Author

Z. Ke

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· 5 Biophysics· 3 Biochemistry· 1 Bioengineering· 1 Cancer Biology· 1 Cell Biology· 1

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Approach:experimental assay· 9 Research Focus:host-pathogen & immune response· 7 Assay:cryo-EM· 5 Organism:human· 3 Approach:microscopy & imaging analysis· 3 Organism:mouse· 3 Research Focus:protein structure prediction· 3 Organism:virus· 3

Frequent Co-Authors

J. A. G. Briggs· 4 shared K. Qu· 4 shared E. R. Wright· 3 shared A. Seluanov· 2 shared B. Liu· 2 shared H. Wang· 2 shared H.-G. Krausslich· 2 shared J. Oton· 2 shared

Activity by Year

2017-2023 · peak 5/yr

Co-Author Collaboration Network

10 top collaborators · 12 mutual co-author links

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4 shared papersMicrobiology

J. A. G. Briggs

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15 papers

Recent·Most cited

Virion morphology and on-virus spike protein structures of diverse SARS-CoV-2 variants

Z. Ke, T. P. Peacock, J. C. Brown, C. M. Sheppard, T. I. Croll, A. Kotecha, D. H. Goldhill, W. S. Barclay, J. A. Briggs

The paper analyzes SARS-CoV-2 variant virion morphology and spike protein structures using cryo-EM, finding no adaptive changes in virion shape but multiple amino acid changes affecting spike conformational dynamics.

bioRxiv · Dec 21, 2023Microbiology

Vampyroteuthis pseudoinfernalis sp. nov.: the second extant widespread deep sea squid species of Vampyromorpha (Cephalopoda: Coleoidea)

D. Qiu, B. Liu, Y. Guo, W. A. S. M. Lakmini, Y. Tan, G. Li, Z. Ke, K. Li, L. Huang

The paper describes a new species of vampire squid, Vampyroteuthis pseudoinfernalis, distinguished by morphological and genetic differences from the known species Vampyroteuthis infernalis.

bioRxiv · Feb 13, 2023 · PreprintZoology

Development and application of an uncapped mRNA platform

X. Zheng, B. Liu, P. Ni, L. Cai, X. Shi, Z. Ke, S. Zhang, B. Hu, B. Yang, Y. Xu, W. Long, Z. Fang, Y. Wang, W. Zhang, Y. Xu, , B. Liu

The paper develops an uncapped mRNA platform and demonstrates its effectiveness in inducing immune responses and protein expression in vitro and in vivo.

bioRxiv · Jun 5, 2022 · PreprintBioengineering

A Bayesian approach to single-particle electron cryo-tomography in RELION-4.0

J. Zivanov, J. Oton, Z. Ke, A. von Kügelgen, E. Pyle, K. Qu, D. Morado, D. Castano-Diez, G. Zanetti, T. Bharat, J. Briggs, S. Scheres

The paper introduces a Bayesian method for improving cryo-ET data analysis in RELION-4.0, enabling higher-resolution structure determination from multiple particles.

bioRxiv · Feb 28, 2022Biophysics

Respiratory syncytial virus matrix protein assembles as a lattice with local and extended order that coordinates the position of the fusion glycoprotein

B. S. Sibert, J. Y. Kim, J. E. Yang, Z. Ke, C. C. Stobart, M. M. Moore, E. R. Wright

This study uses cryo-electron tomography to show RSV matrix protein forms a helical lattice that positions the fusion glycoprotein, providing insights into virion organization and potential vaccine targets.

bioRxiv · Oct 13, 2021 · PreprintBiophysics

Maturation of the matrix and viral membrane of HIV-1

K. Qu, Z. Ke, V. Zila, M. Anders-Osswein, B. Glass, B. Mueller, H.-G. Krausslich, J. A. G. Briggs

This study determines the structure of HIV-1 matrix (MA) in immature and mature virions, revealing a hexameric lattice formed during maturation that repurposes the membrane for viral entry.

