Tomoko Yamaguchi

Mrs. Tomoko Yamaguchi

orcid

Research Focus & Metrics

Academic Career Length

8Years (2019-Present)

(Calculated once Scilit publication data is synced: current year − year of first publication + 1)

Representative Publications

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22 July 2021 in Nature Communications
Verified
Journal Article
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TYTomoko Yamaguchi
Tomoko Yamaguchi
FMFumiaki Makino
Fumiaki Makino
TMTomoko Miyata
Tomoko Miyata
Tohru MinaminoTohru Minamino
Tohru Minamino
TKTakayuki Kato
Takayuki Kato
Keiichi NambaKeiichi Namba
Keiichi Namba
The basal body of the bacterial flagellum is a rotary motor that consists of several rings (C, MS and LP) and a rod. The LP ring acts as a bushing supporting the distal rod for its rapid and stable rotation without much friction. Here, we use electron cryomicroscopy to describe the LP ring structure around the rod, at 3.5 Å resolution, from Salmonella Typhimurium. The structure shows 26-fold rotational symmetry and intricate intersubunit interactions of each subunit with up to six partners, which explains the structural stability. The inner surface is charged both positively and negatively. Positive charges on the P ring (the part of the LP ring that is embedded within the peptidoglycan layer) presumably play important roles in its initial assembly around the rod with a negatively charged surface.

6 February 2020 in Biomolecules
Verified
Journal Article
Open access
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TYTomoko Yamaguchi
Tomoko Yamaguchi
STShoko Toma
Shoko Toma
NTNaoya Terahara
Naoya Terahara
TMTomoko Miyata
Tomoko Miyata
MAMasamichi Ashihara
Masamichi Ashihara
TKTakayuki Kato
Takayuki Kato
The bacterial flagellum is a motility organelle consisting of a long helical filament as a propeller and a rotary motor that drives rapid filament rotation to produce thrust. Salmonella enterica serovar Typhimurium has two genes of flagellin, fljB and fliC, for flagellar filament formation and autonomously switches their expression at a frequency of 10−3–10−4 per cell per generation. We report here differences in their structures and motility functions under high-viscosity conditions. A Salmonella strain expressing FljB showed a higher motility than one expressing FliC under high viscosity. To examine the reasons for this motility difference, we carried out structural analyses of the FljB filament by electron cryomicroscopy and found that the structure was nearly identical to that of the FliC filament except for the position and orientation of the outermost domain D3 of flagellin. The density of domain D3 was much lower in FljB than FliC, suggesting that domain D3 of FljB is more flexible and mobile than that of FliC. These differences suggest that domain D3 plays an important role not only in changing antigenicity of the filament but also in optimizing motility function of the filament as a propeller under different conditions.

12 November 2020 in bioRxiv
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Preprint
Open access
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TYTomoko Yamaguchi
Tomoko Yamaguchi
FMFumiaki Makino
Fumiaki Makino
TMTomoko Miyata
Tomoko Miyata
Tohru MinaminoTohru Minamino
Tohru Minamino
TKTakayuki Kato
Takayuki Kato
Keiichi NambaKeiichi Namba
Keiichi Namba
The bacterial flagellum is a motility organelle, consisting of the basal body acting as a rotary motor, the filament as a helical propeller and the hook connecting these two as a universal joint 1,2 . The basal body contains three rings: the MS ring as the transmembrane core of the rotor; the C ring essential for torque generation and switching regulation; and the LP ring as a bushing supporting the distal rod for its rapid, stable rotation without much friction. The negatively charged surface of the distal rod suggested electrostatic repulsive force in supporting high-speed rotation of the rod as a drive shaft 3 , but the LP ring structure was needed to see the actual mechanisms of its bushing function and assembly against the repulsive force. Here we report the LP ring structure by electron cryomicroscopy at 3.5 Å resolution, showing 26-fold rotational symmetry and intricate intersubunit interactions of each subunit with up to six partners that explains the structural stability. The inner surface is charged both positively and negatively, and positive charges on the P ring presumably play important roles in its initial assembly around the rod in the peptidoglycan layer followed by the L ring assembly in the outer membrane.

29 December 2019 in Preprints.org
Verified
Preprint
Open access
TYTomoko Yamaguchi
Tomoko Yamaguchi
STShoko Toma
Shoko Toma
NTNaoya Terahara
Naoya Terahara
TMTomoko Miyata
Tomoko Miyata
MAMasamichi Ashihara
Masamichi Ashihara
TKTakayuki Kato
Takayuki Kato
The bacterial flagellum is a motility organelle, consisting of a long helical filament as a propeller and a rotary motor that drives rapid filament rotation to produce thrust. Salmonella enterica serovar Typhimurium has two genes of flagellin, fljB and fliC, for flagellar filament formation and autonomously switches their expression at a frequency of 10-3–10-4 per cell per generation. We report here differences in their structures and motility functions under high viscosity conditions. A Salmonella strain expressing FljB showed a higher motility than the one expressing FliC under high viscousity. To examine the reasons for this motility difference, we carried out structural analyses of the FljB filament by electron cryomicroscopy and found that the structure is nearly identical to that of the FliC filament except for the position and orientation of the outermost domain D3 of flagellin. The density of domain D3 was much lower in FljB than FliC, suggesting that domain D3 of FljB is more flexible and mobile than that of FliC. These differences suggest that domain D3 plays an important role not only in changing antigenicity of the filament but also in optimizing motility function of the filament as a propeller under different conditions.

13 July 2026 in Communications Biology
Verified
Journal Article
Open access
TYTomoko Yamaguchi
Tomoko Yamaguchi
TMTohru Minamino
Tohru Minamino
TKTakayuki Kato
Takayuki Kato
FCFabienne F. V. Chevance
Fabienne F. V. Chevance
KHKelly T. Hughes
Kelly T. Hughes
Keiichi NambaKeiichi Namba
Keiichi Namba
The LP-ring complex of the Salmonella flagellar motor acts as a bushing that supports high-speed rotation of the rod, which serves as a drive shaft. The L-ring, P-ring, and distal rod consist of FlgH, FlgI, and FlgG, respectively. LP-ring formation begins with P-ring assembly around the distal rod, where it remains firmly attached until the L-ring assembles above it. L-ring formation induces P-ring detachment, allowing the rod to freely rotate within the LP-ring, but this mechanism remains unclear. Here, we report the cryoEM structure of the P-ring assembled on a polyrod, an unusually elongated rod structure. The P-ring exhibits a slightly elliptical shape with a 2.7° tilt relative to the rod axis for its stable attachment. However, L-ring assembly on the P-ring causes steric clashes with the rod to induce P-ring detachment, allowing it to adopt a circular shape and complete the LP-ring as a functional bushing.