発表論文（平成28年度）

1.1. Arai E, Miura F, Totoki Y, Yamashita S, Tian Y, Gotoh M, Ojima H, Nakagawa H, Takahashi Y, Nakamura H, Hama N, Kato M, Kimura H, Suzuki Y, Ito T, Shibata T, Kanai Y.

Epigenome mapping of human normal purified hepatocytes: personal epigenome variation and genome-epigenome correlation.

Epigenomics. , 2018

Pubmed ID: 29972026

2.Higgs MR, Sato K, Reynolds JJ, Begum S, Bayley R, Goula A, Vernet A, Paquin KL, Skalnik DG, Kobayashi W, Takata M, Howlett NG, Kurumizaka H, Kimura H, Stewart GS.

Histone Methylation by SETD1A Protects Nascent DNA through the Nucleosome Chaperone Activity of FANCD2.

Mol Cell. , 2018

Pubmed ID: 29937342 [領域内共同研究：胡桃坂・木村]

3.Parry AJ, Hoare M, Bihary D, Hänsel-Hertsch R, Smith S, Tomimatsu K, Mannion E, Smith A, D'Santos P, Russell IA, Balasubramanian S, Kimura H, Samarajiwa SA, Narita M.

NOTCH-mediated non-cell autonomous regulation of chromatin structure during senescence.

Nat Commun. , 2018

Pubmed ID: 29743479

4.Takeuchi A, Iida K, Tsubota T, Hosokawa M, Denawa M, Brown JB, Ninomiya K, Ito M, Kimura H, Abe T, Kiyonari H, Ohno K, Hagiwara M.

Loss of Sfpq Causes Long-Gene Transcriptopathy in the Brain.

Cell Rep. , 2018

Pubmed ID: 29719248

5.Abe Y, Fujiwara Y, Takahashi H, Matsumura Y, Sawada T, Jiang S, Nakaki R, Uchida A, Nagao N, Naito M, Kajimura S, Kimura H, Osborne TF, Aburatani H, Kodama T, Inagaki T, Sakai J.

Histone demethylase JMJD1A coordinates acute and chronic adaptation to cold stress via thermogenic phospho-switch.

Nat Commun., 2018

Pubmed ID: 29674659

6.Harada A, Maehara K, Ono Y, Taguchi H, Yoshioka K, Kitajima Y, Xie Y, Sato Y, Iwasaki T, Nogami J, Okada S, Komatsu T, Semba Y, Takemoto T, Kimura H, Kurumizaka H, Ohkawa Y.

Histone H3.3 sub-variant H3mm7 is required for normal skeletal muscle regeneration.

Nat Commun., 2018

Pubmed ID: 29643389　[領域内共同研究：木村・胡桃坂・大川]

7.Kuroki S, Nakai Y, Maeda R, Okashita N, Akiyoshi M, Yamaguchi Y, Kitano S, Miyachi H, Nakato R, Ichiyanagi K, Shirahige K, Kimura H, Shinkai Y, Tachibana M.

Combined Loss of JMJD1A and JMJD1B Reveals Critical Roles for H3K9 Demethylation in the Maintenance of Embryonic Stem Cells and Early Embryogenesis.

Stem Cell Reports., 2018

Pubmed ID: 29526734　

8.Ruppert JG, Samejima K, Platani M, Molina O, Kimura H, Jeyaprakash AA, Ohta S, Earnshaw WC.

HP1α targets the chromosomal passenger complex for activation at heterochromatin before mitotic entry.

EMBO J., 2018

Pubmed ID: 29467217　

9.Jenness C, Giunta S, Müller MM, Kimura H, Muir TW, Funabiki H.

HELLS and CDCA7 comprise a bipartite nucleosome remodeling complex defective in ICF syndrome.

Proc Natl Acad Sci U S A. , 2018

Pubmed ID: 29339483　

10.Chen CCL, Goyal P, Karimi MM, Abildgaard MH, Kimura H, Lorincz MC.

H3S10ph broadly marks early-replicating domains in interphase ESCs and shows reciprocal antagonism with H3K9me2.

