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Higher-order chromatin structure dynamics during dendritic cell development in vivo

Research Project

Project/Area Number 21H02954
Research Category

Grant-in-Aid for Scientific Research (B)

Allocation TypeSingle-year Grants
Section一般
Review Section Basic Section 54010:Hematology and medical oncology-related
Research InstitutionYokohama City University

Principal Investigator

Tamura Tomohiko  横浜市立大学, 医学研究科, 教授 (50285144)

Co-Investigator(Kenkyū-buntansha) 黒滝 大翼  熊本大学, 国際先端医学研究機構, 特任准教授 (10568455)
ラミロフスキー ジョーダン  横浜市立大学, 先端医科学研究センター, 准教授 (10627269)
西山 晃  横浜市立大学, 医学部, 准教授 (80589664)
Project Period (FY) 2021-04-01 – 2024-03-31
Project Status Completed (Fiscal Year 2023)
Budget Amount *help
¥17,290,000 (Direct Cost: ¥13,300,000、Indirect Cost: ¥3,990,000)
Fiscal Year 2023: ¥5,590,000 (Direct Cost: ¥4,300,000、Indirect Cost: ¥1,290,000)
Fiscal Year 2022: ¥5,590,000 (Direct Cost: ¥4,300,000、Indirect Cost: ¥1,290,000)
Fiscal Year 2021: ¥6,110,000 (Direct Cost: ¥4,700,000、Indirect Cost: ¥1,410,000)
Keywordsクロマチン高次構造 / 細胞分化 / 転写因子 / 樹状細胞 / 単球
Outline of Research at the Start

細胞分化においては転写因子(それぞれ特徴的なDNA配列を認識してゲノムに結合することで遺伝子からRNAの転写を制御するタンパク質)による遺伝子発現パターンの確立が重要である。私たちは一貫して単核貪食細胞(単球や樹状細胞)の分化を研究し,鍵となる転写因子が前駆細胞におけるエンハンサー(遺伝子の発現を調節するゲノムDNA領域)の分布パターンを確立,これが将来の遺伝子発現への布石となって分化を制御することなどを見出してきた。本研究では,これまで未解明であった単核貪食細胞の分化過程におけるクロマチン高次構造変化とその制御機構を解明し,血液学的な知見のみならず細胞分化の基本原理に迫る。

Outline of Final Research Achievements

The establishment of gene expression patterns by lineage-determining transcription factors is essential for cell differentiation. We have focused on studies of cell differentiation using the mononuclear phagocytic cell lineage (monocytes and dendritic cells) as a model and have found that IRF8 and other transcription factors establish an enhancer landscape in progenitor cells, which serves as a groundwork for future gene expression and controls differentiation. While the role of IRF8 has been clarified, the regulatory mechanism of Irf8 itself is not fully understood. In this study, we analyzed the physical and functional interactions among the three Irf8 enhancers during dendritic cell differentiation and found that the mutual activation of the enhancers occurs by different mechanisms depending on the differentiation stage.

Academic Significance and Societal Importance of the Research Achievements

私たちは、系譜特異的な転写因子遺伝子のエンハンサーが細胞の分化段階で異なるメカニズムによって活性化することで、遺伝子発現を調節することを見出した。本研究で見出した分化段階で異なる相互作用機序によるエンハンサーの活性化は、前駆細胞が持つ複数の細胞種への分化能の保持や、系譜決定後の細胞種特異的な遺伝子発現に重要と考えられ、樹状細胞だけでなく他の細胞種の分化においても用いられる普遍的な機序であると予想される。さらに、エンハンサー領域の変異は多くの疾病の原因となり得ることが明らかになっており、本研究がこのような疾病の病態理解につながることが期待される。

Report

(3 results)
  • 2023 Annual Research Report   Final Research Report ( PDF )
  • 2022 Annual Research Report
  • Research Products

    (32 results)

