AE-Bio Department of Agricultural and Environmental Biology close

SHIMADA, Toru


SHIMADA Toru


Laboratory of Insect Genetics and Bioscience
Department of Agricultural and Environmental Biology


Professor

Biography

1982 The University of Tokyo (B. A.)
1987 Graduate School of Agriculture, The University of Tokyo (Ph. D.)

Main Research
Four million species of insects currently living on the earth are descendants of the common ancestor that emerged approximately 400 million years ago. The insect genomes, which contain about 20,000 genes respectively, have been evolving not only by maintaining the ancestral genes, but also by creating novel genes or losing old genes. The morphological and ecological diversity of the insects are expressed by diverse structures and functions of insect genomes among species/strains. I study to understand how the lepidopteran insects (moths and butterflies) realize the specific functions, by using silkworm, Bombyx mori as a model insect and genetics, molecular biology, biochemistry, and histology as methods. The current subjects of my rese arches are as follows; "Genetic network controlling sex determination in lepidopteran insects", "Characteristics of the Bombyx mori genome", "Genetic mechanism of the embryonic diapause in Bombyx mori", "Lateral gene transfers from Bacteria to Lepidoptera", and "Retrovirus-like elements in the Bombyx genome". These studies can contribute to basic biology as well as applied insect sciences including development of selective insecticides based on the genomic information and industrial utilization of insect- specific genes and molecules.

Recent publications (2004 - 2013)
  1. Bisch-Knaden, S., Daimon, T., Shimada, T., Hansson, B. S., and Sachse, S. (2013) Anatomical and functional analysis of domestication effects on the olfactory system of the silkmoth Bombyx mori. Proc. Biol. Sci. 281: 20132582
  2. Suetsugu, Y., Futahashi, R., Kanamori, H., Kadono-Okuda, K., Sasanuma, S. I., Narukawa, J., Ajimura, M., Jouraku, A., Namiki, N., Shimomura, M., Sezutsu, H., Osanai-Futahashi, M., Suzuki, M. G., Daimon, T., Shinoda, T., Taniai, K., Asaoka, K., Niwa, R., Kawaoka, S., Katsuma, S., Tamura, T., Noda, H., Kasahara, M., Sugano, S., Suzuki, Y., Fujiwara, H., Kataoka, H., Arunkumar, K. P., Tomar, A., Nagaraju, J., Goldsmith, M. R., Feng, Q., Xia, Q., Yamamoto, K., Shimada, T., and Mita, K. (2013) Large scale full-length cDNA sequencing reveals a unique genomic landscape in a lepidopteran model insect, Bombyx mori. G3 (Bethesda) 3: 1481-1492.
  3. Shoji, K., Kiuchi, T., Hara, K., Kawamoto, M., Kawaoka, S., Arimura, S., Tsutsumi, N., Sugano, S., Suzuki, Y., Shimada, T., and Katsuma, S. (2013) Characterization of a novel chromodomain-containing gene from the silkworm, Bombyx mori. Gene 527: 649-654.
  4. Tabunoki, H., Ono, H., Ode, H., Ishikawa, K., Kawana, N., Banno, Y., Shimada, T., Nakamura, Y., Yamamoto, K., Satoh, J-I,. and Bono, H. (2013) Identification of key uric acid synthesis pathway in a unique mutant silkworm Bombyx mori model of Parkinson's disease. PLoS ONE 8: e69130.
  5. Hirayama, C., Ono, H., Meng, Y., Shimada, T., and Daimon, T. (2013) Flavonoids from the cocoon of Rondotia menciana. Phytochemistry 94: 108-112.
  6. Bono, F., De Smet, F., Herbert, C., De Bock, K., Georgiadou, M., Fons, P., Tjwa, M., Alcouffe, C., Ny, A., Bianciotto, M., Jonckx, B., Murakami, M., Lanahan, A., Michielsen, C., Sibrac, D., Dol-Gleizes, F., Mazzone, M., Zacchigna, S., Herault, J. P., Fischer, C., Rigon, P., Ruiz de Almodovar, C., Claes, F., Blanc, I., Poesen, K., Zhang, J., Segura, I., Gueguen, G., Bordes, M. F., Lambrechts, D., Broussy, R., van de Wouwer, M., Michaux, C., Shimada, T., Jean, I., Blacher, S., Noel, A., Motte, P., Rom, E., Rakic, J. M., Katsuma, S., Schaeffer, P., Yayon, A., Schepdael, V. A., Schwalbe, H., Gervasio, F., Carmeliet, G., Rozensky, J., Dewerchin, M., Simons, M., Christopoulos, A., Herbert, J. M., and Carmeliet, P. (2013) Inhibition of tumor angiogenesis and growth by a small-molecule multi-FGF receptor blocker with allosteric properties. Cancer Cell 23: 477-488.
  7. Wang, L., Kiuchi, T., Fujii, T., Daimon, T., Li, M., Banno, Y., Kikuta, S., Kikawada, T., Katsuma, S., and Shimada, T. (2013) Mutation of a novel ABC transporter gene is responsible for the failure to incorporate uric acid in the epidermis of ok mutants of the silkworm, Bombyx mori. Insect Biochem. Mol. Biol. 43: 562-571.
