メンバー

Publications

• Kaneko S, Miyoshi K, Tomuro K, Terauchi M, Tanaka R, Kondo S, Tani N, Ishiguro K, Toyoda A, Kamikouchi A, Noguchi H, Iwasaki S, Saito K, “Mettl1-dependent m7G tRNA modification is essential for maintaining spermatogenesis and fertility in Drosophila melanogaster”, Nature Communications, 15(1), 8147, 2024
• Kryukov AP, Kryukov KA, Fang B, Collier K, Edwards S, “Mitogenomics
  clarifies the position of the Nearctic magpies (Pica hudsonia and Pica
  nuttalli) within the Holarctic magpie radiation”, Current Zoology, 70,
  5, 618–630, 2024.
• Kryukov K, Nakahama N, Kuraku S, “Genome assembly catalog for species in the Japanese Red List: unlocking endangered biodiversity through genomic inventory”, F1000Research, 13:583, 2024.
• Harakawa K, Kawarai S, Kryukov K, Nakagawa S, Moriya S, Imakawa K, “Buccal Swab Samples from Japanese Brown Cattle Fed with Limonite Reveal Altered Rumen Microbiome”, Animals, 14, 13, 1968, 2024.
• Al-Mujahidy J, Kryukov K, Saito K, Ikeo K, “Functional Genomic Analysis of the Isolated Potential Probiotic Lactobacillus delbrueckii subsp. indicus TY-11, and its Comparison with other Lactobacillus delbrueckii Strains”, Microbiology Spectrum, 12, 7, e03470-23, 2024.
• Kryukov K, Nakagawa S, Imanishi T, “GenomeSync: a synchronizable database of genome sequences” iDarwin, 4, 4-23, 2024.
• Fukuta K, Kato D, Maeda J, Tsuruta A, Suzuki H, Nagano Y, Tsukamoto H, Niwa K, Terauchi M, Toyoda A, Fujiyama A, Noguchi H, “Genome assembly of Genji firefly (Nipponoluciola cruciata) reveals novel luciferase-like luminescent proteins without peroxisome targeting signal” DNA Res, 31, dsae006, 2024.
• Matsumura K, Onuma T, Kondo S, Noguchi H, Uchiyama H, Yajima S, Sasaki K, Miyatake T, “Transcriptomic comparison between populations selected for higher and lower mobility in the red flour beetle Tribolium castaneum”, Sci Rep, 14, 67, 2024.
• Xiao M, Kondo S, Nomura M, Kato S, Nishimura K, Zang W, Zhang Y, Akashi T, Viny A, Shigehiro T, Ikawa T, Yamazaki H, Fukumoto M, Tanaka A, Hayashi Y, Koike Y, Aoyama Y, Ito H, Nishikawa H, Kitamura T, Kanai A, Yokoyama A, Fujiwara T, Goyama S, Noguchi H, Stanley C. L, Toyoda A, Hinohara K, Abdel-Wahab O, Daichi Inoue, “BRD9 determines the cell fate of hematopoietic stem cells by regulating chromatin state”, Nat Commun, 14:8372, 2023.
• Matsumoto R, Mehjabin JJ, Noguchi H, Miyamoto T, Takasuka TE, Hori C, “Genomic and Secretomic Analyses of the Newly Isolated Fungus Perenniporia fraxinea SS3 Identified CAZymes Potentially Related to a Serious Pathogenesis of Hardwood Trees”, Appl Environ Microbiol, 89, 5, 2023.
• Kon T, Fukuta K, Chen Z, Kon-Nanjo K, Suzuki K, Ishikawa M, Tanaka H, Burgess SM, Noguchi H, Toyoda A, Omori Y, “Single-cell transcriptomics of the goldfish retina reveals genetic divergence in the asymmetrically evolved subgenomes after allotetraploidization”, Commun Biol, 5, 1404, 2022.
• Yano K, Noguchi H, Niki H, “Profiling a single-stranded DNA region within an rDNA segment that affects the loading of bacterial condensin”, iScience, 25, 12, 2022.
• Yamamoto Y, Higashi A, Ikawa K, Hoang HTT, Yamaguchi T, Kawahara R, Noguchi H, Nguyen TN, Khong DT, Tran HT, “Horizontal transfer of a plasmid possessing mcr-1 marked with a single nucleotide mutation between Escherichia coli isolates from community residents”, BMC Research Notes, 15, 196, 2022.
• Mikami S, Miura Y, Kondo S, Sakai K, Nishimura H, Kyoyama H, Moriyama G, Koyama N, Noguchi H, Ohkubo H, Kanazawa S, Uematsu K, “Nintedanib induces gene expression changes in the lung of induced-rheumatoid arthritis-associated interstitial lung disease mice”, PLOS ONE, 17(6): e0270056, 2022.
