Hiroyo Nishide
YOU?
Author Swipe
View article: The inbred newt genome unveils molecular mechanisms of behavior, development, and regeneration in urodele amphibians
The inbred newt genome unveils molecular mechanisms of behavior, development, and regeneration in urodele amphibians Open
Salamanders provide excellent models for studying vertebrate evolution, development, and regeneration. To further advance the newt as a model organism in biology, we conducted draft genome sequencing of 20 Gb of an inbred newt (Pleurodeles…
View article: MBGD: Microbial Genome Database for Comparative Analysis Featuring Enhanced Functionality to Characterize Gene and Genome Functions Through Large-scale Orthology Analysis
MBGD: Microbial Genome Database for Comparative Analysis Featuring Enhanced Functionality to Characterize Gene and Genome Functions Through Large-scale Orthology Analysis Open
Microbial Genome Database for Comparative Analysis (MBGD) is a comprehensive ortholog database encompassing published complete microbial genomes. The ortholog tables in MBGD are constructed in a hierarchical manner. The top-level ortholog …
View article: Transcriptomic dynamics of petal development in the one-day flower species, Japanese morning glory (<i>Ipomoea nil</i>)
Transcriptomic dynamics of petal development in the one-day flower species, Japanese morning glory (<i>Ipomoea nil</i>) Open
SUMMARY Various aspects of Japanese morning glory (Ipomoea nil ) petals, such as color, pattern, shape, flower opening time, and senescence, have been extensively studied. To facilitate such studies, transcriptome data were collected from …
View article: Characterization of the far-red light absorbing light-harvesting chlorophyll a/b binding complex, a derivative of the distinctive Lhca gene family in green algae
Characterization of the far-red light absorbing light-harvesting chlorophyll a/b binding complex, a derivative of the distinctive Lhca gene family in green algae Open
Prasiola crispa , an aerial green alga, exhibits remarkable adaptability to the extreme conditions of Antarctica by forming layered colonies capable of utilizing far-red light for photosynthesis. Despite a recent report on the structure of…
View article: Molecular phylogeny of fucoxanthin-chlorophyll <i>a/c</i> proteins from <i>Chaetoceros gracilis</i> and Lhcq/Lhcf diversity
Molecular phylogeny of fucoxanthin-chlorophyll <i>a/c</i> proteins from <i>Chaetoceros gracilis</i> and Lhcq/Lhcf diversity Open
Diatoms adapt to various aquatic light environments and play major roles in the global carbon cycle using their unique light-harvesting system, i.e., fucoxanthin chlorophyll a / c binding proteins (FCPs). Structural analyses of photosystem…
View article: A simple and practical workflow for genotyping of CRISPR–Cas9‐based knockout phenotypes using multiplexed amplicon sequencing
A simple and practical workflow for genotyping of CRISPR–Cas9‐based knockout phenotypes using multiplexed amplicon sequencing Open
Founder animals carrying high proportions of somatic mutation induced by CRISPR–Cas9 enable a rapid and scalable strategy for the functional screening of numerous target genes in vivo. In this functional screening, genotyping using pooled …
View article: BioHackathon 2015: Semantics of data for life sciences and reproducible research
BioHackathon 2015: Semantics of data for life sciences and reproducible research Open
We report on the activities of the 2015 edition of the BioHackathon, an annual event that brings together researchers and developers from around the world to develop tools and technologies that promote the reusability of biological data. W…
View article: BioHackathon series in 2013 and 2014: improvements of semantic interoperability in life science data and services
BioHackathon series in 2013 and 2014: improvements of semantic interoperability in life science data and services Open
Publishing databases in the Resource Description Framework (RDF) model is becoming widely accepted to maximize the syntactic and semantic interoperability of open data in life sciences. Here we report advancements made in the 6th and 7th a…
View article: RNA-Seq Analysis Reveals Genes Related to Photoreception, Nutrient Uptake, and Toxicity in a Noxious Red-Tide Raphidophyte Chattonella antiqua
RNA-Seq Analysis Reveals Genes Related to Photoreception, Nutrient Uptake, and Toxicity in a Noxious Red-Tide Raphidophyte Chattonella antiqua Open
Aquaculture industries are under threat from noxious red tides, but harm can be mitigated by precautions such as early harvesting and restricting fish feeding to just before the outbreak of a red tide. Therefore, accurate techniques for fo…
View article: MBGD update 2018: microbial genome database based on hierarchical orthology relations covering closely related and distantly related comparisons
MBGD update 2018: microbial genome database based on hierarchical orthology relations covering closely related and distantly related comparisons Open
The Microbial Genome Database for Comparative Analysis (MBGD) is a database for comparative genomics based on comprehensive orthology analysis of bacteria, archaea and unicellular eukaryotes. MBGD now contains 6318 genomes. To utilize the …
View article: Complete Genome Sequence of Aurantimicrobium minutum Type Strain KNC <sup>T</sup> , a Planktonic Ultramicrobacterium Isolated from River Water
Complete Genome Sequence of Aurantimicrobium minutum Type Strain KNC <sup>T</sup> , a Planktonic Ultramicrobacterium Isolated from River Water Open
Aurantimicrobium minutum type strain KNC T is a planktonic ultramicrobacterium isolated from river water in western Japan. Strain KNC T has an extremely small, streamlined genome of 1,622,386 bp comprising 1,575 protein-coding sequences. T…