Genome Res. , 2018

Pubmed ID: 29229671　

11.Chen CCL, Goyal P, Karimi MM, Abildgaard MH, Kimura H, Lorincz MC.

H3S10ph broadly marks early-replicating domains in interphase ESCs and shows reciprocal antagonism with H3K9me2.

J Genome Res., 2018

Pubmed ID: 29229671　

12.Shiraishi K, Shindo A, Harada A, Kurumizaka H, Kimura H, Ohkawa Y, Matsuyama H.

Roles of histone H3.5 in human spermatogenesis and spermatogenic disorders.

Andrology., 2018

Pubmed ID: 29179259　

13.Jenness C, Giunta S, Müller MM, Kimura H, Muir TW, Funabiki H.

HELLS and CDCA7 comprise a bipartite nucleosome remodeling complex defective in ICF syndrome.

Proc Natl Acad Sci U S A. , 2018

Pubmed ID: 29339483　

14.Kajitani T, Kato H, Chikashige Y, Tsutsumi C, Hiraoka Y, Kimura H, Ohkawa Y, Obuse C, Hermand D, Murakami Y.

Ser7 of RNAPII-CTD facilitates heterochromatin formation by linking ncRNA to RNAi.

Proc Natl Acad Sci U S A., 2017

Pubmed ID: 29237752　

　[領域内共同研究：平岡・木村・大川・小布施]

15.Shirai A, Kawaguchi T, Shimojo H, Muramatsu D, Ishida-Yonetani M, Nishimura Y, Kimura H, Nakayama JI, Shinkai Y.

Impact of nucleic acid and methylated H3K9 binding activities of Suv39h1 on its heterochromatin assembly.

Elife., 2017

Pubmed ID: 28760201　

16.Kurita K, Sakamoto T, Yagi N, Sakamoto Y, Ito A, Nishino N, Sako K, Yoshida M, Kimura H, Seki M, Matsunaga S.

Live imaging of H3K9 acetylation in plant cells.

Sci Rep., 2017

Pubmed ID: 28418019　

17.Sato Y, Kujirai T, Arai R, Asakawa H, Ohtsuki C, Horikoshi N, Yamagata K, Ueda J, Nagase T, Haraguchi T, Hiraoka Y, Kimura A, Kurumizaka H, Kimura H.

A Genetically Encoded Probe for Live-Cell Imaging of H4K20 Monomethylation.

J Mol Biol. , 2016

Pubmed ID: 28418019　

　[領域内共同研究：木村・浅川・原口・山縣・上田・平岡・胡桃坂]

18.Kaimori, JY., Maehara, K., Hayashi-Takanaka, Y., Harada, A., Fukuda, M., Yamamoto, S., Ichimaru, N., Umehara, T., Yokoyama, S., Matsuda, R., Ikura, T., Nagao, K., Obuse, C., Nozaki, N., Takahara, S., Takao, T., Ohkawa, Y., Kimura, H., Isaka, Y.

Histone H4 lysine 20 acetylation is associated with gene repression in human cells.

Sci Rep. , 2016

Pubmed ID: 27064113 　

　[領域内共同研究：木村・大川・小布施]

発表論文（平成25年度～平成27年度）

1. Suzuki, S., Kato, H., Suzuki, Y., Chikashige, Y., Hiraoka, Y., Kimura, H., Nagao, K., Obuse, C., Takahata, S., and Murakami, Y.

Histone H3K36 trimethylation is essential for multiple silencing mechanisms in fission yeast

Nucleic Acids Res, 2016

Pubmed ID: 26792892

[領域内共同研究：平岡・木村・小布施]

2. Urahama, T., Harada, A., Maehara, K., Horikoshi, N., Sato, K., Sato, Y., Shiraishi, K., Sugino, N., Osakabe, A., Tachiwana, H., Kagawa, W., Kimura, H., Ohkawa, Y., and Kurumizaka, H.

