Search Results - "Takehiko, Itoh"

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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GreenHill: a de novo chromosome-level scaffolding and phasing tool using Hi-C by Ouchi, Shun, Kajitani, Rei, Itoh, Takehiko

“…Chromosome-level haplotype-resolved genome assembly is an important resource in molecular biology. However, current de novo haplotype assemblers require…”
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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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Targeted base editing in the plastid genome of Arabidopsis thaliana by Nakazato, Issei, Okuno, Miki, Yamamoto, Hiroshi, Tamura, Yoshiko, Itoh, Takehiko, Shikanai, Toshiharu, Takanashi, Hideki, Tsutsumi, Nobuhiro, Arimura, Shin-ichi

“…Bacterial cytidine deaminase fused to the DNA binding domains of transcription activator-like effector nucleases was recently reported to transiently…”
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Evolutionary History of Sexual Differentiation Mechanism in Insects by Chikami, Yasuhiko, Okuno, Miki, Toyoda, Atsushi, Itoh, Takehiko, Niimi, Teruyuki

“…Abstract Alternative splicing underpins functional diversity in proteins and the complexity and diversity of eukaryotes. An example is the doublesex gene, the…”
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Targeted gene disruption of ATP synthases 6‐1 and 6‐2 in the mitochondrial genome of Arabidopsis thaliana by mitoTALENs by Arimura, Shin‐ichi, Ayabe, Hiroki, Sugaya, Hajime, Okuno, Miki, Tamura, Yoshiko, Tsuruta, Yu, Watari, Yuta, Yanase, Shungo, Yamauchi, Takaki, Itoh, Takehiko, Toyoda, Atsushi, Takanashi, Hideki, Tsutsumi, Nobuhiro

“…SUMMARY We recently achieved targeted disruptions of cytoplasmic male sterility (CMS)‐associated genes in the mitochondrial genomes of rice and rapeseed by…”
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Bioinformatic and fine-scale chromosomal mapping reveal the nature and evolution of eliminated chromosomes in the Japanese hagfish, Eptatretus burgeri, through analysis of repetitive DNA families by Nagao, Kohei, Tanaka, Yoshiki, Kajitani, Rei, Toyoda, Atsushi, Itoh, Takehiko, Kubota, Souichirou, Goto, Yuji

“…In the Japanese hagfish, Eptatretus burgeri , approximately 21% of the genomic DNA in germ cells (2n = 52) consists of 16 chromosomes (eliminated…”
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Characterization and development of a plastid genome base editor, ptpTALECD by Nakazato, Issei, Okuno, Miki, Itoh, Takehiko, Tsutsumi, Nobuhiro, Arimura, Shin‐ichi

“…SUMMARY The modification of photosynthesis‐related genes in plastid genomes may improve crop yields. Recently, we reported that a plastid‐targeting base editor…”
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Genomics and transcriptomics of the green mussel explain the durability of its byssus by Inoue, Koji, Yoshioka, Yuki, Tanaka, Hiroyuki, Kinjo, Azusa, Sassa, Mieko, Ueda, Ikuo, Shinzato, Chuya, Toyoda, Atsushi, Itoh, Takehiko

“…Mussels, which occupy important positions in marine ecosystems, attach tightly to underwater substrates using a proteinaceous holdfast known as the byssus,…”
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Comparison of the sequencing bias of currently available library preparation kits for Illumina sequencing of bacterial genomes and metagenomes by Sato, Mitsuhiko P, Ogura, Yoshitoshi, Nakamura, Keiji, Nishida, Ruriko, Gotoh, Yasuhiro, Hayashi, Masahiro, Hisatsune, Junzo, Sugai, Motoyuki, Takehiko, Itoh, Hayashi, Tetsuya

“…In bacterial genome and metagenome sequencing, Illumina sequencers are most frequently used due to their high throughput capacity, and multiple library…”
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Expression profiling of sexually dimorphic genes in the Japanese quail, Coturnix japonica by Okuno, Miki, Miyamoto, Shuntaro, Itoh, Takehiko, Seki, Masahide, Suzuki, Yutaka, Mizushima, Shusei, Kuroiwa, Asato

“…Research on avian sex determination has focused on the chicken. In this study, we established the utility of another widely used animal model, the Japanese…”
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The genomic basis of parasitism in the Strongyloides clade of nematodes by Hunt, Vicky L, Tsai, Isheng J, Coghlan, Avril, Reid, Adam J, Holroyd, Nancy, Foth, Bernardo J, Tracey, Alan, Cotton, James A, Stanley, Eleanor J, Beasley, Helen, Bennett, Hayley M, Brooks, Karen, Harsha, Bhavana, Kajitani, Rei, Kulkarni, Arpita, Harbecke, Dorothee, Nagayasu, Eiji, Nichol, Sarah, Ogura, Yoshitoshi, Quail, Michael A, Randle, Nadine, Xia, Dong, Brattig, Norbert W, Soblik, Hanns, Ribeiro, Diogo M, Sanchez-Flores, Alejandro, Hayashi, Tetsuya, Itoh, Takehiko, Denver, Dee R, Grant, Warwick, Stoltzfus, Jonathan D, Lok, James B, Murayama, Haruhiko, Wastling, Jonathan, Streit, Adrian, Kikuchi, Taisei, Viney, Mark, Berriman, Matthew

