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7. FACT complex is required for DNA demethylation at heterochromatin during reproduction in Arabidopsis

Author

Frost, Jennifer M, Kim, M Yvonne, Park, Guen Tae, Hsieh, Ping-Hung, Nakamura, Miyuki, Lin, Samuel JH, Yoo, Hyunjin, Choi, Jaemyung, Ikeda, Yoko, Kinoshita, Tetsu, Choi, Yeonhee, Zilberman, Daniel, and Fischer, Robert L

Subjects
Biological Sciences, Genetics, Human Genome, Arabidopsis, Arabidopsis Proteins, Cell Nucleus, DNA Demethylation, DNA, Plant, Endosperm, Gene Expression Regulation, Plant, Genomic Imprinting, Heterochromatin, Ovule, Plants, Genetically Modified, Pollen, Transcription, Genetic, FACT complex, DEMETER demethylase, chromatin, reproduction, genomic imprinting
Abstract

The DEMETER (DME) DNA glycosylase catalyzes genome-wide DNA demethylation and is required for endosperm genomic imprinting and embryo viability. Targets of DME-mediated DNA demethylation reside in small, euchromatic, AT-rich transposons and at the boundaries of large transposons, but how DME interacts with these diverse chromatin states is unknown. The STRUCTURE SPECIFIC RECOGNITION PROTEIN 1 (SSRP1) subunit of the chromatin remodeler FACT (facilitates chromatin transactions), was previously shown to be involved in the DME-dependent regulation of genomic imprinting in Arabidopsis endosperm. Therefore, to investigate the interaction between DME and chromatin, we focused on the activity of the two FACT subunits, SSRP1 and SUPPRESSOR of TY16 (SPT16), during reproduction in Arabidopsis We found that FACT colocalizes with nuclear DME in vivo, and that DME has two classes of target sites, the first being euchromatic and accessible to DME, but the second, representing over half of DME targets, requiring the action of FACT for DME-mediated DNA demethylation genome-wide. Our results show that the FACT-dependent DME targets are GC-rich heterochromatin domains with high nucleosome occupancy enriched with H3K9me2 and H3K27me1. Further, we demonstrate that heterochromatin-associated linker histone H1 specifically mediates the requirement for FACT at a subset of DME-target loci. Overall, our results demonstrate that FACT is required for DME targeting by facilitating its access to heterochromatin.

Published
2018

10. Insights into Land Plant Evolution Garnered from the Marchantia polymorpha Genome

Author

Bowman, John L, Kohchi, Takayuki, Yamato, Katsuyuki T, Jenkins, Jerry, Shu, Shengqiang, Ishizaki, Kimitsune, Yamaoka, Shohei, Nishihama, Ryuichi, Nakamura, Yasukazu, Berger, Frédéric, Adam, Catherine, Aki, Shiori Sugamata, Althoff, Felix, Araki, Takashi, Arteaga-Vazquez, Mario A, Balasubrmanian, Sureshkumar, Barry, Kerrie, Bauer, Diane, Boehm, Christian R, Briginshaw, Liam, Caballero-Perez, Juan, Catarino, Bruno, Chen, Feng, Chiyoda, Shota, Chovatia, Mansi, Davies, Kevin M, Delmans, Mihails, Demura, Taku, Dierschke, Tom, Dolan, Liam, Dorantes-Acosta, Ana E, Eklund, D Magnus, Florent, Stevie N, Flores-Sandoval, Eduardo, Fujiyama, Asao, Fukuzawa, Hideya, Galik, Bence, Grimanelli, Daniel, Grimwood, Jane, Grossniklaus, Ueli, Hamada, Takahiro, Haseloff, Jim, Hetherington, Alexander J, Higo, Asuka, Hirakawa, Yuki, Hundley, Hope N, Ikeda, Yoko, Inoue, Keisuke, Inoue, Shin-ichiro, Ishida, Sakiko, Jia, Qidong, Kakita, Mitsuru, Kanazawa, Takehiko, Kawai, Yosuke, Kawashima, Tomokazu, Kennedy, Megan, Kinose, Keita, Kinoshita, Toshinori, Kohara, Yuji, Koide, Eri, Komatsu, Kenji, Kopischke, Sarah, Kubo, Minoru, Kyozuka, Junko, Lagercrantz, Ulf, Lin, Shih-Shun, Lindquist, Erika, Lipzen, Anna M, Lu, Chia-Wei, De Luna, Efraín, Martienssen, Robert A, Minamino, Naoki, Mizutani, Masaharu, Mizutani, Miya, Mochizuki, Nobuyoshi, Monte, Isabel, Mosher, Rebecca, Nagasaki, Hideki, Nakagami, Hirofumi, Naramoto, Satoshi, Nishitani, Kazuhiko, Ohtani, Misato, Okamoto, Takashi, Okumura, Masaki, Phillips, Jeremy, Pollak, Bernardo, Reinders, Anke, Rövekamp, Moritz, Sano, Ryosuke, Sawa, Shinichiro, Schmid, Marc W, Shirakawa, Makoto, Solano, Roberto, Spunde, Alexander, Suetsugu, Noriyuki, Sugano, Sumio, Sugiyama, Akifumi, Sun, Rui, Suzuki, Yutaka, and Takenaka, Mizuki