  8. Lin, Y., Meng, Y., Wang, Y.-X., Luo, J., Katsuma, S., Yang, C.-W., Banno, Y., Kusakabe, T., Shimada, T., and Xia, Q.-Y. (2013) Vitellogenin receptor mutation leads to the oogenesis mutant phenotype 'scanty vitellin' of the silkworm, Bombyx mori. J. Biol. Chem. 288: 13345-13355.
  9. Fujii, T., Abe, H., Kawamoto, M., Katsuma, S., Banno, Y., and Shimada, T. (2013) Albino (al) is a tetrahydrobiopterin (BH4)-deficient mutant of the silkworm Bombyx mori. Insect Biochem. Mol. Biol. 43: 594-600.
  10. Ishihara, G., Shimada, T., and Katsuma, S. (2013) Functional characterization of Bombyx mori nucleopolyhedrovirus CG30 protein. Virus Res. 174: 52-59.
  11. Tsuchida, A., Ishihara, G., Shimada, T., and Katsuma, S. (2013) Dimerization and proper degradation of Bombyx mori nucleopolyhedorivirus IE2 are required for efficient virus growth in B. mori larvae. Appl. Entomol. Zool. 48: 125-130.
  12. Wang, L., Kiuchi, T., Fujii, T., Daimon, T., Li, M., Banno, Y., Katsuma, S., and Shimada, T. (2013) Reduced expression of the dysbindin-like gene in the Bombyx mori ov mutant exhibiting mottled translucency of the larval skin. Genome 56(2): 101-108.
  13. Kawaoka, S.*, Hara, K.*, Shoji, K., Kobayashi, M., Shimada, T., Sugano, S., Tomari, Y., Suzuki, Y., and Katsuma, S. (2013) The comprehensive epigenome map of piRNA clusters. Nucleic Acids Res. 41:1581-1590. (* These authors contributed equally to this work.)
  14. Hori, T., Kiuchi, T., Shimada, T., Nagata, M., and Katsuma, S. (2013) Silkworm plasmatocytes are more resistant than other hemocyte morphotypes to Bombyx mori nucleopolyhedrovirus infection. J. Invertebr. Pathol. 112: 102-104.
  15. Katsuma, S. and Shimada, T. (2012) Comparative studies of Bombyx mori nucleopolyhedrovirus infection in BmN4 cell lines maintained in different laboratories. J. Insect Biotechnol. Sericol. 81: 7-12.
  16. Fujii, T., Banno, Y., Abe, H., Katsuma, S., and Shimada, T. (2012) A homolog of the human Hermansky-Pudluck Syndrome-5 (HPS5) gene is responsible for the oa larval translucent mutants in the silkworm, Bombyx mori. Genetica 140: 463-468.
  17. Daimon, T., Fujii, T., Fujii, T., Yokoyama, T., Katsuma, S., Shinoda, T., Shimada, T., and Ishikawa, Y. (2012), Reinvestigation of the sex pheromone of the wild silkmoth, Bombyx mandarina: The effects of bombykal and bombykyl acetate. J. Chem. Ecol. 38: 1031-1035.
  18. Ito, K., Kidokoro, K., Katsuma, S., Shimada, T., Yamamoto, K., Mita, K., and Kadono-Okuda, K. (2012) Positional cloning of a gene responsible for the cts mutation of the silkworm, Bombyx mori. Genome 55: 493-504.
  19. Katsuma, S., Koyano, Y., Kang, W.-K., Kokusho, R., Kamita, S. G., and Shimada, T. (2012) The baculovirus uses a captured host phosphatase to induce enhanced locomotory activity in host caterpillars. PLoS Pathogens 8: e1002644.
  20. Daimon, T., Kozaki, T., Niwa, R., Kobayashi, I., Furuta, K., Namiki, T., Uchino, K., Banno, Y., Katsuma, S., Tamura, T., Mita, K., Sezutsu, H., Nakayama, M., Itoyama, K., Shimada, T., and Shinoda, T. (2012) Precocious metamorphosis in the juvenile hormone-deficient mutant of the silkworm, Bombyx mori. PLoS Genet. 8: e1002486.
  21. Hara, K., Fujii, T., Suzuki, Y., Sugano, S., Shimada, T., Katsuma, S., and Kawaoka, S. (2012) Altered expression of testis-specific genes, piRNAs, and transposons in the silkworm ovary masculinized by a W chromosome mutation. BMC Genomics 13: 119.
  22. Kang, W.-K., Katsuma, S., Matsuda-Imai, N., Kurihara, M., Yoshiga, T., Shimada, T., and Matsumoto, .S. (2012) Identification and characterization of host factors interacting with Bombyx mori nucleopolyhedrovirus ORF8. J. Microbiol. 50: 469-477.
  23. Daimon, T.*, Fujii, T.*, Yago, M., Hsu, Y.-F., Nakajima, Y., Fujii, T., Katsuma, S., Ishikawa, Y., and Shimada, T. (2012) Female sex pheromone and male behavioral responses of the bombycid moth Trilocha varians: comparison with those of the domesticated silkmoth Bombyx mori. Naturwissenschaften 99: 207-215. (* These authors contributed equally to this work.)