Histone H3.5 forms an unstable nucleosome and accumulates around transcription start sites in human testis

Epigenetics & Chromatin, 2016

(web: http://www.epigeneticsandchromatin.com/content/9/1/2)

　[領域内共同研究：香川・木村・大川・胡桃坂]

3. Oka, M.*, Mura, S., Yamada, K., Sangel, P., Hirata, S., Maehara, K., Kawakami, K., Tachibana, T., Ohkawa, Y., Kimura, H., and Yoneda, Y.*

Chromatin-prebound Crm1 recruits Nup98-HoxA9 fusion to induce aberrant expression of Hox cluster genes

Elife 5, 2016

Pubmed ID: 26740045

　[領域内共同研究：岡・大川・木村・米田]

4. Dias, J. D., Rito, T., Torlai Triglia, E., Kukalev, A., Ferrai, C., Chotalia, M., Brookes, E., Kimura, H., and Pombo, A.

Methylation of RNA polymerase II non-consensus Lysine residues marks early transcription in mammalian cells

Elife 4, 2015

Pubmed ID: 26687004　責任著者

5. Maehara, K., Harada, A., Sato, Y., Matsumoto, M., Nakayama, K. I., Kimura, H., and Ohkawa, Y.

Tissue-specific expression of histone H3 variants diversified after species separation

Epigenetics Chromatin 8, 35, 2015

Pubmed ID: 26388943

　[領域内共同研究:木村・大川]

6. Shimaji, K., Konishi, T., Tanaka, S., Yoshida, H., Kato, Y., Ohkawa, Y., Sato, T., Suyama, M., Kimura, H., and Yamaguchi, M.

Genomewide identification of target genes of histone methyltransferase dG9a during Drosophila embryogenesis

Genes Cells, 2015

Pubmed ID: 26334932

　[領域内共同研究:大川・木村]

7. Hayashi-Takanaka, Y., Maehara, K., Harada, A., Umehara, T., Yokoyama, S., Obuse, C., Ohkawa, Y., Nozaki, N., and Kimura, H.

Distribution of histone H4 modifications as revealed by a panel of specific monoclonal antibodies

Chromosome Res ,2015

(web: http://link.springer.com/article/10.1007/s10577-015-9486-4 )　責任著者

　[領域内共同研究:小布施・大川・木村]

8. Kimura, H., Hayashi-Takanaka, Y., Stasevich, T. J., and Sato, Y.

Visualizing posttranslational and epigenetic modifications of endogenous proteins in vivo

Histochem Cell Biol 144, 101-109, 2015

Pubmed ID:26138929　筆頭著者

9. Ruan, K., Yamamoto, T. G., Asakawa, H., Chikashige, Y., Kimura, H., Masukata, H., Haraguchi, T., and Hiraoka, Y.

Histone H4 acetylation required for chromatin decompaction during DNA replication

Sci Rep 5, 12720, 2015

Pubmed ID: 4520004

　[領域内共同研究:淺川・木村・原口・平岡]

10. Matsuda, A., Chikashige, Y., Ding, D. Q., Ohtsuki, C., Mori, C., Asakawa, H., Kimura, H., Haraguchi, T., and Hiraoka, Y.

Highly condensed chromatins are formed adjacent to subtelomeric and decondensed silent chromatin in fission yeast

Nat Commun 6, 7753, 2015

Pubmed ID: 26205977

　[領域内共同研究:淺川・木村・原口・平岡]

11. Nakatani, T., Yamagata, K., Kimura, T., Oda, M., Nakashima, H., Hori, M., Sekita, Y., Arakawa, T., Nakamura, T., and Nakano, T.

Stella preserves maternal chromosome integrity by inhibiting 5hmC-induced gammaH2AX accumulation

EMBO Rep 16, 582-589, 2015

Pubmed ID: 25694116

12. Mukai, M., Hira, S., Nakamura, K., Nakamura, S., Kimura, H., Sato, M., and Kobayashi, S.

H3K36 Trimethylation-Mediated Epigenetic Regulation is Activated by Bam and Promotes Germ Cell Differentiation During Early Oogenesis in Drosophila

Biol Open 4, 119-124, 2015

Pubmed ID: 25572421

13. Kirschner, K., Samarajiwa, S. A., Cairns, J. M., Menon, S., Perez-Mancera, P. A., Tomimatsu, K., Bermejo-Rodriguez, C., Ito, Y., Chandra, T., Narita, M., Lyons, S. K., Lynch, A. G., Kimura, H., Ohbayashi, T., Tavare, S., and Narita, M.

