Author

D. I. Stuart

Listed by name: these papers carry no ORCID for this author, so different people with the same name may be mixed together.

Biology Disciplines

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Microbiology· 9 Biochemistry· 4 Cell Biology· 2 Biophysics· 1

Signature Assays, Organisms & Methods

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Approach:experimental assay· 13 Research Focus:host-pathogen & immune response· 8 Assay:cryo-EM· 5 Organism:human· 5 Approach:microscopy & imaging analysis· 5 Organism:virus· 5 Research Focus:cell type annotation· 4 Research Focus:protein structure prediction· 3

Frequent Co-Authors

E. E. Fry· 8 shared H. M. E. Duyvesteyn· 7 shared D. Zhou· 5 shared J. Ren· 5 shared J. Huo· 4 shared J. Mongkolsapaya· 4 shared J. Radecke· 4 shared P. Supasa· 4 shared

Activity by Year

2020-2024 · peak 6/yr

Co-Author Collaboration Network

10 top collaborators · 45 mutual co-author links

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8 shared papersMicrobiology

E. E. Fry

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Author profile →

16 papers

Recent·Most cited

Structural plasticity of 2A proteins in the Parechovirus family

L. Zhu, M. Pichon, Z. Pietras, X. Wang, J. Ren, E. E. Fry, D. I. Stuart, A. Perrakis, E. von Castelmur

The paper investigates structural plasticity in Parechovirus 2A proteins, revealing structural rearrangements that affect their oligomeric state and potential function in viral RNA replication.

bioRxiv · Apr 6, 2024 · PreprintBiochemistry

Native spike flexibility revealed by BSL3 Cryo-ET of active SARS-CoV-2 virions

H. Fukuhara, H. M. Dokainish, S. Kita, K. Tabata, A. Takasu, J. T. Huiskonen, Y. Anraku, T. Nomai, T. Someya, T. Senda, D. I. Stuart, M. Sasaki, Y. Orba, Y. Suzuki, H. Sawa, K. Maenaka

This study uses cryo-ET to analyze native, active SARS-CoV-2 virions, revealing a transient open-trimer prefusion state and hidden spike flexibility with implications for vaccine design.

bioRxiv · Oct 10, 2023 · PreprintMicrobiology

Cooperativity and induced oligomerisation control the interaction of SARS- CoV-2 with its cellular receptor and patient-derived antibodies

R. Asor, A. Olerinyova, S. A. Burnap, M. S. Kushwah, F. Soltermann, L. P. Rudden, M. Hensen, S. Vasiljevic, J. Brun, M. Hill, L. Chang, W. Dejnirattisai, P. Supasa, J. Mongkolsapaya, D. Zhou, , P. Kukura

The paper investigates how multivalent interactions between SARS-CoV-2 spike protein, ACE2 receptor, and patient-derived antibodies influence viral entry and antibody inhibition.

bioRxiv · Sep 14, 2023 · PreprintBiophysics

ChAdOx1 COVID vaccines express RBD open prefusion SARS-CoV-2 spikes on the cell surface

P. Zhang, S. Gilbert, J. Radecke, T. Ni, L. Mendonca, Y. Zhu, A. Howe, P. M. Shah, Y. Sheng, A.-S. Krebs, H. M. E. Duyvesteyn, E. Allen, T. Lambe, C. Bissett, S. Morris, , D. I. Stuart

This study determines the native structure of ChAdOx1-vectored SARS-CoV-2 vaccines on cell surfaces, showing prefusion spikes in one-RBD-up conformation and improved RBD exposure in HexaPro-stabilized variants.

bioRxiv · May 22, 2023Microbiology

Production and characterisation of stabilised PV-3 virus-like particles using Pichia pastoris

L. Sherry, K. Grehan, J. J. Swanson, M. W. Bahar, C. Porta, E. E. Fry, D. I. Stuart, D. Rowlands, N. J. Stonehouse

This paper produces and characterizes stabilized PV-3 virus-like particles using Pichia pastoris, showing improved thermostability and antigen ratio compared to wild-type PV-3.

bioRxiv · Sep 16, 2022Microbiology

A conserved glutathione binding site in poliovirus is a target for antivirals and vaccine stabilisation

M. W. Bahar, V. Nasta, H. Fox, L. Sherry, K. Grehan, C. Porta, A. J. Macadam, N. J. Stonehouse, D. J. Rowlands, E. E. Fry, D. I. Stuart

This study identifies a conserved glutathione binding site in poliovirus VLPs that can be targeted by antivirals and used to stabilize vaccines.

bioRxiv · Sep 8, 2022Biochemistry

Delineating organizational principles of the endogenous L-A virus by cryo-EM and computational analysis of native cell extracts

L. Schmidt, C. Tueting, F. L. Kyrilis, F. Hamdi, D. A. Semchonok, G. Hause, A. Meister, C. Ihling, P. N. Shah, M. T. Stubbs, A. Sinz, D. I. Stuart, P. L. Kastritis

The paper uses cryo-EM and computational analysis to study the structure and organization of the yeast L-A virus in native cell extracts, revealing capsid architecture and viral community dynamics.

bioRxiv · Jul 15, 2022Biochemistry

Further antibody escape by Omicron BA.4 and BA.5 from vaccine and BA.1 serum

A. Tuekprakhon, J. Huo, R. Nutalai, A. Dijokaite-Guraliuc, D. Zhou, H. M. Ginn, M. Sekvaraj, C. Liu, A. J. Mentzer, P. Supasa, H. M. E. Duyvesteyn, R. Das, D. Skelly, T. G. Ritter, A. Amini, , G. R. Screaton