  24. Katsuma, S., Kobayashi, J., Koyano, Y., Matsuda-Imai, N., Kang, W.-K., and Shimada, T. (2012) Baculovirus-encoded protein BV/ODV-E26 determines tissue tropism and virulence in lepidopteran insects. J. Virol. 86: 2545-2555.
  25. Iwanaga, M., Hitotsuyama, T., Katsuma, S., Ishihara, G., Daimon, T., Shimada, T., Imanishi, S., and Kawasaki, H. (2012) Infection study of Bombyx mori macula-like virus (BmMLV) using a BmMLV-negative cell line and an infectious cDNA clone. J. Virol. Methods 179: 316-324..
  26. Kawaoka, S.*, Mitsutake, H.*, Kiuchi, T., Kobayashi, M., Yoshikawa, M., Suzuki, Y., Sugano, S., Shimada, T., Kobayashi, J., Tomari, Y., and Katsuma, S. (2012) A role for transcription from a piRNA cluster in de novo piRNA production. RNA 18: 256-273. (* These authors contributed equally to this work)
  27. Daimon, T., Yago, M., Hsu, Y.-F., Fujii, T., Nakajima, Y., Kokusho, T., Abe, H., Katsuma, S., and Shimada, T. (2012) Molecular phylogeny, laboratory rearing, and karyotype of the bombycid moth, Trilocha varians. J. Insect Sci. 12, 49.
  28. Fujii, T., Abe, H., Yamamoto, K., Katsuma, S., and Shimada, T. (2011) Interspecies linkage analysis of mo, a Bombyx mori locus associated with mosaicism and gynandromorphism. Genetica 139: 1323-1329.
  29. Fujii, T., Fujii, T., Namiki, S., Abe, H., Sakurai, T., Ohnuma, A., Kanzaki, R., Katsuma, S., Ishikawa, Y., and Shimada, T. (2011) Sex-linked transcription factor involved in a shift of sex pheromone preference in the silkmoth, Bombyx mori. Proc. Natl. Acad. Sci. USA. 108: 18038-18043.
  30. Kawaoka, S., Kadota, K., Arai, Y., Suzuki, Y., Fujii, T., Abe, H., Yasukochi, Y., Mita, K., Sugano, S., Shimizu, K., Tomari, Y., Shimada, T., and Katsuma, S. (2011) The silkworm W chromosome is a source of female-enriched piRNAs. RNA 17: 2144-2151.
  31. Kokusho, R., Zhang, C.-X., Shimada, T., and Katsuma, S. (2011) Comparative analysis of budded virus infectivity of Bombyx mandarina and B. mori nucleopolyhedroviruses. Virus Genes 43: 313-317.
  32. Kawaoka. S., Arai, Y., Kadota, K., Suzuki, Y., Hara, K., Sugano, S., Shimizu, K., Tomari, Y., Shimada, T., and Katsuma, S. (2011) Zygotic amplification of secondary piRNAs during the silkworm embryogenesis. RNA 17: 1401-1407.
  33. Kiuchi, T., Banno, Y., Katsuma, S., and Shimada, T. (2011) Mutations in an amino acid transporter gene are responsible for sex-linked translucent larval skin of the silkworm, Bombyx mori. Insect Biochem. Mol. Biol. 41: 680-687.
  34. Fujii, T., Ito, K., Tatematsu, M., Shimada, T., Katsuma, S., and Ishikawa, Y. (2011) Sex pheromone desaturase functioning in a primitive Ostrinia moth is cryptically conserved in congeners' genomes. Proc. Natl. Acad. Sci. USA. 108: 7102-7106.
  35. Tabunoki, H., Ode, H., Banno, Y., Katsuma, S., Shimada, T., Mita, K., Yamamoto, K., Sato, R., Ishii-Nozawa, R., and Satoh J-I. (2011) BmDJ-1 is a key regulator for the developmental oxidative modification of the silkworm, Bombyx mori. PLoS ONE 6: e17683.
  36. Fujii, T., Abe, H., Katsuma, S., and Shimada, T. (2011) Identification and characterization of the fusion transcript, composed of the apterous homolog and a putative protein phosphatase gene, generated by 1.5-Mb interstitial deletion in the vestigial (Vg) mutant of Bombyx mori. Insect Biochem. Mol. Biol. 41:306-312.
  37. Tatematsu, K., Yamamoto, K., Uchino, K., Narukawa, J., Iizuka, T., Banno, Y., Katsuma, S., Shimada, T., Tamura, T., Sezutsu, H., and Daimon, T. (2011) Positional cloning of silkworm white egg 2 (w-2) locus reveals functional conservation and diversification of ABC transporters for pigmentation in insects. Genes Cells 16: 331-342.
  38. Sakudoh, T., Nakashima, T., Kuroki, Y., Fujiyama, A., Kohara, Y., Honda, N., Fujimoto, H., Shimada, T., Nakagaki, M., Banno, Y., and Tsuchida, K. (2011) Diversity in copy number and structure of a silkworm morphogenetic gene as a result of domestication. Genetics 187: 965-976.