Phenotype specific analyses reveal distinct regulatory mechanism for chronically activated p53

PLoS Genet 11, e1005053, 2015

Pubmed ID: 25790137

14. Kamiunten, T., Ideno, H., Shimada, A., Nakamura, Y., Kimura, H., Nakashima, K., and Nifuji, A.

Coordinated expression of H3K9 histone methyltransferases during tooth development in mice

Histochem Cell Biol 143, 259-266, 2015

Pubmed ID: 25294562

15. Iwamoto, D., Yamagata, K., Kishi, M., Hayashi-Takanaka, Y., Kimura, H., Wakayama, T., and Saeki, K.

Early development of cloned bovine embryos produced from oocytes enucleated by fluorescence metaphase II imaging using a conventional halogen-lamp microscope

Cell Reprogram 17, 106-114, 2015

Pubmed ID: 25826723

16. Harada, A., Maehara, K., Sato, Y., Konno, D., Tachibana, T., Kimura, H., and Ohkawa, Y.

Incorporation of histone H3.1 suppresses the lineage potential of skeletal muscle

Nucleic Acids Res 43, 775-786, 2015

Pubmed ID: 25539924

　[領域内共同研究:大川・木村]

17. Zierhut, C., Jenness, C., Kimura, H., and Funabiki, H.

Nucleosomal regulation of chromatin composition and nuclear assembly revealed by histone depletion

Nat Struct Mol Biol 21, 617-625, 2014

Pubmed ID: 24952593

18. Yokoyama, Y., Matsumoto, A., Hieda, M., Shinchi, Y., Ogihara, E., Hamada, M., Nishioka, Y., Kimura, H., Yoshidome, K., Tsujimoto, M., and Matsuura, N.

Loss of histone H4K20 trimethylation predicts poor prognosis in breast cancer and is associated with invasive activity

Breast Cancer Res 16, R66, 2014

Pubmed ID: 24953066

19. Stasevich, T. J., Sato, Y., Nozaki, N., and Kimura, H.

Quantifying histone and RNA polymerase II post-translational modification dynamics in mother and daughter cells

Methods 70, 77-88, 2014

Pubmed ID: 25131722 責任著者

20. Stasevich, T. J., Hayashi-Takanaka, Y., Sato, Y., Maehara, K., Ohkawa, Y., Sakata-Sogawa, K., Tokunaga, M., Nagase, T., Nozaki, N., McNally, J. G., and Kimura, H.

Regulation of RNA polymerase II activation by histone acetylation in single living cells

Nature 516, 272-275, 2014

Pubmed ID: 25252976 責任著者

　[領域内共同研究:木村・徳永・大川]

21. Song, C., Feodorova, Y., Guy, J., Peichl, L., Jost, K. L., Kimura, H., Cardoso, M. C., Bird, A., Leonhardt, H., Joffe, B., and Solovei, I.

DNA methylation reader MECP2: cell type- and differentiation stage-specific protein distribution

Epigenetics Chromatin 7, 17, 2014

Pubmed ID: 25170345

22. Onoda, A., Hosoya, O., Sano, K., Kiyama, K., Kimura, H., Kawano, S., Furuta, R., Miyaji, M., Tsutsui, K., and Tsutsui, K. M.

Nuclear dynamics of topoisomerase IIbeta reflects its catalytic activity that is regulated by binding of RNA to the C-terminal domain

Nucleic Acids Res 42, 9005-9020, 2014

Pubmed ID: 25034690

23. Nakayama, T., Mihara, K., Kawata, J., Kimura, H., and Saitoh, H.

Adhesion of suspension cells on a coverslip in serum-free conditions

Anal Biochem 466, 1-3, 2014

Pubmed ID: 25086365

　[領域内共同研究:斉藤（寿）・木村]

