2007

1. Expression-based approach toward functional characterization of tomato genes that have no or weak similarity to Arabidopsis genes.
   Aoki K, Yano K, Sakurai N, Tsugane T, Watanabe M, Yong-Gen Y, Matsukura C, Shibata D. (2007)
   Acta Hortic. 745: 457-64.


2. Approaches for extracting practical information from gene co-expression networks in plant biology.
   Aoki K, Ogata Y, Shibata D. (2007)
   Plant Cell Physiol. 48(3): 381-90.


3. Genomic databases for tomato.
   Yano K, Aoki K, Shibata D. (2007)
   Plant Biotechnol. 24(1): 17-25.


4. Omics-based identification of Arabidopsis Myb transcription factors regulating aliphatic glucosinolate biosynthesis.
   Yokota-Hirai M, Sugiyama K, Sawada Y, Tohge T, Obayashi T, Suzuki A, Araki R, Sakurai N, Suzuki H, Aoki K, Goda H, Ishizaki-Nishizawa O, Shibata D, Saito K. (2007)
   Proc Natl Acad Sci USA. 104(15): 6478-83.


5. Metabolomics.
   Aoki K, Iijima Y. (2007)
   In Chapter 1 Tomato, C. Kole (ed) Genome Mapping and Molecular Breeding in Plants. Springer, Berlin, Heiderberg, New York:. p79-84


6. Novel mad2 alleles isolated in a Schizosaccharomyces pombe gamma-tubulin mutant are defective in metaphase arrest activity, but remain functional for chromosome stability in unperturbed mitosis.
   Tange Y, Niwa O. (2007)
   Genetics. 175(4): 1571-84.


7. 2-Hydroxyisoflavanone dehydratase is a critical determinant of isoflavone productivity in hairy root cultures of Lotus japonicus.
   Shimamura M, Akashi T, Sakurai N, Suzuki H, Saito K, Shibata D, Ayabe S, Aoki T. (2007)
   Plant Cell Physiol. 48(11): 1652-7.


8. Natural variation of Arabidopsis thaliana reveals that aluminum resistance and proton resistance are controlled by different genetic factors.
   Ikka T, Kobayashi Y, Iuchi S, Sakurai N, Shibata D, Kobayashi M, Koyama H. (2007)
   Theor Appl Genet. 115(5): 709-19.


9. Differential metabolomics unraveling light/dark regulation of metabolic activities in Arabidopsis cell culture.
   Nakamura Y, Kimura A, Saga H, Oikawa A, Shinbo Y, Kai K, Sakurai N, Suzuki H, Kitayama M, Shibata D, Kanaya S, Ohta D. (2007)
   Planta. 227(1): 57-66.


10. Ethylmethanesulfonate (EMS) mutagenesis of Solanum lycopersicum cv. Micro-Tom for large-scale mutant screens.
    Watanabe S, Mizoguchi T, Aoki K, Kubo Y, Mori H, Imanishi S, Yamazaki Y, Shibata D, Ezura H. (2007)
    Plant Biotechnol. 24(1): 33-8.


11. Molecular and genetic characterization of transgenic tomato expressing 3-hydroxy-3-methylglutaryl coenzyme A reductase.
    Omura T, Watanabe S, Iijima Y, Aoki K, Shibata D, Ezura H. (2007)
    Plant Biotechnol. 24(1): 107-15.


12. Esculeogenin A, a New Tomato Sapogenol, ameliorates hyperlipidemia and atherosclerosis in ApoE-deficient mice by inhibiting ACAT.
    Fujiwara Y, Kiyota N, Hori M, Matsushita S, Iijima Y, Aoki K, Shibata D, Takeya M, Ikeda T, Nohara T, Nagai R. (2007)
    Arterioscler Thromb Vasc Biol. 27(11): 2400-6.


13. Arabidopsis TRANSPARENT TESTA GLABRA2 is directly regulated by R2R3 MYB transcription factors and is involved in regulation of GLABRA2 transcription in epidermal differentiation.
    Ishida T, Hattori S, Sano R, Inoue K, Shirano Y, Hayashi H, Shibata D, Sato S, Kato T, Tabata S, Okada K, Wada T. (2007)
    Plant Cell. 19(8): 2531-43.


14. ATTED-II: a database of co-expressed genes and cis elements for identifying co-regulated gene groups in Arabidopsis.
    Obayashi T, Kinoshita K, Nakai K, Shibaoka M, Hayashi S, Saeki M, Shibata D, Saito K, Ohta H. (2007)
    Nucleic Acids Res. 35(Database issue): D863-9.


15. Metabolic profiling using Fourier-transform ion-cyclotron-resonance mass spectrometry.
    Ohta D, Shibata D, Kanaya S. (2007)
    Anal Bioanal Chem. 389(5): 1469-75.


16. Arabidopsis cotyledon-specific chloroplast biogenesis factor CYO1 is a protein disulfide isomerase.
    Shimada H, Mochizuki M, Ogura K, Froehlich JE, Osteryoung KW, Shirano Y, Shibata D, Masuda S, Mori K, Takamiya K. (2007)
    Plant Cell. 19(10): 3157-69.


17. Gene expression profiling of coccolith-bearing cells and naked cells in haptophyte Pleurochrysis haptonemofera with a cDNA macroarray system.
    Fujiwara S, Hirokawa Y, Takatsuka Y, Suda K, Asamizu E, Takayanagi T, Shibata D, Tabata S, Tsuzuki M. (2007)
    Mar Biotechnol (NY). 9(5): 550-60.


18. Metabolic analysis of the cinnamate/monolignol pathway in Carthamus tinctorius seeds by a stable-isotope-dilution method.
    Sakakibara N, Nakatsubo T, Suzuki S, Shibata D, Shimada M, Umezawa T. (2007)
    Org Biomol Chem. 5(5): 802-15.


19. Characterization of the nematocidal toxocyst in Pleurotus Subgen. Coremiopleurotus.
    Truong N, Okazaki K, Fukiharu T, Takeuchi Y, Futai K, Le XT, Suzuki A. (2007)
    Mycoscience. 48(4): 222-30.