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Transcription coupled chromatin regulation in AID induced genome rearrangement

Research Project

Project/Area Number 24590352
Research Category

Grant-in-Aid for Scientific Research (C)

Allocation TypeMulti-year Fund
Section一般
Research Field General medical chemistry
Research InstitutionKyoto University

Principal Investigator

BEGUM NasimAra  京都大学, 医学(系)研究科(研究院), 准教授 (80362507)

Project Period (FY) 2012-04-01 – 2015-03-31
Project Status Completed (Fiscal Year 2014)
Budget Amount *help
¥5,330,000 (Direct Cost: ¥4,100,000、Indirect Cost: ¥1,230,000)
Fiscal Year 2014: ¥1,690,000 (Direct Cost: ¥1,300,000、Indirect Cost: ¥390,000)
Fiscal Year 2013: ¥1,950,000 (Direct Cost: ¥1,500,000、Indirect Cost: ¥450,000)
Fiscal Year 2012: ¥1,690,000 (Direct Cost: ¥1,300,000、Indirect Cost: ¥390,000)
KeywordsAID / SHM / CSR / H3K4me3 / FACT / SPT6 / BRD4 / UNG / TOP1 / Genomic instability
Outline of Final Research Achievements

AID is the key enzyme required for antibody gene diversification by mutation (SHM) and recombination (CSR). AID induced SHM and CSR of transcriptionally active Ig heavy chain locus (IgH) occur via complex DNA cleavage and recombination. The study aimed to explore transcription-coupled chromatin features involved in AID induced genomic rearrangements. It revealed that the AID target loci that undergo DNA break are enriched with SPT6, FACT, H3K4me3 and H3.3. While SPT6 and FACT like histone chaperones are required for the epigenetic integrity of the AID target loci, SPT6 is specifically required for the AID locus for its expression. Moreover, H4 acetyl reader BRD4 promoted recombination phase of CSR by recruiting critical DNA repair proteins, UNG and 53BP1. Therefore, target loci associated histone epigenetic marks and specialized chromatin proteins are playing important role in AID induced genomic instability regulation.

Report

(4 results)
  • 2014 Annual Research Report   Final Research Report ( PDF )
  • 2013 Research-status Report
  • 2012 Research-status Report
  • Research Products

    (25 results)

All 2015 2014 2013 2012

All Journal Article (12 results) (of which Peer Reviewed: 12 results,  Open Access: 1 results) Presentation (11 results) (of which Invited: 2 results) Book (2 results)

  • [Journal Article] Identification of DNA cleavage- and recombination-specific hnRNP co-factors for Activation-induced cytidine deaminase.2015

    • Author(s)
      Hu W, Begum NA, Mondal S, Stanlie A and Honjo T
    • Journal Title

      Proc Natl Acad Sci U S A

      Volume: in press Issue: 18 Pages: 5791-5796

    • DOI

      10.1073/pnas.1506167112

    • Related Report
      2014 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Chromatin reader Brd4 functions in Ig class switching as a repair complex adaptor of nonhomologous end-joining2014

    • Author(s)
      Stanlie A, Yousif AS, Akiyama H, Honjo T and Begum NA.
    • Journal Title

      Molecular Cell

      Volume: 55(1) Issue: 1 Pages: 97-110

    • DOI

      10.1016/j.molcel.2014.05.018

    • Related Report
      2014 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Opinion: uracil DNA glycosylase (UNG) plays distinct and non-canonical roles in somatic hypermutation and class switch recombination.2014

    • Author(s)
      Yousif AS, Stanlie A, Begum NA and Honjo T
    • Journal Title

      International Immunology

      Volume: 26(10) Issue: 10 Pages: 575-578

    • DOI

      10.1093/intimm/dxu071

    • Related Report
      2014 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Differential regulation of S-region hypermutation and class-switch recombination by noncanonical functions of uracil DNA glycosylase2014

    • Author(s)
      Yousif AS, Stanlie A, Mondal S, Honjo T, Begum NA.
    • Journal Title

      Proc Natl Acad Sci USA

      Volume: 111 Issue: 11

    • DOI

      10.1073/pnas.1402391111

    • Related Report
      2013 Research-status Report
    • Peer Reviewed
  • [Journal Article] C-terminal region of activation-induced cytidine deaminase (AID) is required for efficient class switch recombination and gene conversion.2014

    • Author(s)
      Sabouri S, Kobayashi M, Begum NA, Xu J, Hirota K, Honjo T
    • Journal Title

      Proc Natl Acad Sci U S A.