Subjects
Biological Sciences, Genetics, Life on Land, Adaptation, Biological, Biological Evolution, Embryophyta, Gene Expression Regulation, Plant, Genome, Plant, Marchantia, Molecular Sequence Annotation, Signal Transduction, Transcription, Genetic, Marchantia polymorpha, auxin, charophycean algae, land plant evolution, sex chromosome, Medical and Health Sciences, Developmental Biology, Biological sciences, Biomedical and clinical sciences
Abstract

The evolution of land flora transformed the terrestrial environment. Land plants evolved from an ancestral charophycean alga from which they inherited developmental, biochemical, and cell biological attributes. Additional biochemical and physiological adaptations to land, and a life cycle with an alternation between multicellular haploid and diploid generations that facilitated efficient dispersal of desiccation tolerant spores, evolved in the ancestral land plant. We analyzed the genome of the liverwort Marchantia polymorpha, a member of a basal land plant lineage. Relative to charophycean algae, land plant genomes are characterized by genes encoding novel biochemical pathways, new phytohormone signaling pathways (notably auxin), expanded repertoires of signaling pathways, and increased diversity in some transcription factor families. Compared with other sequenced land plants, M. polymorpha exhibits low genetic redundancy in most regulatory pathways, with this portion of its genome resembling that predicted for the ancestral land plant. PAPERCLIP.

Published
2017

14. Genome-wide association study identifies five new susceptibility loci for primary angle closure glaucoma

Author

Khor, Chiea Chuen, Do, Tan, Jia, Hongyan, Nakano, Masakazu, George, Ronnie, Abu-Amero, Khaled, Duvesh, Roopam, Chen, Li Jia, Li, Zheng, Nongpiur, Monisha E, Perera, Shamira A, Qiao, Chunyan, Wong, Hon-Tym, Sakai, Hiroshi, Barbosa de Melo, Mônica, Lee, Mei-Chin, Chan, Anita S, Azhany, Yaakub, Dao, Thi Lam Huong, Ikeda, Yoko, Perez-Grossmann, Rodolfo A, Zarnowski, Tomasz, Day, Alexander C, Jonas, Jost B, Tam, Pancy OS, Tran, Tuan Anh, Ayub, Humaira, Akhtar, Farah, Micheal, Shazia, Chew, Paul TK, Aljasim, Leyla A, Dada, Tanuj, Luu, Tam Thi, Awadalla, Mona S, Kitnarong, Naris, Wanichwecharungruang, Boonsong, Aung, Yee Yee, Mohamed-Noor, Jelinar, Vijayan, Saravanan, Sarangapani, Sripriya, Husain, Rahat, Jap, Aliza, Baskaran, Mani, Goh, David, Su, Daniel H, Wang, Huaizhou, Yong, Vernon K, Yip, Leonard W, Trinh, Tuyet Bach, Makornwattana, Manchima, Nguyen, Thanh Thu, Leuenberger, Edgar U, Park, Ki-Ho, Wiyogo, Widya Artini, Kumar, Rajesh S, Tello, Celso, Kurimoto, Yasuo, Thapa, Suman S, Pathanapitoon, Kessara, Salmon, John F, Sohn, Yong Ho, Fea, Antonio, Ozaki, Mineo, Lai, Jimmy SM, Tantisevi, Visanee, Khaing, Chaw Chaw, Mizoguchi, Takanori, Nakano, Satoko, Kim, Chan-Yun, Tang, Guangxian, Fan, Sujie, Wu, Renyi, Meng, Hailin, Nguyen, Thi Thuy Giang, Tran, Tien Dat, Ueno, Morio, Martinez, Jose Maria, Ramli, Norlina, Aung, Yin Mon, Reyes, Rigo Daniel, Vernon, Stephen A, Fang, Seng Kheong, Xie, Zhicheng, Chen, Xiao Yin, Foo, Jia Nee, Sim, Kar Seng, Wong, Tina T, Quek, Desmond T, Venkatesh, Rengaraj, Kavitha, Srinivasan, Krishnadas, Subbiah R, Soumittra, Nagaswamy, Shantha, Balekudaru, Lim, Boon-Ang, Ogle, Jeanne, de Vasconcellos, José PC, Costa, Vital P, Abe, Ricardo Y, de Souza, Bruno B, and Sng, Chelvin C