All 2024 2023 2022 Other

All Journal Article (14 results) (of which Int'l Joint Research: 7 results,  Peer Reviewed: 14 results,  Open Access: 11 results) Presentation (16 results) (of which Int'l Joint Research: 4 results,  Invited: 4 results) Remarks (2 results)

  • [Journal Article] Lymph node macrophages drive innate immune responses to enhance the anti-tumor efficacy of mRNA vaccines2024

    • Author(s)
      Kubara Kenji、Yamazaki Kazuto、Miyazaki Takayuki、Kondo Keita、Kurotaki Daisuke、Tamura Tomohiko、Suzuki Yuta
    • Journal Title

      Molecular Therapy

      Volume: 32 Issue: 3 Pages: 704-721

    • DOI

      10.1016/j.ymthe.2024.01.020

    • Related Report
      2023 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Physical and functional interaction among Irf8 enhancers during dendritic cell differentiation2024

    • Author(s)
      Yamasaki Takaya、Nishiyama Akira、Kurogi Nagomi、Nishimura Koutarou、Nishida Shion、Kurotaki Daisuke、Ban Tatsuma、Ramilowski Jordan A.、Ozato Keiko、Toyoda Atsushi、Tamura Tomohiko
    • Journal Title

      Cell Reports

      Volume: 43 Issue: 4 Pages: 114107-114107

    • DOI

      10.1016/j.celrep.2024.114107

    • Related Report
      2023 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Macrophages play a leading role in determining the direction of astrocytic migration in spinal cord injury via ADP-P2Y1R axis2023

    • Author(s)
      Ono Gentaro、Kobayakawa Kazu、Saiwai Hirokazu、Tamaru Tetsuya、Iura Hirotaka、Haruta Yohei、Kitade Kazuki、Iida Keiichiro、Kawaguchi Kenichi、Matsumoto Yoshihiro、Tsuda Makoto、Tamura Tomohiko、Ozato Keiko、Inoue Kazuhide、Konno Dai-Jiro、Maeda Takeshi、Okada Seiji、Nakashima Yasuharu
    • Journal Title

      Scientific Reports

      Volume: 13 Issue: 1 Pages: 11177-11177

    • DOI

      10.1038/s41598-023-38301-8

    • Related Report
      2023 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Comparative analyses define differences between BHD-associated renal tumour and sporadic chromophobe renal cell carcinoma2023

    • Author(s)
      Jikuya R, Johnson TA, Maejima K, An J, Ju YS, Lee H, Ha K, Song W, Kim Y, Okawa Y, Sasagawa S, Kanazashi Y, Fujita M, Imoto S, Furuya M, Kato I, Fujii S, Hamanoue H, Tamura T, Baba M, Suda T, Kodama T, Makiyama K, Yao M, Schmidt LS, Linehan WM, Nakagawa H, Hasumi H.
    • Journal Title

      EBioMedicine

      Volume: 92 Pages: 104596-104596

    • DOI

      10.1016/j.ebiom.2023.104596

    • Related Report
      2023 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Machine learning for prediction of immunotherapeutic outcome in non-small-cell lung cancer based on circulating cytokine signatures2023

    • Author(s)
      Wei Feifei、Azuma Koichi、Nakahara Yoshiro、Saito Haruhiro、Matsuo Norikazu、Tagami Tomoyuki、Kouro Taku、Igarashi Yuka、Tokito Takaaki、Kato Terufumi、Kondo Tetsuro、Murakami Shuji、Usui Ryo、Himuro Hidetomo、Horaguchi Shun、Tsuji Kayoko、Murotani Kenta、Ban Tatsuma、Tamura Tomohiko、Miyagi Yohei、Sasada Tetsuro
    • Journal Title

      Journal for ImmunoTherapy of Cancer

      Volume: 11 Issue: 7 Pages: e006788-e006788

    • DOI

      10.1136/jitc-2023-006788

    • Related Report
      2023 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Angiotensin II type 1 receptor-associated protein in immune cells: a possible key factor in the pathogenesis of visceral obesity2023

