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Proteomic analysis of IgA-deposits on glomeruli of biopsy samples of IgA nephropathy

Research Project

Project/Area Number 25461212
Research Category

Grant-in-Aid for Scientific Research (C)

Allocation TypeMulti-year Fund
Section一般
Research Field Kidney internal medicine
Research InstitutionNiigata University

Principal Investigator

Yoshida Yutaka  新潟大学, 研究推進機構, 特任専門職員 (40182795)

Co-Investigator(Kenkyū-buntansha) YAOITA Eishin  新潟大学, 大学院医歯学総合研究科, 准教授 (00157950)
YAMAMOTO Tadashi  新潟大学, 産学地域連携推進機構, 特任教授 (30092737)
Project Period (FY) 2013-04-01 – 2016-03-31
Project Status Completed (Fiscal Year 2015)
Budget Amount *help
¥4,810,000 (Direct Cost: ¥3,700,000、Indirect Cost: ¥1,110,000)
Fiscal Year 2015: ¥1,170,000 (Direct Cost: ¥900,000、Indirect Cost: ¥270,000)
Fiscal Year 2014: ¥2,600,000 (Direct Cost: ¥2,000,000、Indirect Cost: ¥600,000)
Fiscal Year 2013: ¥1,040,000 (Direct Cost: ¥800,000、Indirect Cost: ¥240,000)
KeywordsIgA腎症 / IgA免疫複合体 / 凍結腎生検標本 / 単離糸球体 / スリット膜 / EMARS法 / プロテオミクス / 腎臓学 / 糸球体
Outline of Final Research Achievements

EMARS method can label proteins in the immediate vicinity of a target membrane protein with fluorescein without destruction of cells or tissue integrity. We aimed to identify IgA deposits on glomerulus of biopsy samples of patients with IgA nephropathy bur found problems in specificity of labeling and low recovery of proteins. We, therefore, used glomeruli highly purified from rat kidneys and nephrin as a target protein to improve EMARS method. By using fluorescein-tyramide as a labeling reagent, labeling specificity was much improved and we succeeded in identification of many membrane proteins associates with nephrin in the slit diaphragm, but also find a low recovery and low specificity of labeled proteins in the step of collection of labeled proteins.

Report

(4 results)
  • 2015 Annual Research Report   Final Research Report ( PDF )
  • 2014 Research-status Report
  • 2013 Research-status Report
  • Research Products

    (32 results)

All 2016 2015 2014 2013 2012 Other

All Journal Article (12 results) (of which Int'l Joint Research: 3 results,  Peer Reviewed: 12 results,  Acknowledgement Compliant: 7 results,  Open Access: 6 results) Presentation (16 results) (of which Invited: 2 results) Remarks (4 results)

  • [Journal Article] Avian podocytes, which lack nephrin, use adherens junction proteins at intercellular junctions.2016

    • Author(s)
      Yaoita E, Nishimura H, Nameta M, Yoshida Y, Takimoto H, Fujinaka H, Kawachi H, Magdeldin S, Zhang Y, Xu B, Oyama T, Nakamura F, Yamamoto T
    • Journal Title

      J Histchem Cytochem

      Volume: 64 Issue: 1 Pages: 67-76

    • DOI

      10.1369/0022155415611708

    • Related Report
      2015 Annual Research Report
    • Peer Reviewed / Acknowledgement Compliant
  • [Journal Article] Unrestricted modification search reveals lysine methylation as major modification induced b tissue formalin fixation and paraffin embedding.2015

    • Author(s)
      Zhang Y, Muller M, Xu B, Yoshida Y, Horlacher O, Nikitin F, Garessus S, Magdeldin S, Kinoshita N, Fujinaka H, Yaoita E, Hasegawa M, Lisacek F, Yamamoto T
    • Journal Title

      Proteomics

      Volume: 15 Issue: 15 Pages: 2568-2579

    • DOI

      10.1002/pmic.201400454

    • Related Report
      2015 Annual Research Report
    • Peer Reviewed / Int'l Joint Research / Acknowledgement Compliant
  • [Journal Article] Label-free quantitative proteomic analysis reveals strong involvement of complement alternative and terminal pathways in human glomerular sclerotic lesions.2015

    • Author(s)
      Zhang Y, Xu B, Kinoshita N, Yoshida Y, Tasaki M, Fujinaka H, Magdeldin S, Yaoita E, Yamamoto T.
    • Journal Title

      J Proteomics.