Subjects
Neurodegenerative, Human Genome, Eye Disease and Disorders of Vision, Aging, Genetics, Cell Line, Chromosome Mapping, Female, Gene Expression, Genetic Loci, Genetic Predisposition to Disease, Genome-Wide Association Study, Genotype, Glaucoma, Angle-Closure, Humans, Male, Biological Sciences, Medical and Health Sciences, Developmental Biology
Abstract

Primary angle closure glaucoma (PACG) is a major cause of blindness worldwide. We conducted a genome-wide association study (GWAS) followed by replication in a combined total of 10,503 PACG cases and 29,567 controls drawn from 24 countries across Asia, Australia, Europe, North America, and South America. We observed significant evidence of disease association at five new genetic loci upon meta-analysis of all patient collections. These loci are at EPDR1 rs3816415 (odds ratio (OR) = 1.24, P = 5.94 × 10(-15)), CHAT rs1258267 (OR = 1.22, P = 2.85 × 10(-16)), GLIS3 rs736893 (OR = 1.18, P = 1.43 × 10(-14)), FERMT2 rs7494379 (OR = 1.14, P = 3.43 × 10(-11)), and DPM2-FAM102A rs3739821 (OR = 1.15, P = 8.32 × 10(-12)). We also confirmed significant association at three previously described loci (P < 5 × 10(-8) for each sentinel SNP at PLEKHA7, COL11A1, and PCMTD1-ST18), providing new insights into the biology of PACG.

Published
2016

17. A common variant mapping to CACNA1A is associated with susceptibility to exfoliation syndrome

Author

Aung, Tin, Ozaki, Mineo, Mizoguchi, Takanori, Allingham, R Rand, Li, Zheng, Haripriya, Aravind, Nakano, Satoko, Uebe, Steffen, Harder, Jeffrey M, Chan, Anita SY, Lee, Mei Chin, Burdon, Kathryn P, Astakhov, Yury S, Abu-Amero, Khaled K, Zenteno, Juan C, Nilgün, Yildirim, Zarnowski, Tomasz, Pakravan, Mohammad, Safieh, Leen Abu, Jia, Liyun, Wang, Ya Xing, Williams, Susan, Paoli, Daniela, Schlottmann, Patricio G, Huang, Lulin, Sim, Kar Seng, Foo, Jia Nee, Nakano, Masakazu, Ikeda, Yoko, Kumar, Rajesh S, Ueno, Morio, Manabe, Shin-ichi, Hayashi, Ken, Kazama, Shigeyasu, Ideta, Ryuichi, Mori, Yosai, Miyata, Kazunori, Sugiyama, Kazuhisa, Higashide, Tomomi, Chihara, Etsuo, Inoue, Kenji, Ishiko, Satoshi, Yoshida, Akitoshi, Yanagi, Masahide, Kiuchi, Yoshiaki, Aihara, Makoto, Ohashi, Tsutomu, Sakurai, Toshiya, Sugimoto, Takako, Chuman, Hideki, Matsuda, Fumihiko, Yamashiro, Kenji, Gotoh, Norimoto, Miyake, Masahiro, Astakhov, Sergei Y, Osman, Essam A, Al-Obeidan, Saleh A, Owaidhah, Ohoud, Al-Jasim, Leyla, Shahwan, Sami Al, Fogarty, Rhys A, Leo, Paul, Yetkin, Yaz, Oğuz, Çilingir, Kanavi, Mozhgan Rezaei, Beni, Afsaneh Naderi, Yazdani, Shahin, Akopov, Evgeny L, Toh, Kai-Yee, Howell, Gareth R, Orr, Andrew C, Goh, Yufen, Meah, Wee Yang, Peh, Su Qin, Kosior-Jarecka, Ewa, Lukasik, Urszula, Krumbiegel, Mandy, Vithana, Eranga N, Wong, Tien Yin, Liu, Yutao, Koch, Allison E Ashley, Challa, Pratap, Rautenbach, Robyn M, Mackey, David A, Hewitt, Alex W, Mitchell, Paul, Wang, Jie Jin, Ziskind, Ari, Carmichael, Trevor, Ramakrishnan, Rangappa, Narendran, Kalpana, Venkatesh, Rangaraj, Vijayan, Saravanan, Zhao, Peiquan, Chen, Xueyi, Guadarrama-Vallejo, Dalia, Cheng, Ching Yu, Perera, Shamira A, Husain, Rahat, and Ho, Su-Ling

