Search Results - "Toyoda, Atsushi"

Social defeat models in animal science: What we have learned from rodent models by Toyoda, Atsushi

“…Studies on stress and its impacts on animals are very important in many fields of science, including animal science, because various stresses influence animal…”
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Protein lactylation induced by neural excitation by Hagihara, Hideo, Shoji, Hirotaka, Otabi, Hikari, Toyoda, Atsushi, Katoh, Kaoru, Namihira, Masakazu, Miyakawa, Tsuyoshi

“…Lactate has diverse roles in the brain at the molecular and behavioral levels under physiological and pathophysiological conditions. This study investigates…”
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Nutritional interventions for promoting stress resilience: Recent progress using psychosocial stress models of rodents by Toyoda, Atsushi

“…Prevention of stress‐induced adverse effects is important for animals and humans to maintain their quality of life (QOL). Stress decreases the productivity of…”
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Efficient de novo assembly of highly heterozygous genomes from whole-genome shotgun short reads by Kajitani, Rei, Toshimoto, Kouta, Noguchi, Hideki, Toyoda, Atsushi, Ogura, Yoshitoshi, Okuno, Miki, Yabana, Mitsuru, Harada, Masayuki, Nagayasu, Eiji, Maruyama, Haruhiko, Kohara, Yuji, Fujiyama, Asao, Hayashi, Tetsuya, Itoh, Takehiko

“…Although many de novo genome assembly projects have recently been conducted using high-throughput sequencers, assembling highly heterozygous diploid genomes is…”
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Platanus-allee is a de novo haplotype assembler enabling a comprehensive access to divergent heterozygous regions by Kajitani, Rei, Yoshimura, Dai, Okuno, Miki, Minakuchi, Yohei, Kagoshima, Hiroshi, Fujiyama, Asao, Kubokawa, Kaoru, Kohara, Yuji, Toyoda, Atsushi, Itoh, Takehiko

“…The ultimate goal for diploid genome determination is to completely decode homologous chromosomes independently, and several phasing programs from consensus…”
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Single-cell RNA-seq analysis reveals penaeid shrimp hemocyte subpopulations and cell differentiation process by Koiwai, Keiichiro, Koyama, Takashi, Tsuda, Soichiro, Toyoda, Atsushi, Kikuchi, Kiyoshi, Suzuki, Hiroaki, Kawano, Ryuji

“…Crustacean aquaculture is expected to be a major source of fishery commodities in the near future. Hemocytes are key players of the immune system in shrimps;…”
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Chromosome-level genome assembly of Ophiorrhiza pumila reveals the evolution of camptothecin biosynthesis by Rai, Amit, Hirakawa, Hideki, Nakabayashi, Ryo, Kikuchi, Shinji, Hayashi, Koki, Rai, Megha, Tsugawa, Hiroshi, Nakaya, Taiki, Mori, Tetsuya, Nagasaki, Hideki, Fukushi, Runa, Kusuya, Yoko, Takahashi, Hiroki, Uchiyama, Hiroshi, Toyoda, Atsushi, Hikosaka, Shoko, Goto, Eiji, Saito, Kazuki, Yamazaki, Mami

“…Plant genomes remain highly fragmented and are often characterized by hundreds to thousands of assembly gaps. Here, we report chromosome-level reference and…”
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Metagenomic and metabolomic analyses reveal distinct stage-specific phenotypes of the gut microbiota in colorectal cancer by Yachida, Shinichi, Mizutani, Sayaka, Shiroma, Hirotsugu, Shiba, Satoshi, Nakajima, Takeshi, Sakamoto, Taku, Watanabe, Hikaru, Masuda, Keigo, Nishimoto, Yuichiro, Kubo, Masaru, Hosoda, Fumie, Rokutan, Hirofumi, Matsumoto, Minori, Takamaru, Hiroyuki, Yamada, Masayoshi, Matsuda, Takahisa, Iwasaki, Motoki, Yamaji, Taiki, Yachida, Tatsuo, Soga, Tomoyoshi, Kurokawa, Ken, Toyoda, Atsushi, Ogura, Yoshitoshi, Hayashi, Tetsuya, Hatakeyama, Masanori, Nakagama, Hitoshi, Saito, Yutaka, Fukuda, Shinji, Shibata, Tatsuhiro, Yamada, Takuji

“…In most cases of sporadic colorectal cancers, tumorigenesis is a multistep process, involving genomic alterations in parallel with morphologic changes. In…”
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A key metabolic gene for recurrent freshwater colonization and radiation in fishes by Ishikawa, Asano, Kabeya, Naoki, Ikeya, Koki, Kakioka, Ryo, Cech, Jennifer N, Osada, Naoki, Leal, Miguel C, Inoue, Jun, Kume, Manabu, Toyoda, Atsushi, Tezuka, Ayumi, Nagano, Atsushi J, Yamasaki, Yo Y, Suzuki, Yuto, Kokita, Tomoyuki, Takahashi, Hiroshi, Lucek, Kay, Marques, David, Takehana, Yusuke, Naruse, Kiyoshi, Mori, Seiichi, Monroig, Oscar, Ladd, Nemiah, Schubert, Carsten J, Matthews, Blake, Peichel, Catherine L, Seehausen, Ole, Yoshizaki, Goro, Kitano, Jun

