Long-read metagenomics using PromethION uncovers oral bacteriophages and their interaction with host bacteria von Yahara, Koji, Suzuki, Masato, Hirabayashi, Aki, Suda, Wataru, Hattori, Masahira, Suzuki, Yutaka, Okazaki, Yusuke

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Evolutionary origin of insect–Wolbachia nutritional mutualism von Nikoh, Naruo, Hosokawa, Takahiro, Moriyama, Minoru, Oshima, Kenshiro, Hattori, Masahira, Fukatsu, Takema

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Obesity-induced gut microbial metabolite promotes liver cancer through senescence secretome von Yoshimoto, Shin, Loo, Tze Mun, Atarashi, Koji, Kanda, Hiroaki, Sato, Seidai, Oyadomari, Seiichi, Iwakura, Yoichiro, Oshima, Kenshiro, Morita, Hidetoshi, Hattori, Masahira, Honda, Kenya, Ishikawa, Yuichi, Hara, Eiji, Ohtani, Naoko

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The gut microbiome of healthy Japanese and its microbial and functional uniqueness von Nishijima, Suguru, Suda, Wataru, Oshima, Kenshiro, Kim, Seok-Won, Hirose, Yuu, Morita, Hidetoshi, Hattori, Masahira

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Gut microorganisms act together to exacerbate inflammation in spinal cords von Miyauchi, Eiji, Kim, Seok-Won, Suda, Wataru, Kawasumi, Masami, Onawa, Satoshi, Taguchi-Atarashi, Naoko, Morita, Hidetoshi, Taylor, Todd D., Hattori, Masahira, Ohno, Hiroshi

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The mid-domain effect in ectomycorrhizal fungi: range overlap along an elevation gradient on Mount Fuji, Japan von Miyamoto, Yumiko, Nakano, Takashi, Hattori, Masahira, Nara, Kazuhide

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Dysbiosis in the Gut Microbiota of Patients with Multiple Sclerosis, with a Striking Depletion of Species Belonging to Clostridia XIVa and IV Clusters von Miyake, Sachiko, Kim, Sangwan, Suda, Wataru, Oshima, Kenshiro, Nakamura, Masakazu, Matsuoka, Takako, Chihara, Norio, Tomita, Atsuko, Sato, Wakiro, Kim, Seok-Won, Morita, Hidetoshi, Hattori, Masahira, Yamamura, Takashi

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Small genome symbiont underlies cuticle hardness in beetles von Anbutsu, Hisashi, Moriyama, Minoru, Nikoh, Naruo, Hosokawa, Takahiro, Futahashi, Ryo, Tanahashi, Masahiko, Meng, Xian-Ying, Kuriwada, Takashi, Mori, Naoki, Oshima, Kenshiro, Hattori, Masahira, Fujie, Manabu, Satoh, Noriyuki, Maeda, Taro, Shigenobu, Shuji, Koga, Ryuichi, Fukatsu, Takema

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Optimization of Data-Independent Acquisition Mass Spectrometry for Deep and Highly Sensitive Proteomic Analysis von Kawashima, Yusuke, Watanabe, Eiichiro, Umeyama, Taichi, Nakajima, Daisuke, Hattori, Masahira, Honda, Kenya, Ohara, Osamu

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Alterations of the gut ecological and functional microenvironment in different stages of multiple sclerosis von Takewaki, Daiki, Suda, Wataru, Sato, Wakiro, Takayasu, Lena, Kumar, Naveen, Kimura, Kimitoshi, Kaga, Naoko, Mizuno, Toshiki, Miyake, Sachiko, Hattori, Masahira, Yamamura, Takashi

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Novel bile acid biosynthetic pathways are enriched in the microbiome of centenarians von Sato, Yuko, Atarashi, Koji, Plichta, Damian R., Arai, Yasumichi, Sasajima, Satoshi, Kearney, Sean M., Suda, Wataru, Takeshita, Kozue, Sasaki, Takahiro, Okamoto, Shoki, Skelly, Ashwin N., Okamura, Yuki, Vlamakis, Hera, Li, Youxian, Tanoue, Takeshi, Takei, Hajime, Nittono, Hiroshi, Narushima, Seiko, Irie, Junichiro, Itoh, Hiroshi, Moriya, Kyoji, Sugiura, Yuki, Suematsu, Makoto, Moritoki, Nobuko, Shibata, Shinsuke, Littman, Dan R., Fischbach, Michael A., Uwamino, Yoshifumi, Inoue, Takashi, Honda, Akira, Hattori, Masahira, Murai, Tsuyoshi, Xavier, Ramnik J., Hirose, Nobuyoshi, Honda, Kenya

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A proliferative probiotic Bifidobacterium strain in the gut ameliorates progression of metabolic disorders via microbiota modulation and acetate elevation von Aoki, Ryo, Kamikado, Kohei, Suda, Wataru, Takii, Hiroshi, Mikami, Yumiko, Suganuma, Natsuki, Hattori, Masahira, Koga, Yasuhiro