Subjects
Biological Sciences, Genetics, Rare Diseases, Human Genome, Prevention, 2.1 Biological and endogenous factors, Aetiology, Animals, Asian People, Calcium Channels, Case-Control Studies, Chromosome Mapping, Exfoliation Syndrome, Genetic Predisposition to Disease, Genome-Wide Association Study, Glaucoma, Open-Angle, HEK293 Cells, HeLa Cells, Humans, Japan, MCF-7 Cells, Mice, Mice, Inbred C57BL, Polymorphism, Single Nucleotide, Tumor Cells, Cultured, Blue Mountains Eye Study GWAS Team, Wellcome Trust Case Control Consortium 2, Hela Cells, Medical and Health Sciences, Developmental Biology, Agricultural biotechnology, Bioinformatics and computational biology
Abstract

Exfoliation syndrome (XFS) is the most common recognizable cause of open-angle glaucoma worldwide. To better understand the etiology of XFS, we conducted a genome-wide association study (GWAS) of 1,484 cases and 1,188 controls from Japan and followed up the most significant findings in a further 6,901 cases and 20,727 controls from 17 countries across 6 continents. We discovered a genome-wide significant association between a new locus (CACNA1A rs4926244) and increased susceptibility to XFS (odds ratio (OR) = 1.16, P = 3.36 × 10(-11)). Although we also confirmed overwhelming association at the LOXL1 locus, the key SNP marker (LOXL1 rs4886776) demonstrated allelic reversal depending on the ancestry group (Japanese: OR(A allele) = 9.87, P = 2.13 × 10(-217); non-Japanese: OR(A allele) = 0.49, P = 2.35 × 10(-31)). Our findings represent the first genetic locus outside of LOXL1 surpassing genome-wide significance for XFS and provide insight into the biology and pathogenesis of the disease.

Published
2015

18. Development and validation of a scoring system to predict vasovagal reaction upon whole‐blood donation.

Author

Hashizume, Tatsuma, Kondo, Gaku, Ishimaru, Fumihiko, Ikeda, Yoko, Kagawa, Keiko, Kunii, Noriko, Namba, Noriko, Aoki, Kiichi, Sawamura, Yoshihiro, and Makino, Shigeyoshi

Subjects
BLOOD volume, BLOOD donors, SYNCOPE, FORECASTING
Abstract

Background and Objectives: Risk factors for vasovagal reaction (VVR) have been extensively studied. With knowledge of the relative importance of these risk factors for VVR, collection staff could take care of blood donors from the same standpoint, leading to improved donor safety. We therefore developed a scoring system to predict VVR, which incorporates registration information. Materials and Methods: Pre‐syncopal and syncopal symptoms, as well as on‐ and off‐site reactions, are included in this analysis as VVR. We defined the donor status as follows: first‐time donors, repeat donors with no history of reaction and repeat donors with a history of reaction. We prepared two datasets: whole‐blood donations at a blood donation site in Tokyo between January 2019 and December 2019 were included in training data (n = 361,114), and whole‐blood donations between January 2020 and August 2020 were included in testing data (n = 216,211). Results: The most important variable was the donor status, followed by age, estimated blood volume and height. We integrated them into a scoring system. Training and testing datasets were combined (n = 577,325), and VVR rates in groups with scores of 0, 1, 2, 3, 4 and 5 or more were 0.09% (95% CI: 0.081%–0.10%), 0.33% (95% CI: 0.31%–0.36%), 0.87% (95% CI: 0.78%–0.96%), 1.17% (95% CI: 1.05%–1.30%), 2.15% (95% CI: 1.98%–2.32%) and 3.11% (95% CI: 2.90%–3.34%), respectively. Conclusion: The scoring system enables staff to significantly predict VVR and may help them to identify donors at increased risk of experiencing syncope, thereby mitigating the negative impact of VVR on donor safety and return by paying close attention to high‐risk donors. [ABSTRACT FROM AUTHOR]

