A5003766662- Tardigrade Biology and Ecology
- Biocrusts and Microbial Ecology
- Animal Genetics and Reproduction
- Genetic and Clinical Aspects of Sex Determination and Chromosomal Abnormalities
- Spaceflight effects on biology
- Functional Brain Connectivity Studies
- RNA Research and Splicing
- RNA and protein synthesis mechanisms
- Molecular Biology Techniques and Applications
- RNA modifications and cancer
- Adipose Tissue and Metabolism
- Genomics and Chromatin Dynamics
- Genetics, Aging, and Longevity in Model Organisms
- Cancer-related molecular mechanisms research
- Fault Detection and Control Systems
- Single-cell and spatial transcriptomics
- Receptor Mechanisms and Signaling
- Virus-based gene therapy research
- Plant and fungal interactions
- Insect symbiosis and bacterial influences
- Cardiac electrophysiology and arrhythmias
- Muscle Physiology and Disorders
- Ion channel regulation and function
- Protist diversity and phylogeny
- Physiological and biochemical adaptations
Juntendo University
2023-2025
Ufa Institute of Chemistry
2024
Kumamoto University
2023-2024
Kazan Federal University
2015-2024
Endocrinology Research Center
2021-2024
Juntendo University Hospital
2023
Schizophrenia is one of the most widespread and complex mental disorders. To characterize impact schizophrenia, we performed single-nucleus RNA sequencing (snRNA-seq) >220,000 neurons from dorsolateral prefrontal cortex patients with schizophrenia matched controls. In addition, >115,000 were analyzed topographically by immunohistochemistry. Compositional analysis snRNA-seq data revealed a reduction in abundance GABAergic concomitant increase principal neurons, pronounced for upper cortical...
Cap Analysis of Gene Expression (CAGE) in combination with single-molecule sequencing technology allows precision mapping transcription start sites (TSSs) and genome-wide capture promoter activities differentiated steady state cell populations. Much less is known about whether TSS profiling can characterize diverse non-steady populations, such as the approximately 400 transitory heterogeneous types that arise during ontogeny vertebrate animals. To gain insight, we used chick model performed...
Background: Muscle disuse results in complex signaling alterations followed by structural and functional changes, such as atrophy, force decrease slow-to-fast fiber-type shift. Little is known about human skeletal muscle under long-term disuse. Methods: In this study, we describe the effects of 21-day dry immersion on postural soleus muscle. We performed both transcriptomic analysis Western blots to states key pathways regulating fiber size, fiber-type, metabolism. Results: resulted...
Current dissociation methods for solid tissues in scRNA-seq studies do not guarantee intact single-cell isolation, especially sensitive and complex human endocrine tissues. Most rely on enzymatic of fresh samples or nuclei isolation from frozen samples. Dissociating whole cells fresh-frozen samples, commonly collected by biobanks, remains a challenge. Here, we utilized the acetic-methanol approach (ACME) to capture transcriptional profiles individual tissue This method combines acetic...
Wnt signaling orchestrates gene expression in a plethora of processes during development and adult cell homeostasis via the action nuclear β-catenin. Yet, little is known about how β-catenin generates context-specific transcriptional outcomes. Understanding this will reveal aberrant Wnt/β-catenin causes neoplasia specifically colorectal epithelium. We have previously identified transcription factor TBX3 as tissue-specific component complex mouse forelimb development. In study, we show that...
We present a novel modification of genetic algorithm (GA) which determines personalized parameters cardiomyocyte electrophysiology model based on set experimental human action potential (AP) recorded at different heart rates. In order to find the steady state solution, optimized performs simultaneous search in parametric and slow variables spaces. demonstrate that several GA modifications are required for effective convergence. Firstly, we used Cauchy mutation along random direction space....
Abstract Larvae of the African midge Polypedilum vanderplanki (Diptera: Chironomidae) show a form extreme desiccation tolerance known as anhydrobiosis. The cell line Pv11 was recently established from species, and these cells can also survive under desiccated conditions, proliferate normally after rehydration. Here we report identification new promoter, 121, which has strong constitutive transcriptional activity in promotes effective expression exogenous genes. Using luciferase reporter...
Using the Cap Analysis of Gene Expression (CAGE) technology, FANTOM5 consortium provided one most comprehensive maps transcription start sites (TSSs) in several species. Strikingly, ~72% them could not be assigned to a specific gene and initiate at unconventional regions, outside promoters or enhancers. Here, we probe these unassigned TSSs show that, all species studied, significant fraction CAGE peaks microsatellites, also called short tandem repeats (STRs). To confirm this transcription,...
Abstract Non-biting midges (Chironomidae) are known to inhabit a wide range of environments, and certain species can tolerate extreme conditions, where the rest insects cannot survive. In particular, sleeping chironomid Polypedilum vanderplanki is for remarkable ability its larvae withstand almost complete desiccation by entering state called anhydrobiosis. Chromosome numbers in chironomids higher than other dipterans this extra genomic resource might facilitate rapid adaptation novel...