• Vu H, Muto Y, Hayashi M, Noguchi H, Tanaka K, Yamamoto Y, “Complete Genome Sequences of Three Phocaeicola vulgatus Strains Isolated from a Healthy Japanese Individual”, Microbiol Resour Announc 11(2):e0112421, 2022
• Takada T, Fukuta K, Usuda D, Kushida T, Kondo S, Kawamoto S, Yoshiki A, Obata Y, Fujiyama A, Toyoda A, Noguchi H, Shiroishi T, Masuya H, “MoG+: a database of genomic variations across three mouse subspecies for biomedical research”, Mamm Genome, 10.1007/s00335-021-09933-w, 2021.
• Kajitani R, Noguchi H, Gotoh Y, Ogura Y, Yoshimura D, Okuno M, Toyoda A, Kuwahara T, Hayashi T, Itoh T, “MetaPlatanus: a metagenome assembler that combines long-range sequence links and species-specific features”, Nucleic Acids Res, gkab831, 2021.
• Yamamoto K, Hamaji T, Kawai TH, Matsuzaki R, Takahashi F, Nishimura Y, Kawachi M, Noguchi H, Minakuchi Y, Umen JG, Toyoda A, Nozaki H, “Three genomes in the algal genus Volvox reveal the fate of a haploid sex-determining region after a transition to homothallism”, PNAS, 118:e2100712118, 2021.
• Miyazawa H, Osigus HJ, Rolfes S, Kamm K, Schierwater B, Nakano H, “Mitochondrial genome evolution of placozoans: gene reaarangements and repeat expansions”, Genome Biol Evol, evaa213, 2020.
• Nikaido M, Kondo S, Zhang Z, Wu J, Nishihara H, Niimura Y, Suzuki S, Touhara K, Suzuki Y, Noguchi H, Minakuchi Y, Toyoda Y, Fujiyama A, Sugano S, Yoneda M, Kai C, “Comparative genomic analyses illuminate the distinct evolution of megabats within Chiroptera”, DNA Res, 27, dsaa021, 2020.
• Kon T, Omori Y, Fukuta K, Wada H, Watanabe M, Chen Z, Iwasaki M, Mishina T, Matsuzaki SS, Yoshihara D, Arakawa J, Kawakami K, Toyoda A, Burgess SM, Noguchi H, Furukawa T, “The genetic basis of morphological diversity in domesticated goldfish”, Curr Biol, 30:2260-2274, 2020.
• Mohsin M, Tanaka K, Kawahara R, Kondo S, Noguchi H, Motooka D, Nakamura S, Khong DT, Nguyen TN, Hoang TN, Yamamoto Y, “Whole-genome sequencing and comparative analysis of the genomes of Bacteroides thetaiotaomicron and Escherichia coli isolated from a healthy resident in Vietnam”, J Glob Antimicrob Resist, 21:65-67, 2020.
• Kondo S, Kato H, Suzuki Y, Takada T, Eitoku M, Shiroishi T, Suganuma N, Sugano S, Kiyosawa H, “Monoallelic, antisense and total RNA transcription in an in vitro neural differentiation system based on F1 hybrid mice”, J Cell Sci, 132:jcs228973, 2019.
• Gaouda H, Hamaji T, Yamamoto K, Kawai-Toyooka H, Suzuki M, Noguchi H, Minakuchi Y, Toyoda A, Fujiyama A, Nozaki H, Smith DR, “Exploring the limits and causes of plastid genome expansion in volvocine green algae”, Genome Biol Evol 10(9):2248-2254, evy175, 2018.
• Hamaji T, Kawai-Toyooka H, Uchimura H, Suzuki M, Noguchi H, Minakuchi Y, Toyoda A, Fujiyama A, Miyagishima S, Umen JG, Nozaki H, “Anisogamy evolved with a reduced sex-determining region in volvocine green algae”, Commun Biol, 1:17, 2018.
• Kadowaki M, Fujimaru Y, Taguchi S, Ferdouse J, Sawada K, Kimura Y, Terasawa Y, Agrimi G, Anai T, Noguchi H, Toyoda A, Fujiyama A, Akao T, Kitagaki H, “Chromosomal aneuploidy improves the brewing characteristics of sake yeast”, Appl Environ Microbiol, 83:e01620-17, 2017.
• Tatsumoto S, Go Y, Fukuta K, Noguchi H, Hayakawa T, Tomonaga M, Hirai H, Matsuzawa T, Agata K, Fujiyama A, “Direct estimation of de novo mutation rates in a chimpanzee parent-offspring trio by ultra-deep whole genome sequencing”, Sci Rep, 7:13561, 2017.
• Maeda J, Kato D, Arima K, Ito Y, Toyoda A, Noguchi H, “The complete mitochondrial genome sequence and phylogenetic analysis of Luciola lateralis, one of the most famous firefly in Japan (Coleoptera: Lampyridae)”, Mitochondrial DNA B, 2:546, 2017.