This study shows that BA.4 and BA.5 variants are more resistant to neutralization by vaccine and BA.1 immune sera compared to BA.1 and BA.2.

bioRxiv · May 21, 2022 · PreprintMicrobiology

Nonlytic cellular release of hepatitis A virus requires dual capsid recruitment of the ESCRT-associated Bro1 domain proteins HD-PTP and ALIX

T. Shirasaki, H. Feng, H. M. E. Duyvesteyn, W. G. Fusco, K. L. McKnight, L. Xie, M. Boyce, S. Kumar, R. Barouch-Bentov, O. Gonzalez-Lopez, R. McNamara, L. Wang, A. Hertel-Wulff, X. Chen, S. Einav, , S. M. Lemon

This study identifies a viral export signal in hepatitis A virus that requires dual recruitment of HD-PTP and ALIX for nonlytic release in extracellular vesicles.

bioRxiv · Apr 26, 2022Microbiology

Site-specific steric control of SARS-CoV-2 spike glycosylation

J. D. Allen, H. Chawla, F. Samsudin, L. Zuzic, A. T. Shivgan, Y. Watanabe, W.-T. He, S. Callaghan, G. Song, P. Yong, P. J. M. Brouwer, Y. Song, Y. Cai, H. M. E. Duyvesteyn, T. Malinauskas, , M. Crispin

The paper compares glycosylation patterns of recombinant SARS-CoV-2 spike proteins across labs with infectious virus S protein, finding conserved site-specific glycan maturation stalling linked to protein structure.

bioRxiv · Mar 8, 2021 · PreprintBiochemistry

Neutralization of SARS-CoV-2 by destruction of the prefusion Spike

J. Huo, Y. Zhao, J. Ren, D. Zhou, H. M. E. Duyvesteyn, H. M. Ginn, L. Carrique, T. Malinauskas, R. R. Ruza, P. N. Shah, T. K. Tan, P. Rijal, N. Coombes, K. Bewley, J. Radecke, , D. I. Stuart

This paper identifies CR3022 as a monoclonal antibody that neutralizes SARS-CoV-2 by destroying its prefusion Spike conformation, suggesting therapeutic potential.

Cell Host & Microbe · Sep 1, 2020Peer-reviewedMicrobiology

The SARS-CoV-2 Spike harbours a lipid binding pocket which modulates stability of the prefusion trimer

L. Carrique, H. M. E. Duyvesteyn, T. Malinaukas, Y. Zhao, J. Ren, D. Zhou, T. S. Walter, J. Radecke, J. Huo, R. Ruza, P. N. Shah, E. E. Fry, D. I. Stuart

The paper identifies a lipid-binding pocket in the SARS-CoV-2 Spike that stabilizes the prefusion trimer and shields neutralizing epitopes, suggesting it as a potential drug target.

bioRxiv · Aug 13, 2020 · PreprintMicrobiology

Structural basis for the neutralization of SARS-CoV-2 by an antibody from a convalescent patient

D. Zhou, H. M. E. Duyvesteyn, C.-P. Chen, C.-G. Huang, T.-H. Chen, S.-R. Shih, Y.-C. Lin, C.-Y. Cheng, S.-H. Cheng, Y.-C. Huang, T.-Y. Lin, C. Ma, J. Huo, L. Carrique, T. Malinauskas, , K.-Y. A. Huang

This paper identifies an antibody, EY6A, from a convalescent patient that neutralizes SARS-CoV-2 and cross-reacts with SARS-CoV-1 by binding a conserved epitope on the Spike protein.

bioRxiv · Jun 12, 2020Microbiology

Assembly intermediates of orthoreovirus captured in the cell

G. Sutton, D. Sun, X. Fu, A. Kotecha, C. W. Hecksel, D. K. Clare, p. zhang, D. I. Stuart, M. Boyce

The paper visualizes a novel single-shelled icosahedral intermediate of mammalian orthoreovirus using cryo-electron tomography, revealing structural insights into viral assembly.

bioRxiv · Jun 10, 2020Microbiology

CryoSIM: super resolution 3D structured illumination cryogenic fluorescence microscopy for correlated ultra-structural imaging

M. A. Phillips, M. Harkiolaki, D. M. S. Pinto, R. M. Parton, A. Palanca, M. Garcia-Moreno, I. Kounatidis, J. Sedat, D. I. Stuart, A. Castello, M. J. Booth, I. Davis, I. M. Dobbie

The paper introduces cryoSIM, a super-resolution 3D fluorescence microscope for cryo-imaging that can be replicated with off-the-shelf components and open-source software.

bioRxiv · Mar 9, 2020Cell Biology

Correlative cryo-structured illumination fluorescence microscopy and soft X-ray tomography elucidates reovirus intracellular release pathway

M. Harkiolaki, I. Kounatidis, M. L. Stanifer, M. A. Phillips, P. Paul-Gilloteau, X. Helligenstein, H. Wang, C. A. Okolo, T. Fish, M. C. Spink, D. I. Stuart, I. Davis, S. Boulant, J. M. Grimes, I. M. Dobbie

This study develops a correlative imaging platform combining cryo-SIM and SXT to study reovirus release from intracellular vesicles, revealing novel virus-induced structures.

bioRxiv · Jan 13, 2020Cell Biology