      Volume: 123 Pages: 89-100

    • DOI

      10.1016/j.jprot.2015.03.024

    • Related Report
      2015 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Complementary protein and peptide OFFGEL fractionation for high-throughput proteomic analysis.2015

    • Author(s)
      Magdeldin S, Elguoshy A, Yoshida Y, Hirao Y, Xu B, Zhang Y, Yamamoto K, Takimoto H, Fujinaka H, Kinoshita N, Yamamoto T
    • Journal Title

      Anal Chem

      Volume: 87 Pages: 8481-8488

    • Related Report
      2015 Annual Research Report
    • Peer Reviewed / Int'l Joint Research / Acknowledgement Compliant
  • [Journal Article] Datasets from label-free quantitative proteomic analysis of human glomeruli with sclerotic lesions.2015

    • Author(s)
      Zhang Y, Xu B, Kinoshita N, Yoshida Y, Tasaki M, Fujinaka H, Magdeldin S, Yaoita E, Yamamoto T
    • Journal Title

      Data Brief

      Volume: 4 Pages: 180-185

    • DOI

      10.1016/j.dib.2015.05.013

    • Related Report
      2015 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research / Acknowledgement Compliant
  • [Journal Article] Exploring extra-cellular proteins in methicillin susceptible and methicillin resistant Staphylococcus aureus by liquid chromatography-tandem mass spectrometry.2014

    • Author(s)
      Enany S, Yoshida Y, Yamamoto T
    • Journal Title

      World J Microbiol Biotechnol

      Volume: 30 Pages: 1269-1283

    • Related Report
      2014 Research-status Report
    • Peer Reviewed / Open Access
  • [Journal Article] Heparin increasing podocyte-specific gene expressions.2014

    • Author(s)
      Yaoita E, Yoshida Y, Nameta M, Zhang Y, Fujinaka H, Magdeldin S, Xu B, Yamamoto T.
    • Journal Title

      Nephrology (Carlton)

      Volume: 19 Issue: 4 Pages: 195-201

    • DOI

      10.1111/nep.12207

    • Related Report
      2014 Research-status Report 2013 Research-status Report
    • Peer Reviewed / Open Access / Acknowledgement Compliant
  • [Journal Article] Deep proteome mapping of mouse kidney based on OFFGel prefractionation reveals remarkable protein post- translational modifications.2014

    • Author(s)
      Magdeldin S, Yamamoto K, Yoshida Y, Xu B, Zhang Y, Fujinaka H, Yaoita E, Yates JR 3rd, Yamamoto T
    • Journal Title

      J Proteome Res.

      Volume: 13 Issue: 3 Pages: 1636-46

    • DOI

      10.1021/pr401122m

    • Related Report
      2014 Research-status Report 2013 Research-status Report
    • Peer Reviewed / Open Access / Acknowledgement Compliant
  • [Journal Article] .Basics and recent advances of two dimensional- polyacrylamide gel electrophoresis2014

    • Author(s)
      Magdeldin S, Enany S, Yoshida Y, Xu B, Zhang Y, Zureena Z, Lokamani I, Yaoita E, Yamamoto T
    • Journal Title

      Clin Proteomics

      Volume: 11 Issue: 1 Pages: 16-16

    • DOI

      10.1186/1559-0275-11-16

    • Related Report
      2014 Research-status Report
    • Peer Reviewed / Open Access / Acknowledgement Compliant
  • [Journal Article] Tor and the Sin3-Rpd3 complex regulate expression of the mitophagy receptor protein Atg32 in yeast.2014

    • Author(s)
      Aihara M, Jin X, Kurihara Y, Yoshida Y, Matsushima Y, Oku M, Hirota Y, Saigusa T, Aoki Y, Uchiumi T, Yamamoto T, Sakai Y, Kang D, Kanki T.
    • Journal Title

      Journal of Cell Science

      Volume: 127 Pages: 3184-96

    • DOI

      10.1242/jcs.153254

    • Related Report
      2014 Research-status Report
    • Peer Reviewed / Open Access
  • [Journal Article] Profiling and annotation of human kidney glomerulus proteome2013

    • Author(s)
      Cui Z, Yoshida Y, Xu B, Zhang Y, Nameta M, Magdeldin S, Makiguchi T, Ikoma T, Fujinaka H, Yaoita E, Yamamoto T
    • Journal Title