  39. Katsuma, S., Tsuchida, A., Imai-Matsuda, N., Kang, W.-K., and Shimada, T. (2011) Role of the ubiquitin-proteasome system in Bombyx mori nucleopolyhedrovirus infection. J. Gen. Virol. 92: 699-705.
  40. Katsuma, S., Kang, W.-K., Shin-i, T., Ohishi, K., Kadota, K., Kohara, Y., and Shimada, T. (2011) Mass identification of transcriptional units expressed from the Bombyx mori nucleopolyhedrovirus genome. J. Gen. Virol. 92: 200-203.
  41. Urano, K., Daimon, T., Banno, Y., Mita, K., Terada, T., Shimizu, K., Katsuma, S., and Shimada, T. (2010) Molecular defect of isovaleryl-CoA dehydrogenase in the skunk mutant of silkworm, Bombyx mori. FEBS Journal 277: 4452-4463.
  42. Abe, H., Fujii, T., Shimada, T., and Mita, K. (2010) Novel non-autonomous transposable elements on the W chromosome of the silkworm, Bombyx mori. J. Genet. 89(3) (Special issue - How is sex determined in insects?): 375-387.
  43. Daimon, T.*, Hirayama, S.*, Kanai, M., Ruike, Y., Meng, Y., Kosegawa, E., Nakamura, M., Tsujimoto, G., Katsuma, S., and Shimada, T. (2010) The silkworm Green b locus encodes a quercetin 5-O-glucosyltransferase that produces green cocoons with UV-shielding properties. Proc. Natl. Acad. Sci. USA. 107: 11471-11476. (* These authors contributed equally to this work.)
  44. Niwa, R., Namiki, T.*, Ito, K.*, Shimada-Niwa, Y., Kiuchi, M., Kawaoka, S., Kayukawa, T., Banno, Y., Fujimoto, Y., Shigenobu, S., Kobayashi, S., Shimada, T., Katsuma, S., and Shinoda, T. (2010) Non-molting glossy/shroud encodes a short-chain dehydrogenase/reductase that functions in the "Black Box" of the ecdysteroid biosynthesis pathway. Development 137: 1991-1999. (* These authors contributed equally to this work and should be considered co-first authors.)
  45. Nakanishi, T., Shimada, T., and Katsuma, S. (2010) Characterization of a Bombyx mori nucleopolyhedrovirus mutant lacking both fp25K and p35. Virus Genes 41: 144-148.
  46. Daimon, T., Mitsuhiro, M., Katsuma, S., Abe, H., Mita, K., and Shimada, T. (2010) Recent transposition of yabusame, a novel piggyBac-like transposable element in the silkworm Bombyx mori. Genome 53: 585-593.
  47. Fujii, T., Abe, H., and Shimada, T. (2010) Molecular analysis of sex chromosome-linked mutants in the silkworm Bombyx mori. J. Genet. 89(3) (Special issue - How is sex determined in insects?): 365-374.
  48. Fujii, T., Daimon, T., Uchino, K., Banno, Y., Katsuma, S., Sezutsu, H., Tamura, T., and Shimada, T. (2010) Transgenic analysis of the BmBLOS2 gene that governs the translucency of the larval integument of the silkworm, Bombyx mori. Insect Mol. Biol. 19: 659-667.
  49. Banno, Y., Shimada, T., Kajiura, Z., and Sezutsu, H. (2010) The silkworm - An attractive bioresource supplied by Japan. Exp. Anim. 59: 139-146.
  50. Nakanishi, T., Goto, C., Kobayashi, M., Kang, W.-K., Suzuki, T., Dohmae, N., Matsumoto, S., Shimada, T., and Katsuma, S. (2010) Comparative studies of a lepidopteran baculovirus-specific protein FP25K: Development of a novel BmNPV-based vector with a modified fp25K gene. J. Virol. 84: 5191-5200.
  51. Ito, K., Katsuma, S., Yamamoto, K., Kadono-Okuda, K., Mita, K., and Shimada, T. (2010) Yellow-e determines the color pattern of larval head and tail spots of the silkworm, Bombyx mori. J. Biol. Chem. 285: 5624-5629.
  52. Fujii, T., Ito, K., Katsuma, S., Nakano, R., Shimada, T., and Ishikawa, Y. (2010) Molecular and biochemical characterization of an acetyl-CoA acetyltransferase from the adzuki bean borer Ostrinia scapulalis (Lepidoptera: Crambidae). Insect Biochem. Mol. Biol. 40: 74-48.
  53. Fujii, T., Kuwazaki, S., Yamamoto, K., Abe, H., Ohnuma, A., Katsuma, S., Mita, K., and Shimada, T. (2010) Identification and molecular characterization of a sex chromosome rearrangement causing a soft and pliable (spli) larval body phenotype in the silkworm Bombyx mori. Genome 53: 45-54.
  54. Katsuma, S. and Shimada, T. (2009) Bombyx mori nucleopolyhedrovirus ORF34 is required for efficient transcription of late and very late genes. Virology 392: 230-237.
  55. Kawaoka, S., Hayashi, N., Suzuki, Y., Abe, H., Sugano, S., Tomari, Y., Shimada, T., and Katsuma, S. (2009) The Bombyx ovary-derived cell line endogenously expresses Piwi/Piwi-interacting RNA complexes. RNA 15: 1258-1264.
