A5017881648- Chromosomal and Genetic Variations
- Plant Pathogens and Resistance
- Plant Disease Resistance and Genetics
- Plant Molecular Biology Research
- Silicon Effects in Agriculture
- Biotechnology and Related Fields
- Algorithms and Data Compression
- Genomics and Phylogenetic Studies
- Plant nutrient uptake and metabolism
- RNA and protein synthesis mechanisms
- Peatlands and Wetlands Ecology
- Constructed Wetlands for Wastewater Treatment
- Plant Parasitism and Resistance
- Bacillus and Francisella bacterial research
- Cellular Automata and Applications
- Legume Nitrogen Fixing Symbiosis
- Computability, Logic, AI Algorithms
- Genomics and Chromatin Dynamics
- Biosimilars and Bioanalytical Methods
- Coastal wetland ecosystem dynamics
Kihara Institute for Biological Research
2021-2024
Yokohama City University
2021-2024
National Institute of Genetics
2017-2023
The Graduate University for Advanced Studies, SOKENDAI
2017
Genomics-based safety and quality evaluation studies are advancing the bioindustry by enhancing various aspects, including viral safety, host cell protein (HCP) control, product heterogeneity cellular process reproducibility. High-throughput instruments genome-scale databases essential in genomics, with reference genome sequence being most critical database. The completeness accuracy of these sequences depend on DNA quality, sequencing instruments, read coverage, assembly strategies....
Abstract Potato and its wild relatives are distributed mainly in the Mexican highlands central Andes of South America. The American A-genome species, including cultivated potatoes, reproductively isolated from diploid species. Whole-genome sequencing has disclosed genome structure similarity, mostly potatoes their closely related In this study, we generated a chromosome-scale assembly Solanum bulbocastanum Dun., using PacBio long-read sequencing, optical mapping, Hi-C scaffolding...
The arms race between parasitic sequences and their hosts is a major driving force for evolution of gene control systems. Since transposable elements (TEs) are potentially deleterious, eukaryotes silence them by epigenetic mechanisms such as DNA methylation. Little known about how TEs counteract silencing to propagate during evolution. Here, we report behavior sequence-specific anti-silencing proteins used Arabidopsis those target sequences. We show that VANC, TE-encoded protein, induces...
Duckweeds (Araceae: Lemnoideae) are aquatic monocotyledonous plants that characterized by their small size, rapid growth, and wide distribution. Developmental processes regulating the formation of leaf-like structures, called fronds, tiny flowers not well characterized. In many plant species, flowering is promoted florigen activation complex, whose major components FLOWERING LOCUS T (FT) protein transcription factor FD protein. How this complex regulated at molecular level during duckweed...
Abstract Transposable elements (TEs) are among the most dynamic parts of genomes. Since TEs potentially deleterious, eukaryotes silence them through epigenetic mechanisms such as repressive histone modifications and DNA methylation. We previously reported that Arabidopsis TEs, called VANDAL s, counteract silencing a group sequence‐specific anti‐silencing proteins, VANCs. VANC proteins bind to noncoding regions specific copies induce loss silent chromatin marks. The VANC‐target form tandem...
There are over 100 known species of cultivated potatoes and their wild relatives. Many these species, including potatoes, share the A genome; mainly distributed in South America reproductively isolated from Mexican diploid species. The only A-genome Mexico is Solanum verrucosum Schlechtendal, which also a maternal progenitor polyploid In this study, we constructed high-quality de novo assembly S. genome using PacBio long-read sequencing Hi-C scaffolding technologies. monohaploid clone (2n =...
SUMMARY Mexican wild diploid potato species are reproductively isolated from A‐genome species, including cultivated potatoes; thus, their genomic relationships remain unknown. Solanum stoloniferum Schlechtd. et Bché. (2 n = 4 x 48, AABB) is a allotetraploid frequently used in breeding. We constructed chromosome‐scale assembly of the S. genome using PacBio long‐read sequencing and Hi‐C scaffolding technologies. The final consisted 1742 Mb, among which 745 Mb 713 were anchored to 12 B‐genome...
Abstract Transposable Elements (TEs) are major components of the genome. To understand their function and evolution, it is necessary to identify active TEs from a diverse range organisms. Here, I report genome Nishikigoi, an ornamental fish derived Common carp, novel approach detecting TE candidates. constructed chromosome-scale assembly using long-read sequencing Hi-C methods. It revealed that Nishikigoi has Robertsonian-like chromosomal translocations not seen in carp. also found...
Many studies used the Shannon entropy of transcriptome data to determine cell dedifferentiation and differentiation. The collection evidence has strengthened certainty that transcriptome's may be quantify cellular Quantifying this status is being justified, we propose term "liberality" for quantitative value In previous studies, must convert raw into through mapping, tag counting, assembling, more bioinformatic processing calculate liberality. If could remove conversion step from estimating...