24. Maejima, T., Inoue, T., Kanki, Y., Kohro, T., Li, G., Ohta, Y., Kimura, H., Kobayashi, M., Taguchi, A., Tsutsumi, S., Iwanari, H., Yamamoto, S., Aruga, H., Dong, S., Stevens, J. F., Poh, H. M., Yamamoto, K., Kawamura, T., Mimura, I., Suehiro, J., Sugiyama, A., Kaneki, K., Shibata, H., Yoshinaka, Y., Doi, T., Asanuma, A., Tanabe, S., Tanaka, T., Minami, T., Hamakubo, T., Sakai, J., Nozaki, N., Aburatani, H., Nangaku, M., Ruan, X., Tanabe, H., Ruan, Y., Ihara, S., Endo, A., Kodama, T., and Wada, Y.

Direct evidence for pitavastatin induced chromatin structure change in the KLF4 gene in endothelial cells

PLoS One 9, e96005, 2014

Pubmed ID: 24797675

25. Jullien, J., Miyamoto, K., Pasque, V., Allen, G. E., Bradshaw, C. R., Garrett, N. J., Halley-Stott, R. P., Kimura, H., Ohsumi, K., and Gurdon, J. B.

Hierarchical molecular events driven by oocyte-specific factors lead to rapid and extensive reprogramming

Mol Cell 55, 524-536, 2014

Pubmed ID: 25066233

26. Hori, T., Shang, W. H., Toyoda, A., Misu, S., Monma, N., Ikeo, K., Molina, O., Vargiu, G., Fujiyama, A., Kimura, H., Earnshaw, W. C., and Fukagawa, T.

Histone H4 Lys 20 monomethylation of the CENP-A nucleosome is essential for kinetochore assembly

Dev Cell 29, 740-749, 2014

Pubmed ID: 24960696

　[領域内共同研究:堀・木村]

27. Hirose, T., Virnicchi, G., Tanigawa, A., Naganuma, T., Li, R., Kimura, H., Yokoi, T., Nakagawa, S., Benard, M., Fox, A. H., and Pierron, G.

NEAT1 long noncoding RNA regulates transcription via protein sequestration within subnuclear bodies

Mol Biol Cell 25, 169-183, 2014

Pubmed ID: 24173718

28. Hayashi-Takanaka, Y., Stasevich, T. J., Kurumizaka, H., Nozaki, N., and Kimura, H.

Evaluation of chemical fluorescent dyes as a protein conjugation partner for live cell imaging

PLoS One 9, e106271, 2014

Pubmed ID: 25184362 責任著者

　[領域内共同研究:木村・胡桃坂]

29. Hayashi, A., Yamauchi, N., Shibahara, J., Kimura, H., Morikawa, T., Ishikawa, S., Nagae, G., Nishi, A., Sakamoto, Y., Kokudo, N., Aburatani, H., and Fukayama, M.

Concurrent activation of acetylation and tri-methylation of H3K27 in a subset of hepatocellular carcinoma with aggressive behavior

PLoS One 9, e91330, 2014

Pubmed ID: 24614346

30. Baba, T., Otake, H., Sato, T., Miyabayashi, K., Shishido, Y., Wang, C. Y., Shima, Y., Kimura, H., Yagi, M., Ishihara, Y., Hino, S., Ogawa, H., Nakao, M., Yamazaki, T., Kang, D., Ohkawa, Y., Suyama, M., Chung, B. C., and Morohashi, K.

Glycolytic genes are targets of the nuclear receptor Ad4BP/SF-1

Nat Commun 5, 3634, 2014

Pubmed ID: 24727981

　[領域内共同研究:木村・大川]

31 Sato, Y., Mukai, M., Ueda, J., Muraki, M., Stasevich, T. J., Horikoshi, N., Kujirai, T., Kita, H., Kimura, T., Hira, S., Okada, Y., Hayashi-Takanaka, Y., Obuse, C., Kurumizaka, H., Kawahara, A., Yamagata, K., Nozaki, N., and Kimura, H.

