Publications 2015

(a) Developmental and Evolutionary Genomics

  1. Simakov, O., Kawashima, T., Marlétaz, F., Jenkins, J., Koyanagi, R., Mitros, T., Hisata, K., Bredeson, J., Shoguchi, E., Gyoja, F., Yue, J.X., Chen, Y.C., Robert M. Freeman, R.M., Sasaki, A.,Hikosaka-Katayama, T., Sato, A., Fujie, M., Baughman, K.W., Levine, J., Paul Gonzalez, P., Cameron, C., Fritzenwanker, J.H., Pani, A.M., Goto, H., Kanda, M., Arakaki, N., Yamasaki, S., Qu, J., Cree, A., Ding, Y., Dinh, H.H., Dugan, S., Holder, M., Jhangiani, S.N., Kovar, C.L., Lee, S.L., Lewis, L.R., Morton, D., Nazareth, L.V., Okwuonu, G., Santibanez, J., Chen, R., Richards, S., Muzny, D.M., Gillis, A., Peshkin, L., Wu, M., Humphreys, T., Su, Y.H., Putnam, N.H., Schmutz, J., Fujiyama, A., Yu, J.K., Tagawa, K., Worley, K.C., Gibbs, R.A., Kirschner, M.W., Christopher J. Lowe, C.J., Satoh, N., Rokhsar, D.S., Gerhart, J.
    Hemichordate genomes and deuterostome origins
    Nature 527(7579):459-65. (2015) 
  2. Luo, Y.J., Takeuchi, T., Koyanagi, R., Yamada, L., Kanda, M., Khalturina, M., Fujie, M., Yamasaki, S., Endo, K., Satoh, N.
    The Lingula genome provides insights into brachiopod evolution and the origin of phosphate biomineralization.
    Nature Communications, 18;6:8301. doi: 10.1038/ncomms9301. (2015)
  3. Kawai, N., Ogura, Y., Ikuta, T., Saiga, H., Hamada, M., Sakuma, T., Yamamoto, T., Satoh, N., Sasakura, Y.
    Hox10-regulated endodermal cell migration is essential for development of the ascidian intestine.
    Developmental Biology, S0012-1606(15)00169-4. doi: 10.1016/j.ydbio.2015.03.018. (2015).
  4. Hamada, M., Goricki, S., Byerly, M.S., Satoh, N., Jeffery, W.R.
    Evolution of the chordate regeneration blastema: Differential gene expression and conserved role of notch signaling during siphon regeneration in the ascidian Ciona
    Developmental Biology 15;405(2):304-15. (2015)
  5. Kraus, J.E.M., Fredman, D., Wang, W., E., Khalturin, K., Technau, U.
    Adoption of conserved developmental genes in development and origin of the medusa body plan.
    EvoDevo, 6:23 (2015)
  6. Luo, Y.J., Satoh, N., Endo, K.
    Mitochondrial gene order variation in the brachiopod Lingula anatina and its implications for mitochondrial evolution in lophotrochozoans.
    Marine Genomics, pii: S1874-7787(15)30021-0. doi: 10.1016/j.margen.2015.08.005. (2015)
  7. Alié, A., Hayashi, T., Sugimura, I., Manuel, M., Sugano, W., Mano, A., Satoh, N., Agata, K., Funayama, N.
    The ancestral gene repertoire of animal stem cells
    PNAS 112(51):E7093-100 doi: 10.1073/pnas.1514789112 (2015) online