Published
2024
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19. Rapid and dynamic evolution of a giant Y chromosome inSilene latifolia

Author

Akagi, Takashi, primary, Fujita, Naoko, additional, Masuda, Kanae, additional, Shirasawa, Kenta, additional, Nagaki, Kiyotaka, additional, Horiuchi, Ayano, additional, Kuwada, Eriko, additional, Kunou, Riko, additional, Nakamura, Koki, additional, Ikeda, Yoko, additional, Ushijima, Koichiro, additional, and Charlesworth, Deborah, additional

Published
2023
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28. HMG Domain Containing SSRP1 Is Required for DNA Demethylation and Genomic Imprinting in Arabidopsis

Author

Ikeda, Yoko, Kinoshita, Yuki, Susaki, Daichi, Ikeda, Yuriko, Iwano, Megumi, Takayama, Seiji, Higashiyama, Tetsuya, Kakutani, Tetsuji, Kinoshita, Tetsu, Ikeda, Yoko, Kinoshita, Yuki, Susaki, Daichi, Ikeda, Yuriko, Iwano, Megumi, Takayama, Seiji, Higashiyama, Tetsuya, Kakutani, Tetsuji, and Kinoshita, Tetsu

Abstract

In Arabidopsis, DEMETER (DME) DNA demethylase contributes to reprogramming of the epigenetic state of the genome in the central cell. However, other aspects of the active DNA demethylation processes remain elusive. Here we show that Arabidopsis SSRP1, known as an HMG domain-containing component of FACT histone chaperone, is required for DNA demethylation and for activation and repression of many parentally imprinted genes in the central cell. Although loss of DNA methylation releases silencing of the imprinted FWA-GFP, double ssrp1-3;met1-3 mutants surprisingly showed limited activation of maternal FWA-GFP in the central cell, and only became fully active after several nuclear divisions in the endosperm. This behavior was in contrast to the dme-1;met1 double mutant in which hypomethylation of FWA-GFP by met1 suppressed the DNA demethylation defect of dme-1. We propose that active DNA demethylation by DME requires SSRP1 function through a distinctly different process from direct DNA methylation control.

Published
2023

29. The SAL-PAP Chloroplast Retrograde Pathway Contributes to Plant Immunity by Regulating Glucosinolate Pathway and Phytohormone Signaling

Author

Ishiga, Yasuhiro, Watanabe, Mutsumi, Ishiga, Takako, Tohge, Takayuki, Matsuura, Takakazu, Ikeda, Yoko, Hoefgen, Rainer, Fernie, Alisdair R., Mysore, Kirankumar S., Ishiga, Yasuhiro, Watanabe, Mutsumi, Ishiga, Takako, Tohge, Takayuki, Matsuura, Takakazu, Ikeda, Yoko, Hoefgen, Rainer, Fernie, Alisdair R., and Mysore, Kirankumar S.

Abstract

Chloroplasts have a crucial role in plant immunity against pathogens. Increasing evidence suggests that phytopathogens target chloroplast homeostasis as a pathogenicity mechanism. In order to regulate the performance of chloroplasts under stress conditions, chloroplasts produce retrograde signals to alter nuclear gene expression. Many signals for the chloroplast retrograde pathway have been identified, including chlorophyll intermediates, reactive oxygen species, and metabolic retrograde signals. Although there is a reasonably good understanding of chloroplast retrograde signaling in plant immunity, some signals are not well-understood. In order to understand the role of chloroplast retrograde signaling in plant immunity, we investigated Arabidopsis chloroplast retrograde signaling mutants in response to pathogen inoculation. sal1 mutants (fry1-2 and alx8) responsible for the SAL1-PAP retrograde signaling pathway showed enhanced disease symptoms not only to the hemibiotrophic pathogen Pseudomonas syringae pv. tomato DC3000 but, also, to the necrotrophic pathogen Pectobacterium carotovorum subsp. carotovorum EC1. Glucosinolate profiles demonstrated the reduced accumulation of aliphatic glucosinolates in the fry1-2 and alx8 mutants compared with the wild-type Col-0 in response to DC3000 infection. In addition, quantification of multiple phytohormones and analyses of their gene expression profiles revealed that both the salicylic acid (SA)- and jasmonic acid (JA)-mediated signaling pathways were down-regulated in the fry1-2 and alx8 mutants. These results suggest that the SAL1-PAP chloroplast retrograde pathway is involved in plant immunity by regulating the SA- and JA-mediated signaling pathways.

