplished collecting groups atoms into rigid or flexible bodies. Body flexibility a truncated set body-based modes. This allows for elimination high-frequency harmonic motion while capturing low-frequency anharmonic interest. results...
Archaeosine is a novel derivative of 7-deazaguanosine found in transfer RNAs most organisms exclusively the archaeal phylogenetic lineage and present D-loop at position 15. We show that this modification formed by posttranscriptional base replacement reaction, catalyzed new tRNA-guanine transglycosylase (TGT), which has been isolated from<i>Haloferax volcanii</i> purified nearly to homogeneity. The molecular weight enzyme was estimated be 78 kDa SDS-gel electrophoresis. can insert free...
The zebrafish has a striped skin pattern on its body, and Connexin41.8 (Cx41.8) Cx39.4 are involved in formation. Mutations these connexins change the to spot or labyrinth pattern. In this study, we characterized Cx41.8 after expression Xenopus oocytes. addition, analyzed mutants Cx41.8I203F Cx41.8M7, which caused patterns, respectively, transgenic zebrafish. electrophysiological analysis, gap junctions formed by showed distinct sensitivity transjunctional voltage. Analysis of non-junctional...
Surface pre-reacted glass (S-PRG) fillers are new bioactive molecules used in dental clinic work to fill tooth defects. These release various types of ions (Al+3, BO−3, Na+, SiO3−2, Sr+2 and F−) exhibit high biocompatibility, antibacterial capability, reduced plaque accumulation, enhanced osteoblast differentiation. We previously showed that cement S-PRG could induce tertiary dentin formation rat models. Previous also lithium can activate the Wnt/β-catenin signaling pathway vitro...
ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTSimulations of Macromolecules by Multiple Time-Step MethodsMasakatsu Watanabe and Martin KarplusCite this: J. Phys. Chem. 1995, 99, 15, 5680–5697Publication Date (Print):April 1, 1995Publication History Published online1 May 2002Published inissue 1 April 1995https://pubs.acs.org/doi/10.1021/j100015a061https://doi.org/10.1021/j100015a061research-articleACS PublicationsRequest reuse permissionsArticle Views203Altmetric-Citations66LEARN ABOUT THESE...