(b) Environmental Genomics

  1. Maruyama, S., Shoguchi, E., Satoh, N., Minagawa, J.
    Diversification of light harvesting complex gene family via intra- and intergenic duplications in the coral symbiotic alga Symbiodinium.
    PLoS One 10(3):e0119406. (2015)
  2. Nakajima, Y., Shinzato, C., Satoh, N., Mitarai S.
    Novel Polymorphic Microsatellite Markers Reveal Genetic Differentiation between Two Sympatric Types of Galaxea fascicularis.
    PLoS One. 10(7):e0130176. (2015)
  3. Shoguchi, E., Shinzato, C., Hisata, K., Satoh, N., Mungpakdee, S.
    The Large Mitochondrial Genome of Symbiodinium minutum Reveals Conserved Noncoding Sequences between Dinoflagellates and Apicomplexans..
    Genome Biol Evol. 20;7(8):2237-44. (2015)
  4. Sato, A., Kawashima, T., Fujie, M., Hughes, S., Satoh, N., Shimeld, S.
    Molecular basis of canalization in an ascidian species complex adapted to different thermal conditions.
    Science Reports 18;5:16717 (2015)
  5. Shinzato, C., Mungpakdee, S., Arakaki, N., Satoh, N.
    Genome-wide SNP analysis explains coral diversity and recovery in the Ryukyu Archipelago
    Scientific Reports 5, Article number: 18211 (2015) doi:10.1038/srep18211  
  6. Zayasu, Y., Miyazaki, K., Lien, Y.T., Okubo, N.
    Direct evidence of sexual reproduction in the zebra coral, Oulastrea crispata (Anthozoa, Scleractinia), in Japan
    Invertebrate Reproduction and Development 59: 61-65 (2015) DOI: 10.1080/07924259.2015.1006340
  7. Sayavedra, L., Kleiner, M., Ponnudurai, R., Wetzel, S., Pelletier, E., Barbe, V., Satoh, N., Shoguchi, E., Fink, D., Breusing, C., Reusch, T.B., Rosenstiel, P., Schilhabel, M.B., Becher, D., Schweder, T., Markert, S., Dubilier, N, Petersen, J.M.
    Abundant toxin-related genes in the genomes of beneficial symbionts from deep-sea hydrothermal vent mussels.
    Elife. 15;4. pii: e07966. doi: 10.7554/eLife.07966. (2015).

(c) Functional genomics

  1. Shin-ya, K., Izumikawa, M., Kozone, I., Hashimoto, J., Kagaya, N., Takagi, M., Koiwai, H., Komatsu, M., Fujie, M., Satoh, N., Ikeda, H.
    Novel thioviridamide derivative-JBIR-140-heterologous expression of the gene cluster for thioviridamide biosynthesis.
    Journal of Antibiotics, 68(8):533-6. doi: 10.1038/ja.2015.20. (2015).
  2. Ohno, S., Katsuyama, Y., Tajima, Y., Izumikawa, M., Takagi, M., Fujie, M., Satoh, N., Shin-ya, K., Yasuo Ohnishi, Y.
    Identification and characterization of the streptazone E biosynthetic gene cluster in Streptomyces sp.
    ChemBioChem 16(16):2385-91. (2015) 
  3. Beedessee, G., Hisata, K., Roy, M.C., Satoh, N., Shoguchi, E.
    Multifunctional polyketide synthase genes identified by genomic survey of the symbiotic dinoflagellate, Symbiodinium minutum.
    BMC Genomics 16:941(2015)
  4. Ohno S, Katsuyama Y, Tajima Y, Izumikawa M, Takagi M, Fujie M, Satoh N, Shin-Ya K, Ohnishi Y.
    Identification and Characterization of the Streptazone E Biosynthetic Gene Cluster in Streptomyces sp. MSC090213JE08.
    Chembiochem. 16(16):2385-91. doi: 10.1002/cbic.201500317. (2015)

(d) Others (Fish taxonomy and ecology)

  1. Maeda, K., Tran, H.D., Tan, H.H.
    Discovery of a substantial continental population of the subfamily Sicydiinae (Gobioidei: Gobiidae) from Vietnam: Taxonomic revision of the genus Stiphodon from the western South China Sea.
    Raffles Bulletin of Zoology 63: 246–258 (2015)
  2. Lord C., Maeda K., Keith P., Watanabe S.
    Population structure of the Asian amphidromous Sicydiinae goby, Stiphodon percnopterygionus, inferred from mitochondrial COI sequences, with comments on larval dispersal in the northwest Pacific Ocean.
    Life and Environment, 65: 63–71. (2015)
  3. Maeda, K., Palla, H.P.
    A new species of the genus Stiphodon from Palawan, Philippines (Gobiidae: Sicydiinae)
    Zootaxa 4018 (3): 381–395. (2015) 
  4. Maeda, K., Iida, M., Kondo, M.
    Diversity of larval dispersal strategies in freshwater and estuarine gobies
    Mochioka, N., Kinoshita, I., Minami, T. (eds) Early life history of fishes, Kouseisha-Kouseikaku, Tokyo. pp. 89–101(2015)
  5. Keith, P., Lord, C., and Maeda, K.
    Indo-Pacific Sicydiine gobies: Biodiversity, life traits and conservation
    Publisher: Société Française d’Ichtyologie, Paris (2015)