      Volume: 111 Issue: 6 Pages: 2253-2258

    • DOI

      10.1073/pnas.1324057111

    • NAID

      120005395696

    • Related Report
      2013 Research-status Report
    • Peer Reviewed
  • [Journal Article] Accumulation of the FACT complex, as well as histone H3.3, serves as a target marker for somatic hypermutation2013

    • Author(s)
      Aida M, Hamad N, Stanlie A, Begum NA, Honjo T.
    • Journal Title

      Proc Natl Acad Sci USA

      Volume: 110 Issue: 19 Pages: 7784-9

    • DOI

      10.1073/pnas.1305859110

    • Related Report
      2013 Research-status Report
    • Peer Reviewed
  • [Journal Article] The AID Dilemma: Infection, or Cancer?2013

    • Author(s)
      Tasuku Honjo, Maki Kobayashi, Nasim Begum, Ai Kotani, Somayeh Sabour and Hitoshi Nagaoka
    • Journal Title

      Adv Cancer Res

      Volume: vol.113 Pages: 1-44

    • DOI

      10.1016/b978-0-12-394280-7.00001-4

    • ISBN
      9780123942807
    • Related Report
      2012 Research-status Report
    • Peer Reviewed
  • [Journal Article] The histone chaperone Spt6 is required for activation-induced cytidine deaminase target determination through H3K4me3 regulation.2012

    • Author(s)
      Begum NA
    • Journal Title

      J Biol Chem.

      Volume: 287 Issue: 39 Pages: 32415-29

    • DOI

      10.1074/jbc.m112.351569

    • Related Report
      2012 Research-status Report
    • Peer Reviewed
  • [Journal Article] Evolutionary comparison of the mechanism of DNA cleavage with respect to immune diversity and genomic instability.2012

    • Author(s)
      Begum NA
    • Journal Title

      Biochemistry

      Volume: 51 Pages: 5243-56

    • Related Report
      2012 Research-status Report
    • Peer Reviewed
  • [Journal Article] The DSIF subunits Spt4 and Spt5 have distinct roles at various phases of immunoglobulin class switch recombination.2012

    • Author(s)
      Stanlie A
    • Journal Title

      PLoS Genet.

      Volume: 8 Issue: 4 Pages: 1-11

    • DOI

      10.1371/journal.pgen.1002675

    • Related Report
      2012 Research-status Report
    • Peer Reviewed
  • [Journal Article] An evolutionary view of the mechanism for immune and genome diversity2012

    • Author(s)
      Lucia Kato, Andre Stanlie, Nasim A Begum, Maki Kobayashi, Masatoshi Aida, Tasuku Honjo
    • Journal Title

      J Immunol

      Volume: vol. 188 Issue: 8 Pages: 3559-3566

    • DOI

      10.4049/jimmunol.1102397

    • Related Report
      2012 Research-status Report
    • Peer Reviewed
  • [Journal Article] Nonimmunoglobulin target loci of activation-induced cytidine deaminase (AID) share unique features with immunoglobulin genes.2012

    • Author(s)
      Kato L
    • Journal Title

      Proc Natl Acad Sci U S A

      Volume: 14 Issue: 7 Pages: 2479-84

    • DOI

      10.1073/pnas.1120791109

    • Related Report
      2012 Research-status Report
    • Peer Reviewed
  • [Presentation] Co-factors of AID function: hnRNP K for DNA cleavage and hnRNP L for recombination2014

    • Author(s)
      Wenjun Hu, Nasim Begum and Tasuku Honjo
    • Organizer
      The 43rd Annual Meeting of the Japanese Society for Immunology
    • Place of Presentation
      Kyoto
    • Year and Date
      2014-12-10 – 2014-12-12
    • Related Report
      2014 Annual Research Report
  • [Presentation] Chromatin reader Brd4 functions in Ig class switching as a repair complex adaptor of nonhomologous end-joining2014

