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Analysis of transcriptional kinetics of synexpression genes in a single cell

Research Project

Project/Area Number 16K15220
Research Category

Grant-in-Aid for Challenging Exploratory Research

Allocation TypeMulti-year Fund
Research Field General medical chemistry
Research InstitutionNara Institute of Science and Technology

Principal Investigator

BESSHO Yasumasa  奈良先端科学技術大学院大学, 先端科学技術研究科, 教授 (70261253)

Research Collaborator MATSUI Takaaki  
NAKAHATA Yasukazu  
SAKUMURA Yuichi  
Project Period (FY) 2016-04-01 – 2019-03-31
Project Status Completed (Fiscal Year 2018)
Budget Amount *help
¥3,640,000 (Direct Cost: ¥2,800,000、Indirect Cost: ¥840,000)
Fiscal Year 2017: ¥1,820,000 (Direct Cost: ¥1,400,000、Indirect Cost: ¥420,000)
Fiscal Year 2016: ¥1,820,000 (Direct Cost: ¥1,400,000、Indirect Cost: ¥420,000)
Keywords転写 / 発生 / 転写因子 / 同調 / Notch
Outline of Final Research Achievements

In development and morphogenesis of multicellular organisms, many genes are expressed cooperatively, thereby regulating cell growth, differentiation and movement, and forming functional tissues and organs. Thus, detecting several gene expression simultaneously in single cells and analyzing cooperativity between multiple genes are effective for revealing the mechanism of development and morphogenesis, which are regulated by gene networks. We aimed to establish a system for quantifying the transcriptional activity of multiple genes in single cells, using the synchronized gene expression that occurs in the primordium of somites as a model. We successfully detected transcriptional status of two genes in a single nucleus. We also showed that transcription occurs stochastically.

Academic Significance and Societal Importance of the Research Achievements

これまで高等生物の発生過程での遺伝子発現の解析は、組織レベルの解析がほとんどであり、1細胞ごとの転写レベルの解析は技術的困難さからほとんどおこなわれていなかった。一方で特定の遺伝子の転写は1細胞あたり2つの遺伝子座のみで起こる現象であるので、ゆらぎが大きい生命現象であることは認識されており、それを示唆するデータも得られている。本研究では同じ転写制御を受ける遺伝子(synexpressions genes:同期発現遺伝子)の1細胞内でのゆらぎを計測しようとする新しい研究である。つまり複数の同期発現遺伝子のゆらぎが同期しているか否かを明らかにしようとする新しい研究である。

Report

(4 results)
  • 2018 Annual Research Report   Final Research Report ( PDF )
  • 2017 Research-status Report
  • 2016 Research-status Report
  • Research Products

    (18 results)

All 2019 2018 2017 2016

All Journal Article (11 results) (of which Int'l Joint Research: 4 results,  Peer Reviewed: 11 results,  Open Access: 9 results) Presentation (7 results) (of which Int'l Joint Research: 5 results,  Invited: 3 results)

  • [Journal Article] Replicative senescent human cells possess altered circadian clocks with a prolonged period and delayed peak-time2019

    • Author(s)
      Rezwana Ahmed, Atsushige Ashimori, Satoshi Iwamoto, Takaaki Matsui, Yasukazu Nakahata, and Yasumasa Bessho
    • Journal Title

      Aging (Albany NY)

      Volume: 11 Issue: 3 Pages: 950-973

    • DOI

      10.18632/aging.101794

    • Related Report
      2018 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Noise-resistant developmental reproducibility in vertebrate somite formation2019

    • Author(s)
      Honda N*, Akiyama R, Sari DWK, Ishii S, Bessho Y and Matsui T
    • Journal Title

      PLoS Computational Biology

      Volume: 15(2) Issue: 2 Pages: e1006579-e1006579

    • DOI

      10.1371/journal.pcbi.1006579

    • NAID

      120006553009

    • Related Report
      2018 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] ERK Activity Dynamics during Zebrafish Embryonic Development2018

    • Author(s)
      Wong Kah-Loon、Akiyama Ryutaro、Bessho Yasumasa、Matsui Takaaki
    • Journal Title

      International Journal of Molecular Sciences

      Volume: 20 Issue: 1 Pages: 109-109

    • DOI

      10.3390/ijms20010109

    • NAID

      120006555362

    • Related Report
      2018 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Presomitic mesoderm-specific expression of the transcriptional repressorHes7is controlled by E-box, T-box, and Notch signaling pathways2018

    • Author(s)
      Hayashi Shinichi、Nakahata Yasukazu、Kohno Kenji、Matsui Takaaki、Bessho Yasumasa
    • Journal Title

      Journal of Biological Chemistry

      Volume: 293 Issue: 31 Pages: 12167-12176

    • DOI

      10.1074/jbc.ra118.003728

    • Related Report
      2018 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Size-reduced embryos reveal a gradient scaling-based mechanism for zebrafish somite formation2018

    • Author(s)
      Ishimatsu Kana、Hiscock Tom W.、Collins Zach M.、Sari Dini Wahyu Kartika、Lischer Kenny、Richmond David L.、Bessho Yasumasa、Matsui Takaaki、Megason Sean G.
    • Journal Title

      Development

      Volume: 145 Pages: 161257-161257

    • DOI

      10.1242/dev.161257

    • Related Report
      2018 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Time-lapse observation of stepwise regression of Erk activity in zebrafish presomitic mesoderm.2018