Published
2023

34. Exome sequencing reveals that the CYP1B1 and FOXC1 genes are mainly responsible for childhood glaucoma in Japanese patients

Author

Fuse, Nobuo, primary, Kimura, Masae, additional, Shimizu, Ai, additional, Hamanaka, Teruhiko, additional, Nakamura, Makoto, additional, Ishida, Nobuo, additional, Sakai, Hiroshi, additional, Ikeda, Yoko, additional, Mori, Kazuhiko, additional, Endo, Atsushi, additional, nagasaki, Masao, additional, Katsuoka, Fumiki, additional, Yasuda, Jun, additional, Matsubara, Yoichi, additional, Nakazawa, Toru, additional, and Yamamoto, Masayuki, additional

Published
2023
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35. Comparative Analysis for Antibody Persistence after Opv, Sipv and Cipv Received in Japan

Author

Kikuchi, Fuka, primary, Hasegawa, Michiya, additional, Hirose, Emi, additional, Sakurai, Atsuko, additional, Ikeda, Yoko, additional, Sato, Katsuhiko, additional, Komagome, Rika, additional, Aoki, Yoko, additional, Yoshizumi, Hidetaka, additional, Hayashi, Ai, additional, Arai, Satoru, additional, Yamashita, Yasutaka, additional, Itamochi, Masae, additional, Hanada, Yuji, additional, Nagashima, Mami, additional, Ootsuka, Yuka, additional, Aoki, Noriko, additional, Tani, Hideki, additional, Arita, Minetaro, additional, Kamiya, Hajime, additional, and Suzuki, Motoi, additional

Published
2023
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36. Efficacy of predetermined therapeutic measures against bleb‐related infection in the Collaborative Bleb‐related Infection Incidence and Treatment Study

Author

Shoji, Nobuyuki, Arakaki, Yoshikuni, Nakamoto, Kenji, Yamamoto, Tetsuya, Kuwayama, Yasuaki, Aoyama, Yumiko, Kawase, Kazuhide, Ban, Takahiro, Sawada, Akira, Mochizuki, Kiyofumi, Futa, Ryusuke, Yasuda, Noriko, Nakajima, Masayuki, Sugiyama, Tetsuya, Kojima, Shota, Hirotsuji, Norihiko, Kano, Kiyoshi, Ohura, Atsushi, Kawai, Eriko, Nakata, Atsuko, Kuwamura, Rika, Okuno, Kensuke, Yawata, Kenji, Matsumoto, Shun, Abe, Haruki, Fukuchi, Takeo, Shirakashi, Motohiro, Ueda, Jun, Tanaka, Takayuki, Negi, Akira, Nakamura, Makoto, Kanamori, Akiyasu, Yamada, Yuko, Tawara, Akihiko, Kubota, Toshiaki, Tou, Norihiko, Kimura, Tairo, Furusawa, Chiaki, Inoue, Naoki, Kawabata, Kiho, Tachibana, Nobuhiko, Matsuda, Akira, Seto, Takahiko, Kimura, Satoshi, Ueno, Satoki, Tokuda, Naoto, Inoue, Jun, Sugiyama, Kazuhisa, Ohkubo, Shinji, Higashide, Tomomi, Saito, Yoshiaki, Takeda, Hisashi, Nagata, Atsushi, Uji, Yukitaka, Tsukitome, Hideyuki, Ito, Kunio, Ikesugi, Kengo, Matsumura, Miyo, Nambu, Hiroyuki, Hamanaka, Teruhiko, Omata, Takayasu, Watanabe, Yukiko, Sakuma, Keiko, Amari, Yoko, Takahashi, Genichiro, Noro, Takahiko, Miyata, Hiroshi, Hirasawa, Manabu, Ohtake, Yuichiro, Yuki, Kenya, Araie, Makoto, Tomita, Goji, Aihara, Makoto, Tomidokoro, Atsuo, Matsuo, Hiroshi, Atarashi, Takuya, Mayama, Chihiro, Yamagami, Junkichi, Okinami, Satoshi, Ishikawa, Shinichiro, Morita, Tetsuya, Otsuki, Tomohiro, Suzuki, Hiromasa, Naruse, Ryoko, Yamakawa, Yayoi, Kasahara, Masayuki, Yoshitomi, Takeshi, Kashiwagi, Kenji, Mabuchi, Fumihiko, Chiba, Tatsuya, Suzuki, Yasuyuki, Shimizu, Satoko, Mishima, Hiromu K, Kiuchi, Yoshiaki, Mochizuki, Hideki, Sone, Takashi, Tsukamoto, Hidetoshi, Okada, Koji, Sawaguchi, Shoichi, Sakai, Hiroshi, Ishikawa, Shusaku, Tanihara, Hidenobu, Inatani, Masaru, Inoue, Toshihiro, Koga, Takahisa, Aoyama, Akira, Yamazaki, Yoshio, Okajima, Yasuhiko, Mizuki, Kenji, Hayamizu, Fukuko, Nakagami, Takako, Mori, Kazuhiko, Ikeda, Yoko, Ueno, Morio, Imai, Kojiro, Suzumura, Hirotaka, Kawai, Kenji, Sueno, Toshiharu, Saito, Nobuo, Otori, Yasumasa, Iwase, Aiko, Katsushima, Harumi, Kitazawa, Yoshiaki, Shimizu, Hiroshi, Shirato, Shiroaki, Matsumoto, Chota, Yoshikawa, Keiji, Inoue, Yoshitsugu, Kondo, Akira, and Yamamoto, Kimiko