    • Author(s)
      Tsukamoto Shunichiro、Suzuki Toru、Wakui Hiromichi、Uehara Tatsuki、Ichikawa Juri、Okuda Hiroshi、Haruhara Kotaro、Azushima Kengo、Abe Eriko、Tanaka Shohei、Taguchi Shinya、Hirota Keigo、Kinguchi Sho、Yamashita Akio、Tamura Tomohiko、Tamura Kouichi
    • Journal Title

      Metabolism

      Volume: 149 Pages: 155706-155706

    • DOI

      10.1016/j.metabol.2023.155706

    • Related Report
      2023 Annual Research Report
    • Peer Reviewed
  • [Journal Article] The early neutrophil-committed progenitors aberrantly differentiate into immunoregulatory monocytes during emergency myelopoiesis2023

    • Author(s)
      Ikeda N, Kubota H, Suzuki R, Morita M, Yoshimura A, Osada Y, Kishida K, Kitamura D, Iwata A, Yotsumoto S, Kurotaki D, Nishimura K, Nishiyama A, Tamura T, Kamatani T, Tsunoda T, Murakawa M, Asahina Y, Hayashi Y, Harada H, Harada Y, Yokota A, Hirai H, Seki T, Kuwahara M, Yamashita M, Shichino S, Tanaka M, Asano K.
    • Journal Title

      Cell Reports

      Volume: 42 Issue: 3 Pages: 112165-112165

    • DOI

      10.1016/j.celrep.2023.112165

    • Related Report
      2022 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Multivalent mannose-conjugated siRNA causes robust gene silencing in pancreatic macrophages in vivo2023

    • Author(s)
      Yamazaki Kazuto、Kubara Kenji、Suzuki Yuta、Hihara Taro、Kurotaki Daisuke、Tamura Tomohiko、Ito Masashi、Tsukahara Kappei
    • Journal Title

      European Journal of Pharmaceutics and Biopharmaceutics

      Volume: 183 Pages: 61-73

    • DOI

      10.1016/j.ejpb.2022.12.017

    • Related Report
      2022 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Deficiency of the kidney tubular angiotensin II type1 receptor?associated protein ATRAP exacerbates streptozotocin-induced diabetic glomerular injury via reducing protective macrophage polarization2022

    • Author(s)
      Haruhara Kotaro、Suzuki Toru、Wakui Hiromichi、Azushima Kengo、Kurotaki Daisuke、Kawase Wataru、Uneda Kazushi、Kobayashi Ryu、Ohki Kohji、Kinguchi Sho、Yamaji Takahiro、Kato Ikuma、Ohashi Kenichi、Yamashita Akio、Tamura Tomohiko、Tsuboi Nobuo、Yokoo Takashi、Tamura Kouichi
    • Journal Title

      Kidney International

      Volume: 101 Issue: 5 Pages: 912-928

    • DOI

      10.1016/j.kint.2022.01.031

    • Related Report
      2022 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] MDS cells impair osteolineage differentiation of MSCs via extracellular vesicles to suppress normal hematopoiesis.2022

    • Author(s)
      Hayashi Y, Inoue D, et al.
    • Journal Title

      Cell Reports

      Volume: VOLUME 39, ISSUE 6 Issue: 6 Pages: 110805-110805

    • DOI

      10.1016/j.celrep.2022.110805

    • Related Report
      2022 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Single-cell transcriptomes underscore genetically distinct tumor characteristics and microenvironment for hereditary kidney cancers2022

    • Author(s)
      Jikuya R, Murakami K, Nishiyama A, Kato I, Furuya M, Nakabayashi J, Ramilowski JA, Hamanoue H, Maejima K, Fujita M, Mitome T, Ohtake S, Noguchi G, Kawaura S, Odaka H, Kawahara T, Komeya M, Shinoki R, Ueno D, Ito H, Ito Y, Muraoka K, Hayashi N, Kondo K, et.al.
    • Journal Title

      iScience

      Volume: 25(6) Issue: 6 Pages: 104463-104463

    • DOI

      10.1016/j.isci.2022.104463

    • Related Report
      2022 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Chromatin structure undergoes global and local reorganization during murine dendritic cell development and activation2022