Genetically encoded system to track histone modification in vivo

Sci Rep 3, 2436, 2013

Pubmed ID: 23942372 責任著者

　[領域内共同研究:木村・山縣・胡桃坂・小布施]

32. Sadaie, M., Salama, R., Carroll, T., Tomimatsu, K., Chandra, T., Young, A. R., Narita, M., Perez-Mancera, P. A., Bennett, D. C., Chong, H., Kimura, H., and Narita, M.

Redistribution of the Lamin B1 genomic binding profile affects rearrangement of heterochromatic domains and SAHF formation during senescence

Genes Dev 27, 1800-1808, 2013

Pubmed ID: 23964094

33. Muramatsu, D., Singh, P. B., Kimura, H., Tachibana, M., and Shinkai, Y.

Pericentric heterochromatin generated by HP1 protein interaction-defective histone methyltransferase Suv39h1

J Biol Chem 288, 25285-25296, 2013

Pubmed ID: 23836914

34. Kuroki, S., Akiyoshi, M., Tokura, M., Miyachi, H., Nakai, Y., Kimura, H., Shinkai, Y., and Tachibana, M.

JMJD1C, a JmjC domain-containing protein, is required for long-term maintenance of male germ cells in mice

Biol Reprod 89, 93, 2013

Pubmed ID: 24006281

35. Inoue, D., Kitaura, J., Togami, K., Nishimura, K., Enomoto, Y., Uchida, T., Kagiyama, Y., Kawabata, K. C., Nakahara, F., Izawa, K., Oki, T., Maehara, A., Isobe, M., Tsuchiya, A., Harada, Y., Harada, H., Ochiya, T., Aburatani, H., Kimura, H., Thol, F., Heuser, M., Levine, R. L., Abdel-Wahab, O., and Kitamura, T.

Myelodysplastic syndromes are induced by histone methylation-altering ASXL1 mutations

J Clin Invest 123, 4627-4640, 2013

Pubmed ID: 24216483

36. Horikoshi, N., Sato, K., Shimada, K., Arimura, Y., Osakabe, A., Tachiwana, H., Hayashi-Takanaka, Y., Iwasaki, W., Kagawa, W., Harata, M., Kimura, H., and Kurumizaka, H.

Structural polymorphism in the L1 loop regions of human H2A.Z.1 and H2A.Z.2

Acta Crystallogr D Biol Crystallogr 69, 2431-2439, 2013

Pubmed ID: 24311584

　[領域内共同研究:木村・胡桃坂]

37. Eberhart, A., Feodorova, Y., Song, C., Wanner, G., Kiseleva, E., Furukawa, T., Kimura, H., Schotta, G., Leonhardt, H., Joffe, B., and Solovei, I.

Epigenetics of eu- and heterochromatin in inverted and conventional nuclei from mouse retina

Chromosome Res 21, 535-554, 2013

Pubmed ID: 23996328

38. Dinant, C., Ampatziadis-Michailidis, G., Lans, H., Tresini, M., Lagarou, A., Grosbart, M., Theil, A. F., van Cappellen, W. A., Kimura, H., Bartek, J., Fousteri, M., Houtsmuller, A. B., Vermeulen, W., and Marteijn, J. A.

Enhanced chromatin dynamics by FACT promotes transcriptional restart after UV-induced DNA damage

Mol Cell 51, 469-479, 2013

Pubmed ID: 23973375

39. Arimura, Y., Kimura, H., Oda, T., Sato, K., Osakabe, A., Tachiwana, H., Sato, Y., Kinugasa, Y., Ikura, T., Sugiyama, M., Sato, M., and Kurumizaka, H.

Structural basis of a nucleosome containing histone H2A.B/H2A.Bbd that transiently associates with reorganized chromatin

Sci Rep 3, 3510, 2013

Pubmed ID: 24336483

　[領域内共同研究:木村・小田・杉山・胡桃坂]

40. Abd Al Kader, L., Oka, T., Takata, K., Sun, X., Sato, H., Murakami, I., Toji, T., Manabe, A., Kimura, H., and Yoshino, T.

In aggressive variants of non-Hodgkin lymphomas, Ezh2 is strongly expressed and polycomb repressive complex PRC1.4 dominates over PRC1.2

Virchows Arch 463, 697-711, 2013

Pubmed ID: 23948956

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