Abstract The larvae of the African midge, Polypedilum vanderplanki , can enter an ametabolic state called anhydrobiosis to overcome fatal desiccation stress. Pv11 cell line, derived from P. embryo, shows tolerance when treated with trehalose before and resumes proliferation after rehydration. However, molecular mechanisms this remain unknown. Here, we performed high-throughput CAGE-seq mRNA a differentially expressed gene analysis in trehalose-treated, desiccated, rehydrated cells, followed...
In this work, we describe a complete mitochondrial genome of chironomid Polypedilum vanderplanki. spite unique ecology species, the larvae are able to survive years desiccation; circular keeps basic structure and consists 13 protein-coding genes, 2 rRNA, 22 tRNA has total length 16 060 bp. Low GC level, small regulatory region, unusually high number non-coding spacers main determined features.
We showed previously that inhibition of KIT signaling in GISTs activates FGFR-signaling pathway rendering cancer cells resistant to receptor tyrosine kinase inhibitor (RTKi) imatinib mesylate (IM) (Gleevec) despite absence secondary mutations and thereby illustrating a rationale for the combined (e.g., KIT- FGFR-targeted) therapies. show here long-term culture IM-resistant (GIST-R1) with IM substantially down-regulates expression induces activation cascade, evidenced by increased total...
Abstract In the genomic era, data dissemination and visualization is an integral part of scientific publications research projects involving international consortia producing massive genome-wide sets, intra-organizational collaborations, or individual labs. However, creating custom supporting websites oftentimes impractical due to required programming effort, web server infrastructure, storage facilities, as well long-term maintenance burden. ZENBU-Reports...
Abstract Larvae of the sleeping chironomid Polypedilum vanderplanki are known for their extraordinary ability to survive complete desiccation in an ametabolic state called “anhydrobiosis”. The unique feature P. genome is presence expanded gene clusters associated with anhydrobiosis. While several such represent orthologues genes, there a distinct set genes . These include Lea-Island-Located (LIL) no except two LEA , PvLea1 and PvLea3 However, PvLIL proteins lack typical features as intrinsic...
Abstract In birds, sex is genetically determined; however, the molecular mechanism not well-understood. The avian Z chromosome (chrZ) lacks whole inactivation, in contrast to mammalian chrX. To investigate chrZ dosage compensation and its role specification, we use a highly quantitative method analyze transcriptional activities of male female fibroblast cells from seven bird species. Our data indicate that three fourths genes are strictly compensated across Aves, similar We also present...
The development of craniofacial skeletal structures is fascinatingly complex and elucidation the underlying mechanisms will not only provide novel scientific insights, but also help develop more effective clinical approaches to treatment and/or prevention numerous congenital malformations. To this end, we performed a genome-wide analysis RNA transcription from non-coding regulatory elements by CAGE-sequencing facial mesenchyme human embryos cross-checked active enhancers thus identified...
Cardiovascular system develops from the lateral plate mesoderm. Its three primary cell lineages (hematopoietic, endothelial, and muscular) are specified by sequential actions of conserved transcriptional factors. ETV2 , a master regulator mammalian hemangioblast development, however, is absent in chicken genome acts downstream NPAS4L zebrafish. Here, we investigated epistatic relationship between avian development. We showed that deleted all 363 genomes analyzed. Mouse induced LMO2, but not...
Abstract Current scRNA-seq studies of solid tissues mostly rely on enzymatic dissociation fresh samples or the fallback nuclei isolation from frozen partially fixed samples. However, due to complex tissue organization cell fragility, it could be challenging apply these approaches sensitive endocrine tissues. That is, dissociating intact cells such problematic fresh-frozen routinely collected by biobanks remains challenging. In this study, we adapted acetic-methanol method – ACME High Salt...
The Pv11, an insect cell line established from the midge
Abstract Pv11 is an insect cell line established from the midge Polypedilum vanderplanki , whose larval form exhibits extreme desiccation tolerance known as anhydrobiosis. itself also capable of anhydrobiosis, which induced by trehalose treatment. Here we report successful construction a genome editing system for cells and its application to identification signaling pathways involved in Using Cas9-mediated gene knock-in system, that stably expressed GCaMP3 monitor intracellular Ca 2+...
Genomic safe harbors (GSHs) provide ideal integration sites for generating transgenic organisms and cells can be of great benefit in advancing the basic applied biology a particular species. Here we report identification GSHs dry-preservable insect cell line, Pv11, which derives from sleeping chironomid, Polypedilum vanderplanki, similar to larvae its progenitor species exhibits extreme desiccation tolerance. To identify GSHs, carried out genome analysis lines established by random exogenous...
Abstract The sleeping chironomid Polypedilum vanderplanki is capable of anhydrobiosis, a striking example adaptation to extreme desiccation. Tolerance complete desiccation in this species associated with emergence multiple paralogs protective genes. One the gene families highly expressed under anhydrobiosis and involved process protein-L-isoaspartate (D-aspartate) O-methyltransferases (PIMTs). Recently, another closely related midge was discovered, pembai, which able not only tolerate but...