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Effects of bowel preparation on the human gut microbiome and metabolome von Nagata, Naoyoshi, Tohya, Mari, Fukuda, Shinji, Suda, Wataru, Nishijima, Suguru, Takeuchi, Fumihiko, Ohsugi, Mitsuru, Tsujimoto, Tetsuro, Nakamura, Tomoka, Shimomura, Akira, Yanagisawa, Naohiro, Hisada, Yuya, Watanabe, Kazuhiro, Imbe, Koh, Akiyama, Junichi, Mizokami, Masashi, Miyoshi-Akiyama, Tohru, Uemura, Naomi, Hattori, Masahira

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Ectopic colonization of oral bacteria in the intestine drives TH1 cell induction and inflammation von Atarashi, Koji, Suda, Wataru, Luo, Chengwei, Kawaguchi, Takaaki, Motoo, Iori, Narushima, Seiko, Kiguchi, Yuya, Yasuma, Keiko, Watanabe, Eiichiro, Tanoue, Takeshi, Thaiss, Christoph A., Sato, Mayuko, Toyooka, Kiminori, Said, Heba S., Yamagami, Hirokazu, Rice, Scott A., Gevers, Dirk, Johnson, Ryan C., Segre, Julia A., Chen, Kong, Kolls, Jay K., Elinav, Eran, Morita, Hidetoshi, Xavier, Ramnik J., Hattori, Masahira, Honda, Kenya

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Treg induction by a rationally selected mixture of Clostridia strains from the human microbiota von Atarashi, Koji, Tanoue, Takeshi, Oshima, Kenshiro, Suda, Wataru, Nagano, Yuji, Nishikawa, Hiroyoshi, Fukuda, Shinji, Saito, Takuro, Narushima, Seiko, Hase, Koji, Kim, Sangwan, Fritz, Joëlle V., Wilmes, Paul, Ueha, Satoshi, Matsushima, Kouji, Ohno, Hiroshi, Olle, Bernat, Sakaguchi, Shimon, Taniguchi, Tadatsugu, Morita, Hidetoshi, Hattori, Masahira, Honda, Kenya

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The liver–brain–gut neural arc maintains the Treg cell niche in the gut von Teratani, Toshiaki, Mikami, Yohei, Nakamoto, Nobuhiro, Suzuki, Takahiro, Harada, Yosuke, Okabayashi, Koji, Hagihara, Yuya, Taniki, Nobuhito, Kohno, Keita, Shibata, Shinsuke, Miyamoto, Kentaro, Ishigame, Harumichi, Chu, Po-Sung, Sujino, Tomohisa, Suda, Wataru, Hattori, Masahira, Matsui, Minoru, Okada, Takaharu, Okano, Hideyuki, Inoue, Masayuki, Yada, Toshihiko, Kitagawa, Yuko, Yoshimura, Akihiko, Tanida, Mamoru, Tsuda, Makoto, Iwasaki, Yusaku, Kanai, Takanori

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Th17 Cell Induction by Adhesion of Microbes to Intestinal Epithelial Cells von Atarashi, Koji, Tanoue, Takeshi, Ando, Minoru, Kamada, Nobuhiko, Nagano, Yuji, Narushima, Seiko, Suda, Wataru, Imaoka, Akemi, Setoyama, Hiromi, Nagamori, Takashi, Ishikawa, Eiji, Shima, Tatsuichiro, Hara, Taeko, Kado, Shoichi, Jinnohara, Toshi, Ohno, Hiroshi, Kondo, Takashi, Toyooka, Kiminori, Watanabe, Eiichiro, Yokoyama, Shin-ichiro, Tokoro, Shunji, Mori, Hiroshi, Noguchi, Yurika, Morita, Hidetoshi, Ivanov, Ivaylo I., Sugiyama, Tsuyoshi, Nuñez, Gabriel, Camp, J. Gray, Hattori, Masahira, Umesaki, Yoshinori, Honda, Kenya

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Long-term persistence of gastric dysbiosis after eradication of Helicobacter pylori in patients who underwent endoscopic submucosal dissection for early gastric cancer von Watanabe, Toshio, Nadatani, Yuji, Suda, Wataru, Higashimori, Akira, Otani, Koji, Fukunaga, Shusei, Hosomi, Shuhei, Tanaka, Fumio, Nagami, Yasuaki, Taira, Koichi, Tanigawa, Tetsuya, Nakatsu, Geicho, Hattori, Masahira, Fujiwara, Yasuhiro

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Pancreatic glycoprotein 2 is a first line of defense for mucosal protection in intestinal inflammation von Kurashima, Yosuke, Kigoshi, Takaaki, Murasaki, Sayuri, Arai, Fujimi, Shimada, Kaoru, Seki, Natsumi, Kim, Yun-Gi, Hase, Koji, Ohno, Hiroshi, Kawano, Kazuya, Ashida, Hiroshi, Suzuki, Toshihiko, Morimoto, Masako, Saito, Yukari, Sasou, Ai, Goda, Yuki, Yuki, Yoshikazu, Inagaki, Yutaka, Iijima, Hideki, Suda, Wataru, Hattori, Masahira, Kiyono, Hiroshi

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Strong effect of climate on ectomycorrhizal fungal composition: evidence from range overlap between two mountains von Miyamoto, Yumiko, Sakai, Atsushi, Hattori, Masahira, Nara, Kazuhide

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