    • Author(s)
      Kurotaki Daisuke、Kikuchi Kenta、Cui Kairong、Kawase Wataru、Saeki Keita、Fukumoto Junpei、Nishiyama Akira、Nagamune Kisaburo、Zhao Keji、Ozato Keiko、Rocha Pedro P.、Tamura Tomohiko
    • Journal Title

      Proceedings of the National Academy of Sciences

      Volume: 119 Issue: 34

    • DOI

      10.1073/pnas.2207009119

    • Related Report
      2022 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] RNA-Binding Proteins of KHDRBS and IGF2BP families control the Oncogenic Activity of MLL-AF42022

    • Author(s)
      Okuda H, Miyamoto M, Takahashi S, Kawamura T Ichikawa J, Harada I, Tamura T and Yokoyama A.
    • Journal Title

      Nature Communications

      Volume: 13 Issue: 1 Pages: 6688-6688

    • DOI

      10.1038/s41467-022-34558-1

    • Related Report
      2022 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Switching defective/sucrose non‐fermenting chromatin remodeling complex coordinates meiotic gene activation via promoter remodeling and Meiosin activation in female germline2022

    • Author(s)
      Ito Toshiaki、Ohta Masami、Osada Atsuki、Nishiyama Akira、Ishiguro Kei‐Ichiro、Tamura Tomohiko、Sekita Yoichi、Kimura Tohru
    • Journal Title

      Genes to Cells

      Volume: 28 Issue: 1 Pages: 15-28

    • DOI

      10.1111/gtc.12990

    • Related Report
      2022 Annual Research Report
    • Peer Reviewed / Open Access
  • [Presentation] Physical and functional interaction among Irf8 enhancers during dendritic cell differentiation2024

    • Author(s)
      Takaya Yamasaki, Akira Nishiyama, Tomohiko Tamura
    • Organizer
      第52回日本免疫学会学術集会
    • Related Report
      2023 Annual Research Report
  • [Presentation] Revised model of interferon regulatory factor 8 (IRF8)-dose dependent myeloid cell differentiation2024

    • Author(s)
      Hiroshi Okuda, Juri Ichikawa, Takaya Yamasaki, Hiroaki Kume, Kenichi Asano, Tomohiko Tamura
    • Organizer
      第52回日本免疫学会学術集会
    • Related Report
      2023 Annual Research Report
  • [Presentation] 単核貪食細胞分化におけるDNAメチル化に着目したエピゲノム解析2024

    • Author(s)
      西山 晃, 山﨑貴弥, 田村智彦
    • Organizer
      第28回造血器腫瘍研究会
    • Related Report
      2023 Annual Research Report
  • [Presentation] 全身性エリテマトーデスの治療標的としての転写因子IRF52023

    • Author(s)
      田村智彦
    • Organizer
      Rheumatology Conference 2023
    • Related Report
      2023 Annual Research Report
    • Invited
  • [Presentation] Chromatin and the transcription factor IRF8 in the regulation of myeloid cell development2023

    • Author(s)
      Tomohiko Tamura
    • Organizer
      NUS-Kanagawa Cancer Symposium
    • Related Report
      2023 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] Chromatin and the transcription factor IRF8 in the regulation of dendritic cell differentiation2023

    • Author(s)
      Tomohiko Tamura
    • Organizer
      MDS2023@VIB conference
    • Related Report
      2023 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] 細胞分化におけるIrf8エンハンサークラスターのシス/トランス制御が複合した相互活性化2023

    • Author(s)
      西山 晃, 山﨑貴弥, 田村智彦
    • Organizer
      第16回日本エピジェネティクス研究会年会
    • Related Report
      2023 Annual Research Report
  • [Presentation] critical role of tumor-associated macrophages in type 2 endometrial cancer progression2023