“…Taisei Kikuchi, Mark Viney, Matthew Berriman and colleagues report the genome sequences of six species of nematodes from the Strongyloides clade of nematodes,…”
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A genetic mechanism for female-limited Batesian mimicry in Papilio butterfly by Nishikawa, Hideki, Iijima, Takuro, Kajitani, Rei, Yamaguchi, Junichi, Ando, Toshiya, Suzuki, Yutaka, Sugano, Sumio, Fujiyama, Asao, Kosugi, Shunichi, Hirakawa, Hideki, Tabata, Satoshi, Ozaki, Katsuhisa, Morimoto, Hiroya, Ihara, Kunio, Obara, Madoka, Hori, Hiroshi, Itoh, Takehiko, Fujiwara, Haruhiko

“…Haruhiko Fujiwara and colleagues report the genome sequences of two swallowtail butterfly species, Papilio xuthus and Papilio polytes , and the identification…”
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Platanus_B: an accurate de novo assembler for bacterial genomes using an iterative error-removal process by Kajitani, Rei, Yoshimura, Dai, Ogura, Yoshitoshi, Gotoh, Yasuhiro, Hayashi, Tetsuya, Itoh, Takehiko

“…Abstract De novo assembly of short DNA reads remains an essential technology, especially for large-scale projects and high-resolution variant analyses in…”
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Cohesin mediates transcriptional insulation by CCCTC-binding factor by Shirahige, Katsuhiko, Peters, Jan-Michael, Wendt, Kerstin S, Yoshida, Keisuke, Itoh, Takehiko, Bando, Masashige, Koch, Birgit, Schirghuber, Erika, Tsutsumi, Shuichi, Nagae, Genta, Ishihara, Ko, Mishiro, Tsuyoshi, Yahata, Kazuhide, Imamoto, Fumio, Aburatani, Hiroyuki, Nakao, Mitsuyoshi, Imamoto, Naoko, Maeshima, Kazuhiro

“…Cohesin complexes mediate sister-chromatid cohesion in dividing cells but may also contribute to gene regulation in postmitotic cells. How cohesin regulates…”
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Curing cytoplasmic male sterility via TALEN-mediated mitochondrial genome editing by Kazama, Tomohiko, Okuno, Miki, Watari, Yuta, Yanase, Shungo, Koizuka, Chie, Tsuruta, Yu, Sugaya, Hajime, Toyoda, Atsushi, Itoh, Takehiko, Tsutsumi, Nobuhiro, Toriyama, Kinya, Koizuka, Nobuya, Arimura, Shin-ichi

“…Sequence-specific nucleases are commonly used to modify the nuclear genome of plants. However, targeted modification of the mitochondrial genome of land plants…”
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Next-generation sequencing analysis of lager brewing yeast strains reveals the evolutionary history of interspecies hybridization by Okuno, Miki, Kajitani, Rei, Ryusui, Rie, Morimoto, Hiroya, Kodama, Yukiko, Itoh, Takehiko

“…The lager beer yeast Saccharomyces pastorianus is considered an allopolyploid hybrid species between S. cerevisiae and S. eubayanus. Many S. pastorianus…”
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Repeated inversions within a pannier intron drive diversification of intraspecific colour patterns of ladybird beetles by Ando, Toshiya, Matsuda, Takeshi, Goto, Kumiko, Hara, Kimiko, Ito, Akinori, Hirata, Junya, Yatomi, Joichiro, Kajitani, Rei, Okuno, Miki, Yamaguchi, Katsushi, Kobayashi, Masaaki, Takano, Tomoyuki, Minakuchi, Yohei, Seki, Masahide, Suzuki, Yutaka, Yano, Kentaro, Itoh, Takehiko, Shigenobu, Shuji, Toyoda, Atsushi, Niimi, Teruyuki

“…How genetic information is modified to generate phenotypic variation within a species is one of the central questions in evolutionary biology. Here we focus on…”
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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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Parallel reductive genome evolution in Desulfovibrio ectosymbionts independently acquired by Trichonympha protists in the termite gut by Takeuchi, Mariko, Kuwahara, Hirokazu, Murakami, Takumi, Takahashi, Kazuki, Kajitani, Rei, Toyoda, Atsushi, Itoh, Takehiko, Ohkuma, Moriya, Hongoh, Yuichi

“…Several Trichonympha protist species in the termite gut have independently acquired Desulfovibrio ectosymbionts in apparently different stages of symbiosis…”
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