    • Author(s)
      Andre Stanlie, Ashraf S. Yousif, Honjo Tasuku and Nasim A. Begum
    • Organizer
      The 43rd Annual Meeting of the Japanese Society for Immunology
    • Place of Presentation
      Kyoto
    • Year and Date
      2014-12-10 – 2014-12-12
    • Related Report
      2014 Annual Research Report
  • [Presentation] Differential regulation of S region hypermutation and class switch recombination by non-canonical functions of uracil DNA glycosylase2014

    • Author(s)
      Ashraf S. Yousif, Andre Stanlie, Samiran Mondal, Honjo Tasuku and Nasim A. Begum
    • Organizer
      The 43rd Annual Meeting of the Japanese Society for Immunology
    • Place of Presentation
      Kyoto
    • Year and Date
      2014-12-10 – 2014-12-12
    • Related Report
      2014 Annual Research Report
  • [Presentation] Analysis of Top1-chromatin complex reveals the mechanism of AID induced genomic instability2014

    • Author(s)
      Afzal Husain, Nasim A. Begum, Maki Kobayashi and Tasuku Honjo
    • Organizer
      Gordon Research Conference: Genomic Instability-Mechanisms
    • Place of Presentation
      Hong Kong
    • Year and Date
      2014-07-06 – 2014-07-11
    • Related Report
      2014 Annual Research Report
  • [Presentation] The Non-Canonical function of UNG in AID induced Antibody Gene Diversification2013

    • Author(s)
      Ashraf S. Yousif, Nasim A. Begum and Tasuku Honjo
    • Organizer
      15th ICI (International Congress of Immunology). Milan, Italy
    • Place of Presentation
      Session B cell development and plasma cell differentiation
    • Related Report
      2013 Research-status Report
  • [Presentation] Dynamic Interplay of Transcription Elongation Factors and Histone Modifications in regulating B cells Class Switch Recombination2013

    • Author(s)
      Andre Stanlie, Nasim A. Begum and Tasuku Honjo
    • Organizer
      SIgN-IFREC Immunology Winter School. Singapore
    • Place of Presentation
      Immunology
    • Related Report
      2013 Research-status Report
  • [Presentation] Antibody gene diversification by AID requires specialized chromatin regulators2013

    • Author(s)
      Nasim A. Begum, Andre Stanlie, Masatoshi Aida and Tasuku Honjo
    • Organizer
      World Congress on Advances in Oncology & International Symposium on Molecular Medicine. Crete, Greece.
    • Place of Presentation
      Immunology & Molecular Oncology
    • Related Report
      2013 Research-status Report
    • Invited
  • [Presentation] Chromatin adapter Brd4 serves as a repair platform for immunoglobulin class switch recombination2013

    • Author(s)
      Nasim A. Begum, Andre Stanlie, Masatoshi Aida and Tasuku Honjo
    • Organizer
      42nd JSI Annual Meeting. Chiba, Japan
    • Place of Presentation
      Immunoglobulin gene diversification
    • Related Report
      2013 Research-status Report
  • [Presentation] The Non-Canonical function of UNG plays distinct roles in SHM and CSR2013

    • Author(s)
      Ashraf S. Yousif, Nasim A. Begum and Tasuku. Honjo
    • Organizer
      42nd JSI Annual Meeting. Chiba, Japan
    • Place of Presentation
      Immunoglobulin gene diversification
    • Related Report
      2013 Research-status Report
  • [Presentation] Role of Histone Chaperones in AID Induced Antibody Gene Diversification2012

    • Author(s)
      Nasim A. Begum
    • Organizer
      World DNA and Genome Day (3rd WDD-2012)
    • Place of Presentation
      Xi’an, China
    • Related Report
      2012 Research-status Report
    • Invited
  • [Presentation] Distinct role of UNG in antibody class switch recombination and somatic hypermutation2012

    • Author(s)
      Nasim A. Begum
    • Organizer
      The 8th 3R Symposium
    • Place of Presentation
      Awaji, Japan
    • Related Report
      2012 Research-status Report
  • [Book] Molecular Biology of B Cells. Chapter18 (Molecular mechanism of AID function)2015

    • Author(s)
      Begum NA Nagaoka H, Kobayashi M and Honjo T
    • Publisher
      ESLVIER, Academic Press
    • Related Report
      2014 Annual Research Report
  • [Book] Mol2014

    • Author(s)
      Begum Nasim Ara
    • Publisher
      Nol.
    • Related Report
      2013 Research-status Report

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Published: 2013-05-31   Modified: 2021-04-07  

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