  56. Fujii, T., Ozaki, M., Masamoto, T., Katsuma, S., Abe, H., and Shimada, T. (2009) A Bombyx mandarina mutant exhibiting translucent larval skin is controlled by the molybdenum cofactor sulfurase gene. Genes Genet. Syst. 84: 147-152.
  57. Meng, Y., Katsuma, S., Daimon, T., Banno, Y., Uchino, K., Sezutsu, H., Tamura, T., Mita, K., and Shimada, T. (2009) The silkworm mutant lemon (lemon lethal) is a potential insect model for human Sepiapterin reductase deficiency. J. Biol. Chem. 284: 11698 -11705.
  58. Ito, K., Katsuma, S., Yamamoto, K., Kadono-Okuda, K., Mita, K., and Shimada, T. (2009) A 25 bp-long insertional mutation in the BmVarp gene causes the waxy translucent skin of the silkworm, Bombyx mori. Insect Biochem. Mol. Biol. 39: 287-293.
  59. Katsuma, S., Nakanishi, T., and Shimada, T. (2009) Bombyx mori nucleopolyhedrovirus FP25K is essential for maintaining a steady-state level of v-cath expression throughout the infection. Virus Res. 140: 155-160.
  60. Kawaoka, S., Katsuma, S., Meng, Y., Hayashi, N., Mita, K., and Shimada, T. (2009) Identification and characterization of globin genes from two lepidopteran insects, Bombyx mori and Samia cynthia ricini. Gene 431: 33-38.
  61. Meng, Y., Katsuma, S., Mita, K., and Shimada, T. (2009) Abnormal red body coloration of the silkworm, Bombyx mori, is caused by a mutation in a novel kynureninase. Genes Cells 14: 129-140.
  62. Katsuma, S., Nakanishi, T., Daimon, T., and Shimada, T. (2009) N-linked glycans located in the pro-region of Bombyx mori nucleopolyhedrovirus V-CATH are essential for the proper folding of V-CATH and V-CHIA. J. Gen. Virol. 90: 170-176.
  63. The International Silkworm Genome Consortium* (2008) The genome of a lepidopteran model insect, the silkworm Bombyx mori. Insect Biochem. Mol. Biol. 38: 1036-1045. (* Chinese group: Xia, Q., Wang, J., Zhou, Z., Li, R., Fan, W., Cheng, D., Cheng, T., Qin, J., Duan, J., Xu, H., Li, Q., Li, N., Wang, M., Dai, F., Liu, C., Lin, Y., Zhaoa, P., Zhang, H., Liu, S., Zha, X., Li, C., Zhao, A., Pan, M., Pan, G., Shen, Y., Gao, Z., Wang, Z., Wang, G., Wu, Z., Hou, Y., Chai, C., Yu, Q., He, N., Zhang, Z., Li, S., Yang, H., Lu, C., Wang, J., and Xiang, Z., Japanese group : Mita, K., Kasahara, M., Nakatani, Y., Yamamoto, K., Abe, H., Ahsan, B., Daimon, T., Doi, K., Fujii, T., Fujiwara, H., Fujiyama, A., Futahashi, R., Hashimoto, S., Ishibashi, J., Iwami, M., Kadono-Okuda, K., Kanamori, H., Kataoka, H., Katsuma, S., Kawaoka, S., Kawasaki, H., Kohara, Y., Kozaki, T., Kuroshu, R. M., Kuwazaki, S., Matsushima, K., Minami, H., Nagayasu, Y., Nakagawa, T., Narukawa, J., Nohata, J., Ohishi, K., Ono, Y., Osanai-Futahashi, M., Ozaki, K., Qu, W., Roller, L., Sasaki, S., Sasaki, T., Seino, A., Shimomura, M., Shimomura, M., Shin-I, T., Shinoda, T., Shiotsuki, T., Suetsugu, Y., Sugano, S., Suwa, M., Suzuki, Y., Takiya, S., Tamura, T., Tanaka, H., Tanaka, Y., Touhara, K., Yamada, T., Yamakawa, M., Yamanaka, N., Yoshikawa, H., Zhong, Y., Shimada, T. and Morishita, S.)
  64. Futahashi, R.*, Sato, J.*, Meng, Y.*, Okamoto, S., Daimon, T., Yamamoto, K., Suetsugu, Y., Narukawa, J., Takahashi, H., Banno, Y., Katsuma, S., Shimada, T., Mita, K., and Fujiwara, H. (2008) yellow and ebony are the responsible genes for the larval color mutants of the silkworm Bombyx mori. Genetics 180: 1995-2005. (* These authors contributed equally to this work)
  65. Katsuma, S., Fujii, T., Kawaoka, S., and Shimada, T. (2008) Bombyx mori nucleopolyhedrovirus SNF2 global transactivator homologue (Bm33) enhances viral pathogenicity in B. mori larvae. J. Gen. Virol. 89: 3039-3046.
  66. Arunkumar, K. P., Tomar, A., Daimon, T., Shimada, T., and Nagaraju, J. (2008) WildSilkbase: An EST database of wild silkmoths. BMC Genomics 9:338 (available online: http://www.biomedcentral.com/1471-2164/9/338/abstract).