Published
2018
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41. Epigenetic regulation of ecotype-specific expression of the heat-activated transposon ONSEN

Author

Nozawa, Kosuke, 1000020260614, Masuda, Seiji, Saze, Hidetoshi, Ikeda, Yoko, Suzuki, Takamasa, Takagi, Hiroki, Tanaka, Keisuke, Ohama, Naohiko, Niu, Xiaoying, 1000090177428, Kato, Atsushi, 1000070582295, Ito, Hidetaka, Nozawa, Kosuke, 1000020260614, Masuda, Seiji, Saze, Hidetoshi, Ikeda, Yoko, Suzuki, Takamasa, Takagi, Hiroki, Tanaka, Keisuke, Ohama, Naohiko, Niu, Xiaoying, 1000090177428, Kato, Atsushi, 1000070582295, and Ito, Hidetaka

Abstract

Transposable elements are present in a wide variety of organisms; however, our understanding of the diversity of mechanisms involved in their activation is incomplete. In this study, we analyzed the transcriptional activation of the ONSEN retrotransposon, which is activated by high-temperature stress in Arabidopsis thaliana. We found that its transcription is significantly higher in the Japanese ecotype Kyoto. Considering that transposons are epigenetically regulated, DNA methylation levels were analyzed, revealing CHH methylation was reduced in Kyoto compared to the standard ecotype, Col-0. A mutation was also detected in the Kyoto CMT2 gene, encoding a CHH methyltransferase, suggesting that it may be responsible for increased expression of ONSEN. CHH methylation is controlled by histone modifications through a self-reinforcing loop between DNA methyltransferase and histone methyltransferase. Analysis of these modifications revealed that the level of H3K9me2, a repressive histone marker for gene expression, was lower in Kyoto than in Col-0. The level of another repressive histone marker, H3K27me1, was decreased in Kyoto; however, it was not impacted in a Col-0 cmt2 mutant. Therefore, in addition to the CMT2 mutation, other factors may reduce repressive histone modifications in Kyoto.