    • Author(s)
      Sari DWK, Akiyama R, Naoki H, Ishijima H, Bessho Y, Matsui T
    • Journal Title

      Scientific Reports

      Volume: 8 Issue: 1 Pages: 4335-4335

    • DOI

      10.1038/s41598-018-22619-9

    • NAID

      120006555360

    • Related Report
      2017 Research-status Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Bmal1-deficient mouse fibroblast cells do not provide premature cellular senescence in vitro2018

    • Author(s)
      Nakahata Yasukazu、Yasukawa Shiori、Khaidizar Fiqri Dizar、Shimba Shigeki、Matsui Takaaki、Bessho Yasumasa
    • Journal Title

      Chronobiology International

      Volume: 印刷中 Issue: 5 Pages: 1-9

    • DOI

      10.1080/07420528.2018.1430038

    • Related Report
      2017 Research-status Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Nicotinamide phosphoribosyltransferase delays cellular senescence by upregulating SIRT1 activity and antioxidant gene expression in mouse cells2017

    • Author(s)
      Khaidizar Fiqri D.、Nakahata Yasukazu、Kume Akira、Sumizawa Kyosuke、Kohno Kenji、Matsui Takaaki、Bessho Yasumasa
    • Journal Title

      Genes to Cells

      Volume: 22 Issue: 12 Pages: 982-992

    • DOI

      10.1111/gtc.12542

    • Related Report
      2017 Research-status Report
    • Peer Reviewed / Open Access
  • [Journal Article] Quantitative analysis of mechanical force required for cell extrusion in zebrafish embryonic epithelia.2017

    • Author(s)
      Yamada S, Iino T, Bessho Y, Hosokawa Y, Matsui T
    • Journal Title

      Biology Open

      Volume: 6 Pages: 1575-1580

    • DOI

      10.1242/bio.027847

    • Related Report
      2017 Research-status Report
    • Peer Reviewed / Open Access
  • [Journal Article] Analyzing ERK Signal Dynamics During Zebrafish Somitogenesis2017

    • Author(s)
      Matsui T, BesshoY
    • Journal Title

      Methods in Molecular Biology

      Volume: 1487 Pages: 367-378

    • DOI

      10.1007/978-1-4939-6424-6_27

    • ISBN
      9781493964222, 9781493964246
    • Related Report
      2016 Research-status Report
    • Peer Reviewed
  • [Journal Article] The circadian NAD+ metabolism: Impact on chromatin remodeling and aging.2016

    • Author(s)
      Nakahata Y, Bessho Y
    • Journal Title

      BioMed Research International

      Volume: 2016 Pages: 3208429-3208429

    • DOI

      10.1155/2016/3208429

    • Related Report
      2016 Research-status Report
    • Peer Reviewed / Open Access
  • [Presentation] THE MECHANISM OF THE BIOLOGICAL CLOCK THAT CONTROLS ANIMAL DEVELOPMENT2018

    • Author(s)
      Yasumasa Bessho
    • Organizer
      ICBMBB2018
    • Related Report
      2018 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] Developmental dynamics in the lateral line organ formation in zebrafish2017

    • Author(s)
      Bessho Y
    • Organizer
      International Conference on Biosciences (IcoBio) 2017
    • Related Report
      2017 Research-status Report
    • Int'l Joint Research / Invited
  • [Presentation] Molecular Mechanism to Lengthen the Circadian Period by Low NAD+2016

    • Author(s)
      Ashimori A, Nakahata Y, Matsui T, Bessho Y
    • Organizer
      時間生物学会
    • Place of Presentation
      名古屋大学豊田講堂、愛知県名古屋市
    • Year and Date
      2016-11-12
    • Related Report
      2016 Research-status Report
  • [Presentation] The Impact of Decrease in NAD+ with Cellular Senscence on the Period of Circadian Gene Expression2016

    • Author(s)
      Iwamoto S, Nakahata Y, Ashimoro A, Matsui T, Bessho Y
    • Organizer
      時間生物学会
    • Place of Presentation
      名古屋大学豊田講堂、愛知県名古屋市
    • Year and Date
      2016-11-12
    • Related Report
      2016 Research-status Report
  • [Presentation] Molecular Mechanism to Lengthen the Circadian Period by Low NAD+2016

    • Author(s)
      Ashimori A, Nakahata Y, Matsui T, Bessho Y
    • Organizer
      International Symposium on Biological Thythms
    • Place of Presentation
      名古屋大学豊田講堂、愛知県名古屋市
    • Year and Date
      2016-11-11
    • Related Report
      2016 Research-status Report
    • Int'l Joint Research
  • [Presentation] The Impact of Decrease in NAD+ with Cellular Senscence on the Period of Circadian Gene Expression2016

    • Author(s)
      Iwamoto S, Nakahata Y, Ashimoro A, Matsui T, Bessho Y
    • Organizer
      International Symposium on Biological Thythms
    • Place of Presentation
      名古屋大学豊田講堂、愛知県名古屋市
    • Year and Date
      2016-11-11
    • Related Report
      2016 Research-status Report
    • Int'l Joint Research
  • [Presentation] Dynamics of cellular behavior during zebrafish development2016

    • Author(s)
      Bessho Y
    • Organizer
      KRIPIK-SciFiMaS 2016 International Conference
    • Place of Presentation
      Purwokerto, Indonesia
    • Year and Date
      2016-05-26
    • Related Report
      2016 Research-status Report
    • Int'l Joint Research / Invited

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Published: 2016-04-21   Modified: 2020-03-30  

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