  67. Katsuma, S., Horie, S., and Shimada, T. (2008) The fibroblast growth factor homolog of Bombyx mori nucleopolyhedrovirus enhances systemic virus propagation in B. mori larvae. Virus Res. 137: 80-85.
  68. Ito, K., Kidokoro, K., Sezutsu, H., Nohata, N., Yamamoto, K., Kobayashi, I., Uchino, K., Kalyebi, A., Eguchi, R., Hara, W., Tamura, T., Katsuma, S., Shimada, T., Mita, K., and Kadono-Okuda, K. (2008) Deletion of a gene encoding an amino acid transporter in the midgut membrane causes resistance to a Bombyx parvo-like virus. Proc. Natl. Acad. Sci. USA. 105: 7523-7527.
  69. Katsuma, S., Kawaoka, S., Mita, K., and Shimada, T. (2008) Genome-wide survey for baculoviral host homologs using the Bombyx genome sequence. Insect Biochem. Mol. Biol. 38: 1080-1086.
  70. Daimon, T., Taguchi, T., Meng, Y., Katsuma, S., Mita, K., and Shimada, T. (2008) Beta-fructofuranosidase genes of the silkworm, Bombyx mori: Insight into enzymatic adaptation of B. mori to toxic alkaloids in mulberry latex. J. Biol. Chem. 283: 15271-15279.
  71. Kawaoka. S., Hayashi, N., Katsuma, S., Kishino, H., Kohara, Y., Mita, K., and Shimada, T. (2008) Bombyx small RNAs: Genomic defense system against transposons in the silkworm, Bombyx mori. Insect Biochem. Mol. Biol. 38: 1058-1065.
  72. Fujii, T., Abe, H., Katsuma, S., Mita, K., and Shimada, T. (2008) Mapping of sex-linked genes onto the genome sequence using various aberrations of the Z chromosome in Bombyx mori. Insect Biochem. Mol. Biol. 38: 1072-1079.
  73. Tabunoki, H., Shimada, T., Banno, Y., Sato, R., Kajiwara, H., Mita, K., and Satoh, J. (2008) Identification of Bombyx mori 14-3-3 orthologs and the interactor Hsp60. Neurosci. Res. 61: 271-280.
  74. Kawaoka, S., Minami, K., Katsuma, S., Mita, K., and Shimada, T. (2008) Developmentally synchronized expression of two Bombyx mori Piwi subfamily genes, SIWI and BmAGO3 in germ-line cells. Biochem. Biophys. Res. Commun. 367: 755-760.
  75. Abe, H., Fujii, T., Tanaka, N., Yokoyama, T., Kakehashi, K., Ajimura, N., Mita, M., Banno, Y., Yasukochi, Y., Oshiki, T., Nenoi, M., Ishikawa, T., and Shimada, T. (2008) Identification of the female-determining region of the W chromosome in Bombyx mori. Genetica 133: 269-282.
  76. Kawaoka, S., Katsuma, S., Daimon, T., Isono, R., Omuro, S., Mita, K., and Shimada, T. (2008) Functional analysis of four Gloverin-like genes in the silkworm, Bombyx mori. Arch. Insect Biochem. Physiol. 67: 87-96.
  77. Meng, Y., Omuro, N., Funaguma, S., Daimon, T., Kawaoka, S., Katsuma, S., and Shimada, T. (2008) Prominent down-regulation of storage protein genes after bacterial challenge in eri-silkworm, Samia cynthia ricini. Arch. Insect Biochem. Physiol. 67: 9-19.
  78. Suzuki, M. G., Imanishi, S., Dohmae, N., Nishimura, T., Shimada, T., and Matsumoto, S. (2008) Establishment of a novel in vivo sex-specific splicing assay system to identify a trans-acting factor that negatively regulates splicing of Bmdsx female exons . Mol. Cell. Biol. 28: 333-343.
  79. Orihara, Y., Hamamoto, H., Kasuga, H., Shimada, T., Kawaguchi, Y., and Sekimizu, K. (2007) Evaluation of therapeutic effects of antiviral agents using a silkworm baculovirus infection model. J. Gen. Virol. 89: 188-194.
  80. Katsuma, S., Mita, K., and Shimada, T. (2007) ERK- and JNK-dependent signaling pathways contribute to Bombyx mori nucleopolyhedrovirus infection. J. Virol. 81: 13700-13709.
  81. Daimon, T., Katsuma, S., Kang, W.-K., and Shimada, T. (2007) Functional characterization of chitinase from Cydia pomonella granulovirus. Arch. Virol. 152: 1655-1664.
  82. Fujii, T. and Shimada, T. (2007) Sex determination in the silkworm, Bombyx mori: a female determinant on the W chromosome and the sex-determining gene cascade. Semin. Cell Dev. Biol. 18: 379-388.
  83. Quan, G.-X., Kobayashi, I., Kojima, K., Uchino, K., Kanda, T., Sezutsu, H., Shimada, T., and Tamura, T. (2007) Rescue of white egg 1 mutant by introduction of the wild-type Bombyx kynurenine 3-monooxygenase gene. Insect Sci. 14: 85-92.