    • Author(s)
      Ichikawa J, Okuda H, Kawano K, Kato S, Kurotaki D, Kuroishikawa R, Kawase W, Yoshida H, Hiroshima Y, Endo I, Maeda S, Nakajima A and Tamura T
    • Organizer
      第82回日本癌学会総会
    • Related Report
      2023 Annual Research Report
  • [Presentation] 樹状細胞分化におけるIrf8エンハンサーの物理的かつ機能的な協調作用によるIrf8発現の制御2023

    • Author(s)
      山﨑貴弥, 西山 晃, 黒木心和, 田村智彦
    • Organizer
      第85回日本血液学会学術集会
    • Related Report
      2023 Annual Research Report
  • [Presentation] 2型子宮体癌の進行における腫瘍関連マクロファージの重要な役割2023

    • Author(s)
      有野祐子, 藩 龍馬, 古田悠人, 渡邉萌音, 平原裕也, 石寺由美, 今井雄一, 水島大一, 宮城悦子, 田村智彦
    • Organizer
      第22回日本婦人科がん分子標的研究会
    • Related Report
      2023 Annual Research Report
  • [Presentation] エンハンサー群の協調機構が樹状細胞分化に必須の転写因子IRF8の発現を最適化する2023

    • Author(s)
      西山 晃, 山﨑貴弥, 田村智彦
    • Organizer
      第46回日本分子生物学会年会
    • Related Report
      2023 Annual Research Report
  • [Presentation] Dynamic changes in higher-order chromatin structures and the role of IRF8 during dendritic cell development and activation2022

    • Author(s)
      Tamura T
    • Organizer
      JSICR MMCB 2022 Joint Symposium
    • Related Report
      2022 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] Combined effects of immune checkpoint inhibitors, a CD40 agonistic antibody, and a CSF1 receptor inhibitor on pancreatic cancer in mice2022

    • Author(s)
      Ichikawa J, Kawano K, Okuda H, Kato S, Kurotaki D, Kawase W, Yoshida H, Hiroshima Y, Endo I, Maeda S, Nakajima A, Tamura T
    • Organizer
      JSICR MMCB 2022 Joint Symposium
    • Related Report
      2022 Annual Research Report
    • Int'l Joint Research
  • [Presentation] 樹状細胞分化におけるIrf8遺伝子発現を制御するエンハンサー群の相互作用2022

    • Author(s)
      山﨑貴弥, 西村耕太郎, 西山 晃
    • Organizer
      第84回日本血液学会学術集会
    • Related Report
      2022 Annual Research Report
  • [Presentation] Novel mechanisms for the regulation of Irf8 gene expression during dendritic cell differentiation2022

    • Author(s)
      Yamasaki T, Nishiyama A, Tamura T
    • Organizer
      第51回日本免疫学会学術集会
    • Related Report
      2022 Annual Research Report
  • [Presentation] 樹状細胞分化においてIrf8遺伝子発現を誘導するエンハンサー群の動的制御機構の解明2022

    • Author(s)
      山﨑貴弥, 西山 晃, 黒木心和, 田村智彦
    • Organizer
      27回造血器腫瘍研究会
    • Related Report
      2022 Annual Research Report
  • [Remarks] 免疫学教室 - 横浜市立大学

    • URL

      https://www-user.yokohama-cu.ac.jp/~immunol/

    • Related Report
      2023 Annual Research Report 2022 Annual Research Report
  • [Remarks] 共同利用・共同研究拠点「マルチオミックスによる遺伝子発現制御の先端的医学共同研究拠点」

    • URL

      https://www-user.yokohama-cu.ac.jp/~kyoudou/kyoudou_wp/

    • Related Report
      2023 Annual Research Report 2022 Annual Research Report

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Published: 2021-04-28   Modified: 2025-01-30  

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