Science · Aug 6, 2021Peer-reviewedMicrobiology

Naked mole-rat hematopoietic stem and progenitors are highly quiescent with an inherent myeloid bias

S. Emmrich, A. Trapp, F. Tolibzoda Zakusilo, M. Mariotti, M. E. Straight, Z. Zhang, S. Gray, M. G. Drage, Z. Ke, M. Takasugi, J.-H. Klusmann, V. N. Gladyshev, A. Seluanov, V. Gorbunova

This study identifies unique hematopoietic features in naked mole-rats, including myeloid bias and quiescent stem cells, linked to their exceptional longevity.

bioRxiv · Aug 1, 2021Cell Biology

Cooperative multivalent receptor binding promotes exposure of the SARS-CoV-2 fusion machinery core

A. J. Pak, A. Yu, Z. Ke, J. A. G. Briggs, G. A. Voth

This study uses coarse-grained models and cryo-ET data to show that SARS-CoV-2 spike trimers cooperatively bind to ACE2 dimers, promoting S1 dissociation and exposing the fusion machinery.

bioRxiv · May 24, 2021Biophysics

Transcription factor PU.1 enforces quiescence and limits hematopoietic stem cell expansion during inflammatory stress

J. S. Chavez, J. L. Rabe, D. Loeffler, K. Higa, G. Hernandez, T. S. Mills, N. Ahmed, R. L. Gessner, Z. Ke, B. M. Idler, H. M. Kim, J. R. Myers, B. M. Stevens, C. T. Jordan, H. Nakajima, , E. M. Pietras

This study shows that PU.1 enforces HSC quiescence by repressing protein synthesis and cell cycle genes, preventing clonal expansion during inflammatory stress.

Journal of Experimental Medicine · Apr 15, 2021Peer-reviewedImmunology

Flagellar structures from the bacterium Caulobacter crescentus and implications for phage {Phi}CbK predation of multi-flagellin bacteria

E. J. Montemayor, N. T. Ploscariu, J. C. Sanchez, D. Parrell, R. S. Dillard, C. W. Shebelut, Z. Ke, R. C. Guerrero-Ferreira, E. R. Wright

This study investigates how phage {phi}CbK recognizes flagellins in Caulobacter crescentus, showing that multiple flagellins contribute to adsorption and identifying structural features that may influence this interaction.

bioRxiv · Jul 27, 2020Microbiology

Structures, conformations and distributions of SARS-CoV-2 spike protein trimers on intact virions

Z. Ke, J. Oton, K. Qu, M. Cortese, V. Zila, L. McKeane, T. Nakane, J. Zivanov, C. J. Neufeldt, J. M. Lu, J. Peukes, X. Xiong, H.-G. Krausslich, S. H. W. Scheres, R. Bartenschlager, J. A. G. Briggs

This study uses cryo-electron microscopy to determine the structure, conformational flexibility, and distribution of SARS-CoV-2 spike protein trimers on intact virions.

bioRxiv · Jun 27, 2020Microbiology

A thermostable, closed, SARS-CoV-2 spike protein trimer.

X. Xiong, K. Qu, K. A. Ciazynska, M. Hosmillo, A. P. Carter, S. Ebrahimi, Z. Ke, S. H. W. Scheres, L. Bergamaschi, G. L. Grice, Y. Zhang, The CITIID-NIHR COVID-19 BioResource Collaboration, J. A. Nathan, S. Baker, L. C. James, , J. A. G. Briggs

This paper designs a thermostable, closed SARS-CoV-2 spike protein trimer that remains in the pre-fusion state and can be used in serological assays.

bioRxiv · Jun 15, 2020Biochemistry

CD155/CD96 promotes immunosuppression in lung adenocarcinoma (LUAD)

W. He, H. Zhang, S. Li, Y. Cui, Y. Zhu, J. Zhu, Y. Lei, R. Lin, D. Xu, Z. Zhu, W. Jiang, H. Wang, Z. Ke

This study shows CD155/CD96 promotes immunosuppression in LUAD by inhibiting antitumor immune responses and up-regulating CD96 in CD8 T cells, with potential therapeutic implications.

bioRxiv · Jul 1, 2019 · PreprintCancer Biology

Inhibition of retrotransposition improves health and extends lifespan of SIRT6 knockout mice

M. Simon, M. van Meter, J. Ablaeva, Z. Ke, R. S. Gonzalez, T. Taguchi, M. De Cecco, K. I. Leonova, V. Kogan, S. L. Helfand, N. Neretti, A. Roichman, H. Y. Cohen, M. Antoch, A. Gudkov, , V. Gorbunova

This study shows that inhibiting L1 retrotransposition with NRTIs improves health and extends the lifespan of SIRT6 knockout mice by reducing type I interferon response and DNA damage.

bioRxiv · Nov 4, 2018 · PreprintMolecular Biology

Obstruction of pilus retraction stimulates bacterial surface sensing

C. K. Ellison, J. Kan, R. S. Dillard, D. T. Kysela, C. M. Hampton, Z. Ke, E. R. Wright, N. Biais, A. B. Dalia, Y. V. Brun

The paper shows that blocking pilus retraction in Caulobacter crescentus stimulates holdfast synthesis without surface contact, indicating pilus retraction is used for surface sensing.

bioRxiv · Jun 30, 2017Microbiology