  84. Iwanaga, M., Shimada, T., Kobayashi, M., and Kang, W.-K. (2007) Identification of differentially expressed host genes in Bombyx mori nucleopolyhedrovirus infected cells by using subtractive hybridization. Appl. Entomol. Zool. 42: 151-159.
  85. Funaguma, S., Hashimoto, S., Suzuki, Y., Omuro, N., Sugano, S., Mita, K., Katsuma, S., and Shimada, T. (2007) SAGE analysis of early oogenesis in the silkworm, Bombyx mori. Insect Biochem. Mol. Biol. 37:147-154.
  86. Daimon, T., Katsuma S., and Shimada, T. (2007) Mutational analysis of active site residues of chitinase from Bombyx mori nucleopolyhedrovirus. Virus Res. 124: 168-175.
  87. Fujii, T., Yokoyama, T., Ninagi, O., Kakehashi, K., Obara, Y., Nenoi, M., Ishikawa, T., Mita, K., Shimada, T., and Abe, H. (2007) Isolation and characterization of sex chromosome rearrangements generating male muscle dystrophy and female abnormal oogenesis in the silkworm, Bombyx mori. Genetica 130: 267-280.
  88. Katsuma, S., Daimon, T., Horie, S., Kobayashi, M., and Shimada, T. (2006) N-linked glycans of Bombyx mori nucleopolyhedrovirus fibroblast growth factor are crucial for its secretion. Biochem. Biophys. Res. Commun. 350: 1069-1075.
  89. Katsuma, S., Horie, S., Daimon, T., Iwanaga, M., and Shimada, T. (2006) In vivo and in vitro analyses of a Bombyx mori nucleopolyhedrovirus mutant lacking functional vfgf. Virology 355: 62-70.
  90. Daimon, T., Katsuma, S., Kang, W.-K., and Shimada, T. (2006) Comparative studies of Bombyx mori nucleopolyhedrovirus chitinase and its host ortholog, BmChi-h. Biochem. Biophys. Res. Commun. 345: 825-833.
  91. Katsuma, S., Daimon, T., Mita, K., and Shimada, T. (2006) Lepidopteran ortholog of Drosophila Breathless is a receptor for the baculoviral fibroblast growth factor. J. Virol. 80: 5474-5481.
  92. Fujii, T., Tanaka, N., Yokoyama, T., Ninaki, O., Oshiki, T., Ohnuma, A., Tazima, Y., Banno, Y., Ajimura, M., Mita, K., Seki, M., Ohbayashi, F., Shimada, T., and Abe, H. (2006) The female-killing chromosome of the silkworm, Bombyx mori, was generated by translocation between the Z and W chromosomes. Genetica 127: 253-265.
  93. Tsukioka, H., Takahashi, M., Mon, H., Okano, K., Mita, K., Shimada, T., Lee, J. M,, Kawaguchi, Y., Koga, K., and Kusakabe, T. (2006) Role of the silkworm argonaute2 homolog gene in double-strand break repair of extrachromosomal DNA. Nucleic Acids Res. 34: 1092-1101.
  94. Zhong, Y.-S., Mita, K., Shimada, T., and Kawasaki, H. (2006) Glycine rich protein genes, encoding proteins constructing insect cuticle, have different developmental profiles from other cuticle protein genes in Bombyx mori. Insect Biochem. Mol. Biol. 36: 99-110.
  95. Miao, X.-X., Xu, S.-J., Li, M.-H., Li, M.-W., Huang, J.-H., Dai, F.-Y., Marino, S. W., Mills, D. R., Zheng, P.-Y., Mita, K., Jia, S.-H., Zhang, Y., Liu, W.-B., Xiang, H., Guo, Q.-H., Xu, A.-Y., Kong, X.-Y., Lin, H.-X., Shi, Y.-Z., Lu, G., Zhang, X., Huang, W., Yasukochi, Y., Sugasaki, T., Shimada, T., Nagaraju, J., Xiang, Z.-H., Wang, S.-Y., Goldsmith, M. R., Lu, C., Zhao, G.-P., and Huang, Y.-P. (2005) Simple sequence repeat-based consensus linkage map of Bombyx mori. Proc. Natl. Acad. Sci. USA. 102: 16303-16308.
  96. Daimon, T., Katsuma, S., Iwanaga, M., Kang, W.-K., and Shimada, T. (2005) The BmChi-h gene,a bacterial-type chitinase gene of Bombyx mori, encodes a functional exochitinase that plays a role in the chitin degradation during the molting process. Insect Biochem. Mol. Biol. 35: 1112-1123.
  97. Ote, M., Mita, K., Kawasaki, H., Daimon, T., Kobayashi, M., and Shimada, T. (2005) Identification of molting fluid carboxypeptidase A (MF-CPA) in Bombyx mori. Comp. Biochem. Physiol. B 141: 314-322.
  98. Ote, M., Mita, K., Kawasaki, H., Kobayashi, M., and Shimada, T. (2005) Characteristics of two genes encoding proteins with an ADAM-type metalloprotease domain, which are induced during the molting periods in Bombyx mori. Arch. Insect Biochem. Physiol. 59: 91-98.