“…Colonization of new ecological niches has triggered large adaptive radiations. Although some lineages have made use of such opportunities, not all do so. The…”
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The genomic landscape at a late stage of stickleback speciation: High genomic divergence interspersed by small localized regions of introgression by Ravinet, Mark, Yoshida, Kohta, Shigenobu, Shuji, Toyoda, Atsushi, Fujiyama, Asao, Kitano, Jun

“…Speciation is a continuous process and analysis of species pairs at different stages of divergence provides insight into how it unfolds. Previous genomic…”
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Heat-killed Lactobacillus helveticus strain MCC1848 confers resilience to anxiety or depression-like symptoms caused by subchronic social defeat stress in mice by Maehata, Hazuki, Kobayashi, Yodai, Mitsuyama, Eri, Kawase, Takahiro, Kuhara, Tetsuya, Xiao, Jin-Zhong, Tsukahara, Takamitsu, Toyoda, Atsushi

“…The gut microbiota is involved in the pathogenesis of stress-related disorders. Probiotics can benefit the central nervous system via the microbiota-gut-brain…”
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An acid-tolerant ammonia-oxidizing γ-proteobacterium from soil by Hayatsu, Masahito, Tago, Kanako, Uchiyama, Ikuo, Toyoda, Atsushi, Wang, Yong, Shimomura, Yumi, Okubo, Takashi, Kurisu, Futoshi, Hirono, Yuhei, Nonaka, Kunihiko, Akiyama, Hiroko, Itoh, Takehiko, Takami, Hideto

“…Nitrification, the microbial oxidation of ammonia to nitrate via nitrite, occurs in a wide range of acidic soils. However, the ammonia-oxidizing bacteria (AOB)…”
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High-quality genome assembly of the silkworm, Bombyx mori by Kawamoto, Munetaka, Jouraku, Akiya, Toyoda, Atsushi, Yokoi, Kakeru, Minakuchi, Yohei, Katsuma, Susumu, Fujiyama, Asao, Kiuchi, Takashi, Yamamoto, Kimiko, Shimada, Toru

“…In 2008, the genome assembly and gene models for the domestic silkworm, Bombyx mori, were published by a Japanese and Chinese collaboration group. However, the…”
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Genome evolution in the allotetraploid frog Xenopus laevis by Session, Adam M., Uno, Yoshinobu, Kwon, Taejoon, Chapman, Jarrod A., Toyoda, Atsushi, Takahashi, Shuji, Fukui, Akimasa, Hikosaka, Akira, Suzuki, Atsushi, Kondo, Mariko, van Heeringen, Simon J., Quigley, Ian, Heinz, Sven, Ogino, Hajime, Ochi, Haruki, Hellsten, Uffe, Lyons, Jessica B., Simakov, Oleg, Putnam, Nicholas, Stites, Jonathan, Kuroki, Yoko, Tanaka, Toshiaki, Michiue, Tatsuo, Watanabe, Minoru, Bogdanovic, Ozren, Lister, Ryan, Georgiou, Georgios, Paranjpe, Sarita S., van Kruijsbergen, Ila, Shu, Shengquiang, Carlson, Joseph, Kinoshita, Tsutomu, Ohta, Yuko, Mawaribuchi, Shuuji, Jenkins, Jerry, Grimwood, Jane, Schmutz, Jeremy, Mitros, Therese, Mozaffari, Sahar V., Suzuki, Yutaka, Haramoto, Yoshikazu, Yamamoto, Takamasa S., Takagi, Chiyo, Heald, Rebecca, Miller, Kelly, Haudenschild, Christian, Kitzman, Jacob, Nakayama, Takuya, Izutsu, Yumi, Robert, Jacques, Fortriede, Joshua, Burns, Kevin, Lotay, Vaneet, Karimi, Kamran, Yasuoka, Yuuri, Dichmann, Darwin S., Flajnik, Martin F., Houston, Douglas W., Shendure, Jay, DuPasquier, Louis, Vize, Peter D., Zorn, Aaron M., Ito, Michihiko, Marcotte, Edward M., Wallingford, John B., Ito, Yuzuru, Asashima, Makoto, Ueno, Naoto, Matsuda, Yoichi, Veenstra, Gert Jan C., Fujiyama, Asao, Harland, Richard M., Taira, Masanori, Rokhsar, Daniel S.