      Proteome Sci

      Volume: 11 Issue: 1 Pages: 13-13

    • DOI

      10.1186/1477-5956-11-13

    • Related Report
      2013 Research-status Report
    • Peer Reviewed
  • [Journal Article] Profiling of kidney vascular endothelial cell plasma membrane proteins by liquid chromatography-tandem mass spectrometry2012

    • Author(s)
      Liu Z, Xu B, Nameta M, Zhang Y, Magdeldin S, Yoshida Y, Yamamoto K, Fujinaka H, Yaoita E, Tasaki M, Nakagawa Y, Saito K, Takahashi K, Yamamoto T
    • Journal Title

      Clin Exp Nephrol

      Volume: 掲載予定 Issue: 3 Pages: 327-337

    • DOI

      10.1007/s10157-012-0708-1

    • NAID

      10031184238

    • Related Report
      2013 Research-status Report
    • Peer Reviewed
  • [Presentation] EMARS法によるタンパク質複合体解析:腎糸球体上皮細胞足突起間接着装置を構成するタンパク質群の同定2016

    • Author(s)
      吉田 豊,瀧本裕基,小谷典弘,矢尾板永信
    • Organizer
      日本プロテオーム学会2016年年会
    • Place of Presentation
      東京都港区 北里大学
    • Year and Date
      2016-07-28
    • Related Report
      2015 Annual Research Report
  • [Presentation] 培養ポドサイトおける一次突起の誘導2016

    • Author(s)
      矢尾板永信,吉田 豊,瀧本裕基
    • Organizer
      第59回日本腎臓学会学術総会
    • Place of Presentation
      横浜市 パシフィコ横浜
    • Year and Date
      2016-06-17
    • Related Report
      2015 Annual Research Report
  • [Presentation] EMARS法を用いたポドサイトの細胞間接着装置の網羅的解析2016

    • Author(s)
      瀧本裕基,河内 裕,吉田 豊,矢尾板永信
    • Organizer
      第59回日本腎臓学会学術総会
    • Place of Presentation
      横浜市 パシフィコ横浜
    • Year and Date
      2016-06-17
    • Related Report
      2015 Annual Research Report
  • [Presentation] Comparable pathway analysis of IgA nephoritis glomeruli with normal one base on SWATH approach.2014

    • Author(s)
      Xu B, Zhang Y, Liu Y, Yoshida Y, Magdeldin S, Fujinaka H, Yaoita E, Abersold R, Yamamoto T
    • Organizer
      HUPO 13th Annual World Congress
    • Place of Presentation
      Madrid, Spain
    • Year and Date
      2014-10-05 – 2014-10-08
    • Related Report
      2014 Research-status Report
    • Invited
  • [Presentation] Deep proteome mapping of mouse kidney based on OFFGEL prefractionation reveals remarkable protein post-translational modifications2014

    • Author(s)
      Magdeldin S, Yamamoto K, Yoshida Y, Xu B, Zhang Y, Fujinaka H, Yaoita E, Yates J,Yamamoto T
    • Organizer
      HUPO 13th Annual World Congress
    • Place of Presentation
      Madrid, Spain
    • Year and Date
      2014-10-05 – 2014-10-08
    • Related Report
      2014 Research-status Report
  • [Presentation] Liquid chromatography and mass spectrometry for comparing clinical isolates of MRSA and MSSA2014

    • Author(s)
      Enany S, Yoshida Y, Magdeldin S, Yamamoto T
    • Organizer
      HUPO 13th Annual World Congress
    • Place of Presentation
      Madrid, Spain
    • Year and Date
      2014-10-05 – 2014-10-08
    • Related Report
      2014 Research-status Report
  • [Presentation] HPPに向けてのHKUPPの取り組み2014

    • Author(s)
      吉田 豊、山本 格
    • Organizer
      日本プロテオーム学会2014年会(JHUPO第12回大会)
    • Place of Presentation
      つくば国際会議場(茨城県つくば市)
    • Year and Date
      2014-07-16 – 2014-07-18
    • Related Report
      2014 Research-status Report
    • Invited
  • [Presentation] 3つの異なるプラットフォームでのSWATHデータ解析結果の比較2014

    • Author(s)
      許 波、張 エイ、吉田 豊、藤中 秀彦、矢尾板 永信、Yansheng Liu, Ruedi Aebersold, 山本 格
    • Organizer
      日本プロテオーム学会2014年会(JHUPO第12回大会)
    • Place of Presentation
      つくば国際会議場(茨城県つくば市)
    • Year and Date
      2014-07-16 – 2014-07-18
    • Related Report
      2014 Research-status Report
  • [Presentation] Profiling and annotation of human kidney glomerulus proteome.2014