• Maeda J, Kato D, Arima K, Ito Y, Toyoda A, Noguchi H, “The complete mitogenome and phylogenetic analysis of Japanese firefly ‘Genji Botaru’ Luciola cruciata (Coleoptera: Lampyridae)”, Mitochondrial DNA B, 2:522, 2017.
• Hoshino A, Jayakumar V, Nitasaka E, Toyoda A, Noguchi H, Itoh T, Shin-I T, Minakuchi Y, Koda Y, Nagano AJ, Yasugi M, Honjo MN, Kudoh H, Seki M, Kamiya A, Shiraki T, Carninci P, Asamizu E, Nishide H, Tanaka S, Park KI, Morita Y, Yokoyama K, Uchiyama I, Tanaka Y, Tabata S, Shinozaki K, Hayashizaki Y, Kohara Y, Suzuki Y, Sugano S, Fujiyama A, Iida S, Sakakibara Y, “Genome sequence and analysis of the Japanese morning glory Ipomoea nil“, Nat Commun, 7:13295, 2016.
• Hanschen ER, Marriage TN, Ferris PJ, Hamaji T, Toyoda A, Fujiyama A, Neme R, Noguchi H, Minakuchi Y, Suzuki M, Kawai-Toyooka H, Smith DR, Sparks H, Anderson J, Bakarić R, Luria V, Karger A, Kirschner MW, Durand PM, Michod RE, Nozaki H, Olson BJ, “The Gonium pectorale genome demonstrates co-option of cell cycle regulation during the evolution of multicellularity”, Nat Commun, 7:11370, 2016.
• Hamaji T, Mogi Y, Ferris PJ, Mori T, Miyagishima S, Kabeya Y, Nishimura Y, Toyoda A, Noguchi H, Fujiyama A, Olson BJ, Marriage TN, Nishii I, Umen JG, Nozaki H, “Sequence of the Gonium pectorale Mating Locus Reveals a Complex and Dynamic History of Changes in Volvocine Algal Mating Haplotypes”, G3 (Bethesda), 6:1179-1189, 2016.
• Urushihara H, Kuwayama H, Fukuhara K, Itoh T, Kagoshima H, Shin-I T, Toyoda A, Ohishi K, Taniguchi T, Noguchi H, Kuroki Y, Hata T, Uchi K, Mohri K, King JS, Insall RH, Kohara Y, Fujiyama A, “Comparative genome and transcriptome analyses of the social amoeba Acytostelium subglobosum that accomplishes multicellular development without germ-soma differentiation”, BMC genomics, 16:80, 2015.
• Kajitani R, Toshimoto K, Noguchi H, Toyoda A, Ogura Y, Okuno M, Yabana M, Harada M, Nagayasu E, Maruyama H, Kohara Y, Fujiyama A, Hayashi T, Itoh T, “Efficient de novo assembly of highly heterozygous genomes from whole-genome shotgun short reads”, Genome Res., 24:1384-1395, 2014.
• Nikaido M, Noguchi H, Nishihara H, Toyoda A, Suzuki Y, Kajitani R, Suzuki H, Okuno M, Aibara M, Ngatunga BP, Mzighani SI, Kalombo HW, Masengi KW, Tuda J, Nogami S, Maeda R, Iwata M, Abe Y, Fujimura K, Okabe M, Amano T, Maeno A, Shiroishi T, Itoh T, Sugano S, Kohara Y, Fujiyama A, Okada N, “Coelacanth genomes reveal signatures for evolutionary transition from water to land”, Genome Res., 23:1740-1748, 2013.
• Takada T, Ebata T, Noguchi H, Keane TM, Adams DJ, Narita T, Shin-I T, Fujisawa H, Toyoda A, Abe K, Obata Y, Sakaki Y, Moriwaki K, Fujiyama A, Kohara Y, Shiroishi T, “The ancestor of extant Japanese fancy mice contributed to the mosaic genomes of classical inbred strains”, Genome Res., 23:1329-1338, 2013.
• Hamaji T, Smith DR, Noguchi H, Toyoda A, Suzuki M, Kawai-Toyooka H, Fujiyama A, Nishii I, Marriage T, Olson BJ, Nozaki H, “Mitochondrial and plastid genomes of the colonial green alga Gonium pectorale give insights into the origins of organelle DNA architecture within the volvocales”, PLoS One, 8(2):e57177, 2013.
• Takami H, Noguchi H, Takai Y, Uchiyama I, Toyoda A, Nishi S, Chee GJ, Arai W, Nunoura T, Itoh T, Hattori M, Takai K, “Deeply branching thermophilic bacterium with an ancient acetyl-CoA pathway dominates a subsurface ecosystem”, PLoS One, 7(1):e30559, 2012.