Published
2022

42. The Japan Glaucoma Society guidelines for glaucoma 5th edition.

Author

Kiuchi, Yoshiaki, Inoue, Toshihiro, Shoji, Nobuyuki, Nakamura, Makoto, Tanito, Masaki, Glaucoma Guideline Preparation Committee, Japan Glaucoma Society, Inoue, Kenji, Ishida, Kyoko, Kurimoto, Yasuo, Suzuki, Yasuyuki, Chin, Sinki, Naito, Tomoko, Honjo, Megumi, Miki, Atsuya, Yamashita, Takehiro, Akagi, Tadamichi, Ikeda, Yoko, Usui, Shinichi, Omodaka, Kazuko, and Ohokubo, Shinji

Subjects
GLAUCOMA, INTRAOCULAR pressure, THERAPEUTICS
Abstract

We are pleased to bring you the 5th edition of the Glaucoma Clinical Practice Guidelines. Clinical practice guidelines are based on evidence (scientific grounds). It is a document that presents the treatment that is the most appropriate for the patient. "Glaucoma Clinical Guidelines" was first published in 2003. This was the first guideline for glaucoma treatment in Japan. The principle of glaucoma treatment is to lower intraocular pressure. Means for lowering intraocular pressure includes drugs, lasers, and surgery; Glaucoma is a disease that should be considered as a complex syndrome rather than a single condition. Therefore, the actual medical treatment is not as simple as one word. This time we set the Clinical Questionnaire with a focus on glaucoma treatment. We hope that you will take advantage of the 5th edition. [ABSTRACT FROM AUTHOR]

Published
2023
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43. Association of the CYP39A1 G204E Genetic Variant with Increased Risk of Glaucoma and Blindness in Patients with Exfoliation Syndrome

Author

Bell, Katharina, primary, Ozaki, Mineo, additional, Mori, Kazuhiko, additional, Mizoguchi, Takanori, additional, Nakano, Satoko, additional, Porporato, Natalia, additional, Ikeda, Yoko, additional, Chihara, Etsuo, additional, Inoue, Kenji, additional, Manabe, Shinichi, additional, Hayashi, Ken, additional, Higashide, Tomomi, additional, Ideta, Ryuichi, additional, Tokumo, Kana, additional, Kiuchi, Yoshiaki, additional, Nakano, Masakazu, additional, Ueno, Morio, additional, Kinoshita, Shigeru, additional, Tashiro, Kei, additional, Sotozono, Chie, additional, Inatani, Masaru, additional, Sugiyama, Kazuhisa, additional, Kubota, Toshiaki, additional, Li, Zheng, additional, Wang, Zhenxun, additional, Khor, Chiea Chuen, additional, and Aung, Tin, additional

Published
2022
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46. Seasonal Variation and Trend of Intraocular Pressure Decrease Over a 20-Year Period in Normal-Tension Glaucoma Patients

Author

IKEDA, YOKO, primary, MORI, KAZUHIKO, additional, UENO, MORIO, additional, YOSHII, KENGO, additional, NAKANO, MASAKAZU, additional, SATO, RYUICHI, additional, SATO, FUMIKO, additional, MARUYAMA, YUKO, additional, IMAI, KOJIRO, additional, OMI, NATSUE, additional, YAMAMOTO, YUJI, additional, YAMASAKI, TOSHIHIDE, additional, TASHIRO, KEI, additional, SOTOZONO, CHIE, additional, and KINOSHITA, SHIGERU, additional

Published
2022
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48. A Joint Multitask Learning Model for Cross-sectional and Longitudinal Predictions of Visual Field Using OCT

Author

Asaoka, Ryo, primary, Xu, Linchuan, additional, Murata, Hiroshi, additional, Kiwaki, Taichi, additional, Matsuura, Masato, additional, Fujino, Yuri, additional, Tanito, Masaki, additional, Mori, Kazuhiko, additional, Ikeda, Yoko, additional, Kanamoto, Takashi, additional, Inoue, Kenji, additional, Yamagami, Jukichi, additional, and Yamanishi, Kenji, additional

Published
2021
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50. Predicting 10-2 Visual Field From Optical Coherence Tomography in Glaucoma Using Deep Learning Corrected With 24-2/30-2 Visual Field

Author

Hashimoto, Yohei, primary, Kiwaki, Taichi, additional, Sugiura, Hiroki, additional, Asano, Shotaro, additional, Murata, Hiroshi, additional, Fujino, Yuri, additional, Matsuura, Masato, additional, Miki, Atsuya, additional, Mori, Kazuhiko, additional, Ikeda, Yoko, additional, Kanamoto, Takashi, additional, Yamagami, Junkichi, additional, Inoue, Kenji, additional, Tanito, Masaki, additional, Yamanishi, Kenji, additional, and Asaoka, Ryo, additional

Published
2021
Full Text
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