A5025164609- Genetic Mapping and Diversity in Plants and Animals
- Advanced Optimization Algorithms Research
- Rice Cultivation and Yield Improvement
- Plant Disease Resistance and Genetics
- GABA and Rice Research
- Matrix Theory and Algorithms
- Iterative Methods for Nonlinear Equations
- Sparse and Compressive Sensing Techniques
- Plant Pathogenic Bacteria Studies
- Model Reduction and Neural Networks
- Single-cell and spatial transcriptomics
- Numerical methods in inverse problems
- Biofuel production and bioconversion
- Plant-Microbe Interactions and Immunity
- Cancer-related molecular mechanisms research
- Stochastic Gradient Optimization Techniques
- Plant nutrient uptake and metabolism
- Recommender Systems and Techniques
- Control Systems and Identification
- Food composition and properties
- Advanced Numerical Analysis Techniques
- Optimization and Variational Analysis
- Semantic Web and Ontologies
- Rangeland Management and Livestock Ecology
- Turtle Biology and Conservation
The University of Tokyo
2005-2024
National Institute of Informatics
2024
National Sagamihara Hospital
2024
Kyoto University
2013-2023
National Agriculture and Food Research Organization
2012-2023
Institute of Crop Science
2008-2023
Ministry of Agriculture Forestry and Fisheries
2008-2021
University of Miyazaki
2005-2021
Kyushu Okinawa Agricultural Research Center
2007-2018
Tokyo University of Science
2005-2017
While performing a nationwide survey of hepatitis E virus (HEV) infection among 450 wild boars (Sus scrofa leucomystax) that had been captured in Japan between November 2005 and March 2010, we found 16 (3.6%) with ongoing HEV infection: 11 genotype 3 HEV, four 4 the remaining boar was infected an unrecognized (designated wbJOY_06). The entire wbJOY_06 genome sequenced to comprise 7246 nt excluding poly(A) tail. isolate highly divergent from known 1-4 isolates derived humans, swine, boars,...
Abstract Background Principal component analysis (PCA) is an essential method for analyzing single-cell RNA-seq (scRNA-seq) datasets, but large-scale scRNA-seq computation time long and consumes large amounts of memory. Results In this work, we review the existing fast memory-efficient PCA algorithms implementations evaluate their practical application to datasets. Our benchmark shows that some based on Krylov subspace randomized singular value decomposition are fast, memory-efficient, more...
This paper proposes a novel general framework of Riemannian conjugate gradient methods, that is, methods on manifolds. The are important first-order optimization algorithms both in Euclidean spaces and While various types studied spaces, there have been fewer studies those In each iteration the previous search direction must be transported to current tangent space so it can added negative objective function at point. There several approaches transport vector another space. Therefore, more...
In this paper, we characterized the Wx-mq gene for low amylose content in a rice variety, Milky Queen, at molecular level. The was cloned by RT-PCR, and nearly full-length cDNA sequence of determined. Sequence comparison between wild type allele (Wx-b), from cv. Koshihikari, revealed that two base changes existed within coding region; G to A change nucleotide position 497 T C 595. Each substitution should generate missense (an Arg-158 His-158 exon4, Tyr-191 His-191 exon5). However, it is not...
This article deals with the conjugate gradient method on a Riemannian manifold interest in global convergence analysis. The existing algorithms endowed vector transport need assumption that does not increase norm of tangent vectors, order to confirm generated sequences have property. In this article, notion scaled is introduced improve algorithm so may property under relaxed assumption. proposed algorithm, transported rescaled case its has increased during transport. theoretically proved and...
Sheath blight, caused by Rhizoctonia solani, is one of the most serious diseases rice. Among 33 rice accessions, mainly from National Institute Agrobiological Sciences (NIAS) Core Collection, we found three landraces Himalayas-Jarjan, Nepal 555 and 8-with resistance to sheath blight in 3 years' field testing. Backcrossed inbred lines (BILs) derived a cross between Jarjan leading Japanese cultivar Koshihikari were used QTL analyses. Since later-heading show fewer lesions, only earlier-heading...
