Enteropathway: the metabolic pathway database for the human gut microbiota.
Shiroma, H., Darzi, Y., Terajima, E., Nakagawa, Z., Tsuchikura, H., Tsukuda, N., Moriya, Y., Okuda, S., Goto, S., Yamada, T. Enteropathway: the metabolic pathway database for the human gut microbiota. Brief. Bioinform. 25(5):bbae419(2024).
Glycan-related genes in human gut microbiota exhibit differential distribution and diversity in carbohydrate degradation and glycan synthesis.
Takihara, H., Okuda, S. Glycan-related genes in human gut microbiota exhibit differential distribution and diversity in carbohydrate degradation and glycan synthesis. Front Mol Biosci. 10:1137303(2023).
Oral Pathobiont-Induced Changes in Gut Microbiota Aggravate the Pathology of Nonalcoholic Fatty Liver Disease in Mice.
Yamazaki, K., Kato, T., Tsuboi, Y., Miyauchi, E., Suda, W., Sato, K., Nakajima, M., Yokoji-Takeuchi, M., Yamada-Hara, M., Tsuzuno, T., Matsugishi, A., Takahashi, N., Tabeta, K., Miura, N., Okuda, S., Kikuchi, J., Ohno, H., Yamazaki, K. Oral Pathobiont-Induced Changes in Gut Microbiota Aggravate the Pathology of Nonalcoholic Fatty Liver Disease in Mice. Front. Immunol. 12:766170(2021).
PubMed Frontiers in Immunology
The Human Gut Microbiome is Structured to Optimize Molecular Interaction Networks.
Ling, Y., Watanabe, Y., Okuda, S. The Human Gut Microbiome is Structured to Optimize Molecular Interaction Networks. Comput. Struct. Biotechnol. J. 17:1040-1046 (2019).
PubMed Computational and Structural Biotechnology Journal
Lactobacillus rhamnosus GG consumption characteristically modulate gut microbial composition of healthy Japanese subjects. -a randomized, double-blind, placebo-controlled study.
Harata, G., Miyazawa, K., Yoda, K., Yamazaki, K., He, F., Hiramatsu, M., Okuda, S. Lactobacillus rhamnosus GG consumption characteristically modulate gut microbial composition of healthy Japanese subjects. -a randomized, double-blind, placebo-controlled study. ISAPP2018, Singapore (2018/6/5).
Comprehensive analysis of polyamine transport and biosynthesis in the dominant human gut bacteria: Potential presence of novel polyamine metabolism and transport genes.
Sugiyama, Y., Nara, M., Sakanaka, M., Gotoh, A., Kitakata, A., Okuda, S., Kurihara, S. Comprehensive analysis of polyamine transport and biosynthesis in the dominant human gut bacteria: Potential presence of novel polyamine metabolism and transport genes. Int. J. Biochem. Cell Biol. 93:52-61 (2017).
PubMed The International Journal of Biochemistry & Cell Biology
Use of Gifu Anaerobic Medium for culturing 32 dominant species of human gut microbes and its evaluation based on short-chain fatty acids fermentation profiles.
Gotoh, A., Nara, M., Sugiyama, Y., Sakanaka, M., Yachi, H., Kitakata, A., Nakagawa, A., Minami, H., Okuda, S., Katoh, T., Katayama, T., Kurihara, S. Use of Gifu Anaerobic Medium for culturing 32 dominant species of human gut microbes and its evaluation based on short-chain fatty acids fermentation profiles. Biosci. Biotechnol. Biochem. 81(10):2009-2017.
Inference of microbial interactions from human gut meta genome data.
Watanabe, Y., Ling, Y., Okuda, S. Inference of microbial interactions from human gut meta genome data. ISMB/ECCB2017, Plague (2017/7/25).
Molecular Insight into Evolution of Symbiosis between Breast-Fed Infants and a Member of the Human Gut Microbiome Bifidobacterium longum.
Yamada, C., Gotoh, A., Sakanaka, M., Hattie, M., Stubbs, K. A., Katayama-Ikegami, A., Hirose, J., Kurihara, S., Arakawa, T., Kitaoka, M., Okuda, S., Katayama, T., Fushinobu, S. Molecular Insight into Evolution of Symbiosis between Breast-Fed Infants and a Member of the Human Gut Microbiome Bifidobacterium longum. Cell Chem. Biol. 24(4):515-524.e5 (2017).
Species-function relationships shape ecological properties of the human gut microbiome.
Vieira-Silva, S., Falony, G., Darzi, Y., Lima-Mendez, G., Garcia, Yunta, R., Okuda, S., Vandeputte, D., Valles-Colomer, M., Hildebrand, F., Chaffron, S., Raes, J. Species-function relationships shape ecological properties of the human gut microbiome. Nat. Microbiol. 1(8):16088 (2016).