    • Author(s)
      吉田 豊、崔 珍玉、許 波、藤中 秀彦、矢尾板 永信、山本 格
    • Organizer
      第57回日本腎臓学会学術集会
    • Place of Presentation
      パシフィコ横浜(横浜市西区)
    • Year and Date
      2014-07-04 – 2014-07-06
    • Related Report
      2014 Research-status Report
  • [Presentation] 質量分析計と抗体の両者で同定された高信頼ヒト糸球体プロテオーム2014

    • Author(s)
      行田 正晃、吉田 豊、矢尾板 永信、許 波、張 エイ、山本 格
    • Organizer
      第57回日本腎臓学会学術集会
    • Place of Presentation
      パシフィコ横浜(横浜市西区)
    • Year and Date
      2014-07-04 – 2014-07-06
    • Related Report
      2014 Research-status Report
  • [Presentation] 質量分析計と免疫組織化学によるヒト糸球体プロテオームデータベースの比較2013

    • Author(s)
      行田正明、吉田 豊、矢尾板永信、許 波、張 エイ、山本 格
    • Organizer
      第56回日本腎臓学会学術総会
    • Place of Presentation
      東京国際フォーラム(東京都千代田区)
    • Related Report
      2013 Research-status Report
  • [Presentation] ラット足細胞初代培養系におけるヘパリンの効果(2)2013

    • Author(s)
      矢尾板永信、吉田 豊、山本 格
    • Organizer
      第56回日本腎臓学会学術総会
    • Place of Presentation
      東京国際フォーラム(東京都千代田区)
    • Related Report
      2013 Research-status Report
  • [Presentation] Proteomic analysis of nephron segments of formalin-fixed paraffin-embedded human kidney tissues.2013

    • Author(s)
      Yamamoto T, Yamamoto K, Yoshida Y, Xu B, Zhang Y, Magdeldin S
    • Organizer
      HUPO 12th Annual World Congress
    • Place of Presentation
      パシフィコ横浜(横浜市西区)
    • Related Report
      2013 Research-status Report
  • [Presentation] High confident human glomerulus proteome identified both by mass spectrometry- and antibody-based proteomics.2013

    • Author(s)
      Nameta M, Yoshida Y, Zhang Y, Xu B, Magdeldin S
    • Organizer
      HUPO 12th Annual World Congress
    • Place of Presentation
      パシフィコ横浜(横浜市西区)
    • Related Report
      2013 Research-status Report
  • [Presentation] Profiling and annotation of human kidney glomerulus proteome.2013

    • Author(s)
      Cui Z, Yoshida Y, Xu B, Zhang Y, Nameta M, Magdeldin S, Makiguchi T, Ikoma T, Fujinaka H, Yaoita E, Yamamoto T
    • Organizer
      HUPO 12th Annual World Congress
    • Place of Presentation
      パシフィコ横浜(横浜市西区)
    • Related Report
      2013 Research-status Report
  • [Presentation] Accurate quantification of peptides for mass spectrometric analysis: a modified microscale bininchoninic acid assay.2013

    • Author(s)
      Yoshida Y, Hasegawa M, Lim LC, Shiromizu T, Hara Y, kanagawa A, Koyama Y, Yaoita E, Wakai T, Tomonaga T, Yamamoto T
    • Organizer
      HUPO 12th Annual World Congress
    • Place of Presentation
      パシフィコ横浜(横浜市西区)
    • Related Report
      2013 Research-status Report
  • [Remarks] 新潟大学医歯学総合研究科腎研究施設構造病理学分野ホームページ

    • URL

      http://www.kidney-niigata.org/strpath/ind_j.html

    • Related Report
      2015 Annual Research Report 2014 Research-status Report
  • [Remarks] Human Kidney and Urine Proteome Projectホームページ

    • URL

      http://www.hkupp.org/

    • Related Report
      2015 Annual Research Report 2014 Research-status Report
  • [Remarks] 新潟大学医歯学総合研究科腎研究施設構造病理学分野ホームページ

    • URL

      http://www.kidney-niigata.org/strpath/ind_j.html

    • Related Report
      2013 Research-status Report
  • [Remarks] Human Kidney and Urine Proteome Organizationホームページ

    • URL

      http://www.hkupp.org/

    • Related Report
      2013 Research-status Report

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Published: 2014-07-25   Modified: 2019-07-29  

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