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2020 Fiscal Year Annual Research Report

Determining sulfur isotope fractionation values of individual enzymes and how they evolve through time.

Research Project

Project/Area Number 18H01325
Research InstitutionTokyo Institute of Technology

Principal Investigator

McGlynn Shawn・E.  東京工業大学, 地球生命研究所, 准教授 (10751084)

Co-Investigator(Kenkyū-buntansha) 上野 雄一郎  東京工業大学, 理学院, 教授 (90422542)
Project Period (FY) 2018-04-01 – 2021-03-31
Keywordsenzyme evolution / sulfur isotopes / metabolic flux / energy metabolism / geobiology / Earth history / history of life / enzyme kinetics
Outline of Annual Research Achievements

In this year, we studied the heterologous expression of ApsR enzymes in E.coli. We took two strategies. 1) the alpha and beta subunits were transcribed off plasmids with two multiple cloning sites and 2) linearized DNA from the enzymes was transcribed and translated in a cell free system. We worked with 20 ApsR homologs, which span most of the evolutionary variability of the enzyme family as viewed on a phylogenetic tree.
In (1), we found that the protein expresses poorly in E.coli. We varied cultivation and expression conditions extensively, yet we could not achieve good expression yields.
In (2), we identified a novel proteolytic cleavage of the protein occurs. The relationship of this cleavage to in-vivo activity is currently unknown, but it may be relevant to the operation of the protein. Further work is needed to evaluate this.
In addition to this laboratory work, we conducted bioinformatics analyses of the protein. First, we investigated the possible modes of product inhibition, which we observed and identified in our previous years research. From a structural perspective, we were able to rationalize how substrates or products may bind near the active site, affecting the reaction kinetics. From a structural and sequence evolution perspective, we were able to make progress in the understanding of the evolution of the family and structural domain (fold).

Research Progress Status

令和2年度が最終年度であるため、記入しない。

Strategy for Future Research Activity

令和2年度が最終年度であるため、記入しない。

  • Research Products

    (6 results)

All 2021 2020

All Journal Article (3 results) (of which Int'l Joint Research: 3 results,  Peer Reviewed: 3 results,  Open Access: 3 results) Presentation (2 results) (of which Invited: 1 results) Book (1 results)

  • [Journal Article] Ten years of collaborative progress in the Quest for Orthologs2021

    • Author(s)
      Linard Benjamin、Ebersberger Ingo、McGlynn Shawn E、Glover Natasha、Mochizuki Tomohiro、Patricio Mateus、Lecompte Odile、Nevers Yannis、Thomas Paul D、Gabaldon Toni、Sonnhammer Erik、Dessimoz Christophe、Uchiyama Ikuo、QFO Consortium
    • Journal Title

      Molecular Biology and Evolution

      Volume: - Pages: -

    • DOI

      10.1093/molbev/msab098

    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] A New Analysis of Archaea Bacteria Domain Separation: Variable Phylogenetic Distance and the Tempo of Early Evolution2020

    • Author(s)
      Berkemer Sarah J、McGlynn Shawn E
    • Journal Title

      Molecular Biology and Evolution

      Volume: 37 Pages: 2332~2340

    • DOI

      10.1093/molbev/msaa089

    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Hydrogenation reactions of carbon on Earth: Linking methane, margarine, and life2020

    • Author(s)
      McGlynn Shawn E.、Glass Jennifer B.、Johnson-Finn Kristin、Klein Frieder、Sanden Sebastian A.、Schrenk Matthew O.、Ueno Yuichiro、Vitale-Brovarone Alberto
    • Journal Title

      American Mineralogist

      Volume: 105 Pages: 599~608

    • DOI

      10.2138/am-2020-6928CCBYNCND

    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Presentation] Revised kinetic parameters of the Aps reductase enzyme: effect on microbial sulfur isotope fractionation.2020

    • Author(s)
      Shawn McGlynn
    • Organizer
      JPGU
  • [Presentation] 火星および他の外惑星に関連した新しい生物学的メタン代謝2020

    • Author(s)
      Shawn McGlynn
    • Organizer
      8th Life in the Universe workshop by Astrobiology Center, NINS
    • Invited
  • [Book] Metal Ions in Life Sciences, Volume 212021

    • Author(s)
      Shawn McGlyn
    • Total Pages
      59-79
    • Publisher
      De Gruyter

URL: 

Published: 2021-12-27  

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