  99. Funaguma, S., Suzuki, M. G., Tamura, T., and Shimada, T. (2005) The Bmdsx transgene including trimmed introns is sex-specifically spliced in the silkworm tissues. J. Insect Sci. 5: 17 (available online: http://insectscience.org/5.17 ).
  100. Abe, H., Seki, M., Ohbayashi, F., Tanaka, N., Yamashita, J.-I., Fujii, T., Yokoyama, T., Takahashi, M., Banno, Y., Sahara, K., Yoshido, A., Ihara, J.-I., Yasukochi, Y., Mita, K., Ajimura, M., Suzuki, M. G., Oshiki,T., and Shimada, T. (2005) Partial deletions of the W chromosome due to reciprocal translocation in the silkworm Bombyx mori. Insect Mol. Biol. 14: 339-352.
  101. Funaguma, S. and Shimada, T. (2005)Accurate pre-mRNA splicing using a nuclear extract from Bombyx mori fat body. Insect Biochem. Mol. Biol. 35: 257-261.
  102. Kamita, S. G., Nagasaka, K., Chua, J. W., Shimada, T., Mita,K., Kobayashi, M., Maeda, S., and Hammock, B. D. (2005) A baculovirus-encoded protein tyrosine phosphatase gene induces enhanced locomotory activity in a lepidopteran host. Proc. Natl. Acad. Sci. USA.102: 2584-2589.
  103. Katsuma, S. Tanaka, S., Omuro, N., Takabuchi, L., Daimon, T., Imanishi, S., Yamashita, S., Iwanaga, M., Mita, K., Maeda, S., Kobayashi, M. and Shimada, T. (2005) Novel macula-like virus identified in Bombyx mori cultured cells. J. Virol. 79: 5577-5584.
  104. Abe, H., Mita, K., Yasukochi, Y., Oshiki, T., and Shimada, T. (2005) Retrotransposable elements on the W chromosome of the silkworm, Bombyx mori. Cytogenet. Genome Res. Special issue (Retrotransposable elements and genome evolution) 110: 144-151.
  105. Suzuki, M. G. and Shimada, T. (2005) Transgenic analysis of the biological functions of a doublesex homologue in Bombyx mori. "Transgenic Silkworms" edited by K. Yoshizato, Landes Bioscience (in press)
  106. Prasad, M. D., Muthulakshmi, M., Madhu, M., Arunkumar, K. P., Sreenu, V. B., Pavithra, V., Bose, B., Nagarajaram, H. A., Mita, K., Shimada, T., and Nagaraju, J. (2005) SilkSatDb: A microsatellite database of the silkworm, Bombyx mori. Nucleic Acids Res. 33 (Database Issue): D403-406.
  107. Suzuki, M. G., Funaguma, S., Kanda, T., Tamura, T. and Shimada, T. (2005) Role of the male BmDSX protein in the sexual differentiation of Bombyx mori. Evol. Dev. 7: 58-68..
  108. Goldsmith, M. R., Shimada, T., and Abe, H. (2005) The genetics and genomics of the silkworm, Bombyx mori. Annu. Rev. Entomol. 50: 71-100.
  109. Iwanaga, M., Takaya, K., Katsuma, S., Ote, M., Tanaka, S., Kamita, S. G., Kang, W.-K., Shimada, T., and Kobayashi, M. (2004) Expression profiling of baculovirus genes in permissive and nonpermissive cell lines. Biochem. Biophys. Res. Commun. 323: 599-614.
  110. Kawasaki, H., Ote, M., Okano, K., Shimada, T., Quan, G.-X., and Mita, K. (2004) Change in the expressed gene patterns of the wing disc during the metamorphosis of Bombyx mori. Gene 343: 133-142.
  111. Ote, M., Mita, K., Kawasaki, H., Seki, M., Nohata, J., Kobayashi, M. and Shimada, T. (2004) Microarray analysis of gene expression profiles in wing discs of Bombyx mori during pupal ecdysis. Insect Biochem. Mol. Biol. 34: 775-784.
  112. Katsuma, S., Shimada, T., and Kobayashi, M. (2004) Characterization of the baculovirus Bombyx mori nucleopolyhedrovirus gene homologous to the mammalian FGF gene family. Virus Genes 29: 211-217.
  113. Katsuma, S., Tanaka, S., Shimada, T, and Kobayashi, M. (2004) Reduced cysteine protease activity of the hemolymph of Bombyx mori larvae infected with fp25-inactivated Bombyx mori nucleopolyhedrovirus results in the reduced postmortem host degradation. Arch. Virol. 149: 1773-1782.
  114. Mita, K., Kasahara, M., Sasaki, S., Nagayasu, Y., Yamada, T., Kanamori, H., Namiki, N., Kitagawa, M., Yamashita, H., Yasukochi, Y., Kadono-Okuda, K., Yamamoto, K., Ajimura, M., Ravikumar, G., Shimomura, M., Nagamura, Y., Shin-I, T., Abe, H., Shimada, T., Morishita, S., Sasaki, T. (2004) The genome sequence of silkworm, Bombyx mori. DNA Res. 11: 27-35.

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