“…To explore the origins and consequences of tetraploidy in the African clawed frog, we sequenced the Xenopus laevis genome and compared it to the related…”
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The Chara Genome: Secondary Complexity and Implications for Plant Terrestrialization by Nishiyama, Tomoaki, Sakayama, Hidetoshi, de Vries, Jan, Buschmann, Henrik, Saint-Marcoux, Denis, Ullrich, Kristian K., Haas, Fabian B., Vanderstraeten, Lisa, Becker, Dirk, Lang, Daniel, Vosolsobě, Stanislav, Rombauts, Stephane, Wilhelmsson, Per K.I., Janitza, Philipp, Kern, Ramona, Heyl, Alexander, Rümpler, Florian, Villalobos, Luz Irina A. Calderón, Clay, John M., Skokan, Roman, Toyoda, Atsushi, Suzuki, Yutaka, Kagoshima, Hiroshi, Schijlen, Elio, Tajeshwar, Navindra, Catarino, Bruno, Hetherington, Alexander J., Saltykova, Assia, Bonnot, Clemence, Breuninger, Holger, Symeonidi, Aikaterini, Radhakrishnan, Guru V., Van Nieuwerburgh, Filip, Deforce, Dieter, Chang, Caren, Karol, Kenneth G., Hedrich, Rainer, Ulvskov, Peter, Glöckner, Gernot, Delwiche, Charles F., Petrášek, Jan, Van de Peer, Yves, Friml, Jiri, Beilby, Mary, Dolan, Liam, Kohara, Yuji, Sugano, Sumio, Fujiyama, Asao, Delaux, Pierre-Marc, Quint, Marcel, Theißen, Günter, Hagemann, Martin, Harholt, Jesper, Dunand, Christophe, Zachgo, Sabine, Langdale, Jane, Maumus, Florian, Van Der Straeten, Dominique, Gould, Sven B., Rensing, Stefan A.

“…Land plants evolved from charophytic algae, among which Charophyceae possess the most complex body plans. We present the genome of Chara braunii; comparison of…”
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Genome sequence and analysis of the Japanese morning glory Ipomoea nil by Hoshino, Atsushi, Jayakumar, Vasanthan, Nitasaka, Eiji, Toyoda, Atsushi, Noguchi, Hideki, Itoh, Takehiko, Shin-I, Tadasu, Minakuchi, Yohei, Koda, Yuki, Nagano, Atsushi J., Yasugi, Masaki, Honjo, Mie N., Kudoh, Hiroshi, Seki, Motoaki, Kamiya, Asako, Shiraki, Toshiyuki, Carninci, Piero, Asamizu, Erika, Nishide, Hiroyo, Tanaka, Sachiko, Park, Kyeung-Il, Morita, Yasumasa, Yokoyama, Kohei, Uchiyama, Ikuo, Tanaka, Yoshikazu, Tabata, Satoshi, Shinozaki, Kazuo, Hayashizaki, Yoshihide, Kohara, Yuji, Suzuki, Yutaka, Sugano, Sumio, Fujiyama, Asao, Iida, Shigeru, Sakakibara, Yasubumi

“…Ipomoea is the largest genus in the family Convolvulaceae. Ipomoea nil (Japanese morning glory) has been utilized as a model plant to study the genetic basis…”
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High Boron-induced Ubiquitination Regulates Vacuolar Sorting of the BOR1 Borate Transporter in Arabidopsis thaliana by Kasai, Koji, Takano, Junpei, Miwa, Kyoko, Toyoda, Atsushi, Fujiwara, Toru

“…Boron homeostasis is important for plants, as boron is essential but is toxic in excess. Under high boron conditions, the Arabidopsis thaliana borate…”
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FIGNL1 AAA+ ATPase remodels RAD51 and DMC1 filaments in pre-meiotic DNA replication and meiotic recombination by Ito, Masaru, Furukohri, Asako, Matsuzaki, Kenichiro, Fujita, Yurika, Toyoda, Atsushi, Shinohara, Akira

“…The formation of RAD51/DMC1 filaments on single-stranded (ss)DNAs essential for homology search and strand exchange in DNA double-strand break (DSB) repair is…”
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The RNA helicase DDX6 controls early mouse embryogenesis by repressing aberrant inhibition of BMP signaling through miRNA-mediated gene silencing by Kim, Jessica, Muraoka, Masafumi, Okada, Hajime, Toyoda, Atsushi, Ajima, Rieko, Saga, Yumiko

“…The evolutionarily conserved RNA helicase DDX6 is a central player in post-transcriptional regulation, but its role during embryogenesis remains elusive. We…”
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Mitochondrial gene defects in Arabidopsis can broadly affect mitochondrial gene expression through copy number by Ayabe, Hiroki, Toyoda, Atsushi, Iwamoto, Akitoshi, Tsutsumi, Nobuhiro, Arimura, Shin-ichi

“…Abstract How mitochondria regulate the expression of their genes is poorly understood, partly because methods have not been developed for stably transforming…”
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