In recent years, stochastic variance reduction algorithms have attracted considerable attention for minimizing the average of a large but finite number loss functions. This paper proposes novel Riemannian extension Euclidean reduced gradient (R-SVRG) algorithm to manifold search space. The key challenges averaging, adding, and subtracting multiple gradients are addressed with retraction vector transport. For proposed algorithm, we present global convergence analysis decaying step size as...
The rice line WSS2 which was derived from the Vietnamese indica variety Tetep, displays a high partial resistance to sheath blight. Quantitative trait locus (QTL) analysis of using simple sequence repeat (SSR) and sequence-tagged site (STS) markers conducted in BC1F1 population cross Hinohikari/WSS2//Hinohikari. Sheath blight this its cross-parents studied syringe inoculation. Two QTLs for (qSB-3 qSB-12) were identified on chromosomes 3 12. Their alleles resistant parent WSS2. These totally...
To identify the chromosomal regions controlling eating quality of cooked rice, we performed a quantitative trait locus (QTL) analysis using 93 backcross inbred lines (BILs) and 39 chromosome segment substitution (CSSLs) derived from crosses between japonica rice cultivar Koshihikari (glossier appearance, tasty, sticky soft when cooked) an indica Kasalath (less glossy less hard cooked). We evaluated including overall evaluation (OE), glossiness (GL), taste (TA), stickiness (ST) hardness (HA)...
To identify the chromosomal regions controlling eating quality of Koshihikari rice, we performed a quantitative trait locus (QTL) analysis using two backcross inbred lines (BILs): N-BILs (79 derived from cross Nipponbare/Koshihikari//Nipponbare) and K-BILs (89 Nipponbare/Koshihikari//Koshihikari). We evaluated several components cooked namely glossiness, taste, stickiness, hardness, overall evaluation, based on sensory tests by trained panel, amylose protein contents. Ten QTLs for these were...
Abstract We formulate and solve a discrete‐time path‐optimization problem where single searcher, operating in discretized three‐dimensional airspace, looks for moving target finite set of cells. The searcher is constrained by maximum limits on the consumption one or more resources such as time, fuel, risk along any path. develop specialized branch‐and‐bound algorithm this that uses several network reduction procedures well new bounding technique based Lagrangian relaxation expansion....
The problem of the singular value decomposition a matrix can be brought into an optimization on product two Stiefel manifolds different sizes. steepest descent, conjugate gradient, and Newton's methods for are developed applied with several numerical experiments. These algorithms do not need preconditioning that is inevitable in usual algorithm. present method serve to make more accurate obtained by other existing algorithms. In addition, degenerate optimal solutions studied, together...
Reduction in rice yield caused by high temperature-induced spikelet sterility has been a serious concern production. To date, several screening methods have used, although their reproducibility is sometimes poor due to artifacts mainly varietal differences heading dates and panicle heights (i.e., the distance from lamps). We developed novel assay system for heat-induced using artificial paddies phytotrons conduct highly reproducible throughout year. Plants restricted main culm were treated...
JAXA Virtual Planet (VP) system, developed by Lunar and Planetary Exploration Data Analysis Group (JLPEDA), is an innovative Web-GIS platform based on ESRI’s ArcGIS suite. Started in 2020, VP serves as the successor to Kaguya Integrated System (KADIAS), enhancing visualization analysis capabilities of lunar data. Unlike KADIAS, which was limited 2D visualizations, supports global 3D spherical with topography, well views polar mid-latitude regions. One VP’s standout...
Control of the amylose content is a major strategy for breeding rice with improved eating quality. To identify low-amylose gene cultivar Oborozuki, quantitative trait loci (QTL) and sequence analyses were conducted on 90 progeny obtained by crossing two japonica cultivars Hokka287 (a donor parent Oborozuki) Hokkai-PL9. One QTL low was detected WX1 locus short arm chromosome 6. This designated Wx1-1 Hokkai287 allele, novel allelic 37-bp deletion in intron 10. Homozygote genotype decreased...