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Dystrophin intron retention analysis to identify new targets for Antisense Oligonucleotide mediated RNA modulation in Rhabdomyosarcoma

Research Project

Project/Area Number 16K07216
Research Category

Grant-in-Aid for Scientific Research (C)

Allocation TypeMulti-year Fund
Section一般
Research Field Medical genome science
Research InstitutionKobe University (2017-2018)
Kobe Gakuin University (2016)

Principal Investigator

NIBA TABE EMMA EKO  神戸大学, 医学研究科, 助教 (00727810)

Co-Investigator(Kenkyū-buntansha) 松尾 雅文  神戸学院大学, 総合リハビリテーション学部, 特命教授 (10157266)
Research Collaborator AWANO HIROYUKI  
NISHIMURA NORIYUKI  
Project Period (FY) 2016-04-01 – 2019-03-31
Project Status Completed (Fiscal Year 2018)
Budget Amount *help
¥4,940,000 (Direct Cost: ¥3,800,000、Indirect Cost: ¥1,140,000)
Fiscal Year 2018: ¥1,300,000 (Direct Cost: ¥1,000,000、Indirect Cost: ¥300,000)
Fiscal Year 2017: ¥1,950,000 (Direct Cost: ¥1,500,000、Indirect Cost: ¥450,000)
Fiscal Year 2016: ¥1,690,000 (Direct Cost: ¥1,300,000、Indirect Cost: ¥390,000)
KeywordsSplicing、 / Intron retention, / Dystrophin, / Antisense oligo, / Rhabdomyosarcoma / splicing, / intron retention, / dystrophin, / antisense chemistry, / rhabdomyosarcoma, / tumor, / tumor suppressor gene, / Dystrophin / Intron retention / Splicing / AO therapy
Outline of Final Research Achievements

Dystrophin is regarded as a potential tumor suppressor gene because it was shown to be mutated in a variety of rhabdomyosarcoma and DMD patients sometimes develop some kind of tumors. Therefore, this project was intended to understand the significance of dystrophin as a tumor suppressor in rhabdomyosarcoma.
In this project, the applicants showed that dystrophin intron retention was an important factor of rhabdomyosarcoma formation. They next, designed an antisense oligonucleotide to target the removal of this retained intron. Abolishment of the retained intron was successful. In addition, they showed that abolishing intron retention, increased dystrophin production of a carboxyl-terminal dystrophin isoform. Moreover, the cell proliferation of the rhabdomyosarcoma reduced drastically when intron retention was abolished.
They equally demonstrated the cell specificity, sensitivity and specie specificity of the antisense oligonucleotide. This is antisense could be potential drug for RMS

Academic Significance and Societal Importance of the Research Achievements

This project will be the first of its kind to use DMD Intron retention (IR) analysis to search for new therapeutic targets in Rhabdomyosarcoma (RMS. It will advance the scientific knowledge of DMD genetic impact on RMS formation, IR as a novel mechanism of RMS formation and Antisense therapy in RMS.

Report

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

    (16 results)

All 2018 2017 2016

All Journal Article (9 results) (of which Int'l Joint Research: 5 results,  Peer Reviewed: 6 results,  Open Access: 7 results,  Acknowledgement Compliant: 1 results) Presentation (7 results) (of which Int'l Joint Research: 5 results)

  • [Journal Article] Detection of Dystrophin Dp71 in Human Skeletal Muscle Using an Automated Capillary Western Assay System2018

    • Author(s)
      Kawaguchi T*, Niba ETE*, Rani AQM, Onishi Y, Koizumi M, Awano
    • Journal Title

      International Journal of Molecular Science

      Volume: 19 (6) Issue: 6 Pages: 1546-1546

    • DOI

      10.3390/ijms19061546

    • NAID

      120006496733

    • Related Report
      2018 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Intron-retained transcripts of the spinal muscular atrophy genes, SMN1 and SMN2.2018

    • Author(s)
      Harahap NIF, Niba ETE, Ar Rochmah M, Wijaya YOS, Saito T, Saito K, Awano H, Morioka I, Iijima K, Lai PS, Matsuo M, Nishio H, Shinohara M.
    • Journal Title

      Brain & Devwlopment

      Volume: 40 Issue: 8 Pages: 670-677

    • DOI

      10.1016/j.braindev.2018.03.001

    • Related Report
      2018 Annual Research Report 2017 Research-status Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] DMD transcripts in CRL-2061 rhabdomyosarcoma cells show high levels of intron retention by intron-specific PCR amplification2017

    • Author(s)
      Niba ETE, Yamanaka R, Rani AQM, Awano H, Matsumoto M, Nishio H, Matsuo M
    • Journal Title

      Cancer Cell international

      Volume: 17 Issue: 1 Pages: 58-73

    • DOI

      10.1186/s12935-017-0428-4

    • NAID

      120006373783

    • Related Report
      2017 Research-status Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] New, improved version of the mCOP-PCR screening system for detection of spinal muscular atrophy Gene (SMN1) deletion.2017

    • Author(s)
      Shinohara M, Ar Rochmah M, Nakanishi K, Harahap NIF, Niba ETE, Saito T, Saito K, Takeuchi A, Bouike Y, Nishio H
    • Journal Title

      Kobe J Med Sci

      Volume: 63(2)

    • Related Report
      2017 Research-status Report
    • Open Access
  • [Journal Article] Genetic screening of spinal muscular atrophy using a real-time modified COP-PCR technique with dried blood-spot DNA2017

    • Author(s)
      Ar Rochmah M, Harahap NIF, Niba ETE, Nakanishi K, Awano H, Morioka I, Iijima K, Saito T, Saito K, Lai PS, Takeshima Y, Takeuchi A, Bouike Y, Okamoto M, Nishio H, Shinohara M
    • Journal Title

      Brain Dev.

      Volume: 39(9) Issue: 9 Pages: 774-782

    • DOI

      10.1016/j.braindev.2017.04.015

    • Related Report
      2017 Research-status Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] SMA diagnosis: Detection of SMN1 deletion with real-time mCOP-PCR system using fresh blood DNA2017

    • Author(s)
      Niba ETE, Ar Rochmah M, Harahap NIF, Awano H, Morioka I, Iijima K, Saito T, Saito K, Takeuchi A, Lai PS, Bouike Y, Nishio H, Shinohara M.
    • Journal Title

      Kobe J Med Sci

      Volume: 63(3)

    • NAID

      120006373838

    • Related Report
      2017 Research-status Report
    • Open Access
  • [Journal Article] Gender effects on the clinical phenotype in Japanese patients with spinal muscular atrophy.2017

    • Author(s)
      Ar Rochmah M, Shima A, Harahap NIF, Niba ETE, Morisada N, Yanagisawa S, Saito T, Kaneko K, Saito K, Morioka I, Iijima K, Lai PS, Bouike Y, Nishio H, Shinohara M
    • Journal Title

      Kobe J Med Sci

      Volume: 63(2)

    • Related Report
      2017 Research-status Report
    • Open Access
  • [Journal Article] Cryptic splice activation but not exon skipping is observed in minigene assays of dystrophin c.9361+1G4A mutation identified by NGS2017

    • Author(s)
      Emma Tabe Eko Niba
    • Journal Title

      Journal of Human Genetics

      Volume: 1-7 Issue: 5 Pages: 531-537

    • DOI

      10.1038/jhg.2016.162

    • Related Report
      2016 Research-status Report
    • Peer Reviewed / Int'l Joint Research
  • [Journal Article] DMD transcripts in CRL-2061 rhabdomyosarcoma cells show high levels of intron retention by intron-specific PCR amplification2017

    • Author(s)
      Emma Tabe Eko Niba
    • Journal Title

      Cancer cell International

      Volume: -

    • Related Report
      2016 Research-status Report
    • Peer Reviewed / Acknowledgement Compliant
  • [Presentation] DMD transcription profiling in spontaneously developed tumor from three mdx mice revealed extensive intron retentions and Dp71 isoform expression2018

    • Author(s)
      Emma E.T. Niba, Noriyuki Nishimura, Satoru Takafuji, Khin Kyae Mon Thwin, Nobuyuki Yamamoto, Hiroyuki Awano, Shoji Fukushima, Kyoko Itoh, Hisahide Nishio, Masafumi Matsuo
    • Organizer
      American Society of Cell Biology
    • Related Report
      2018 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Glioma from a DMD patient exhibits differential splicing pattern including exon 71 skipping and intron 40 retention2018

    • Author(s)
      : Emma E.T. Niba, Hiroyuki Awano, Masashi Nagai, Masaaki Taniguchi, Rani Adul Qawee, Masakazu Shinohara, Hisahide Nishio, Masafumi Matsuo
    • Organizer
      Molecular Biology Society of Japan
    • Related Report
      2018 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Spontaneous development of spindle cell sarcoma in mdx mice2018

    • Author(s)
      : Satoru Takafuji, Emma Niba, Khin Kyae Mon Thwin, Nobuyuki Yamamoto, Hiroyuki Awano, Suguru Uemura, Takeshi Mori, Shoji Fukushima, Kyoko Itoh, Hisahide Nishio, Masafumi Matsuo, Kazumoto Iijima, Noriyuki Nishimura
    • Organizer
      International Society of Pediatric Oncology
    • Related Report
      2018 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Dystrophin Dp427 is lost due to multiple DMD intron retentions in rhabdomyosarcoma CRL-2061 cells2017

    • Author(s)
      Emma Tabe Eko Niba1,3, Ryo Yamanaka1, Abdul Qawee Mahyoob Rani1, Hiroyuki Awano2, Masaaki Matsumoto2, Hisahide Nishio3, Masafumi Matsuo1
    • Organizer
      22nd international congress of the WORLD MUSCLE SOCIETY
    • Related Report
      2017 Research-status Report
    • Int'l Joint Research
  • [Presentation] Multi-intron retentions in DMD transcripts in CRL-2061 rhabdomyosarcoma cells identified by intron specific RT-PCR amplification2017

    • Author(s)
      Emma Tabe Eko Niba1,2, Ryo Yamanaka2, Abdul Qawee Mahyoob Rani2, Hiroyuki Awano3, Masaaki Matsumoto3, Hisahide Nishio1, Masafumi Matsuo2
    • Organizer
      Japan Society of Human Genetics
    • Related Report
      2017 Research-status Report
  • [Presentation] Irregular transcription of the dystrophin gene in colon cancer HCT-116 cell line: no conventional transcript but 6 transcripts with intron retention out of 9 examined short introns2016

    • Author(s)
      Emma Tabe Eko Niba
    • Organizer
      Molecular Biology Society of Japan
    • Place of Presentation
      Yokohama
    • Year and Date
      2016-11-30
    • Related Report
      2016 Research-status Report
  • [Presentation] Cryptic splice site activation by a splice donor site mutation of dystrophin intron 64 is determined by intronic splicing regulatory elements2016

    • Author(s)
      Emma Tabe Eko Niba
    • Organizer
      21st international congress of the WORLD MUSCLE SOCIETY
    • Place of Presentation
      Granada - Spain
    • Year and Date
      2016-10-04
    • Related Report
      2016 Research-status Report
    • Int'l Joint Research

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

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