Scientific Refereed

1

Structural basis for L-isoaspartyl-containing protein recognition by the human PCMTD1 cullin-RING E3 ubiquitin ligase

E. Z. Pang, B. Zhao, C. Flowers, E. Oroudjeva, J. B. Winter, V. Pandey, M. R. Sawaya, J. Wohlschlegel, J. A. Loo, J. A. Rodriguez, S. G. Clarke, Journal of Biological Chemistry, 301, 110735, (2025).

10.1016/j.jbc.2025.110735

2

Cooling-Rate-Driven Polymorphism and Vacancy Ordering in Ce2MnGe6 Intergrowth Phases

M. E. Raines, G. T. McCandless, B. C. Schundelmier, S. Cetin, T. G. Spencer, M. C. Scott, K. Wei, J. Y. Chan, Crystal Growth & Design, 25, 9405-9415, (2025).

10.1021/acs.cgd.5c01182

3

Measuring Chemical Shifts with Energy-Dispersive X-Ray Spectroscopy

Y. Chen, R. Jin, Y. Heffes, B. Zutter, T. P. O’Neill, J. J. Lodico, B. C. Regan, M. Mecklenburg, Physical Review Letters, 135, 157002, (2025).

10.1103/t1rs-7kr2

4

Leveraging structure-informed machine learning for fast steric zipper propensity prediction across whole proteomes

S. Zink, S. Qu, T. Holton, E. Shankar, P. Stanley, D. S. Eisenberg, M. R. Sawaya, J. A. Rodriguez, PLOS Computational Biology, 21, e1013395, (2025).

10.1371/journal.pcbi.1013395

5

Focusing of relativistic electron beams with permanent magnetic solenoid

T. T. Xu, C. R. Duncan, P. P. Denham, B. H. Schaap, A. A. Kulkarni, D. D. Garcia, S. D. Anderson, P. P. Musumeci, R. J. England, Physical Review Accelerators and Beams, 28, 082401, (2025).

10.1103/phhz-fgnl

6

Point Defect Induced Potential Wells across the m-Plane of Core/Shell GaN Nanowires

S. Rezaie, G. Kusch, L. Samuelson, J. B. Wagner, S. Yazdi, physica status solidi (RRL) – Rapid Research Letters, 2500145, (2025).

10.1002/pssr.202500145

7

Structural insights into functional regulation of the human CPEB3 prion by an amyloid-forming segment

M. D. Flores, M. R. Sawaya, D. R. Boyer, S. Zink, S. Tovmasyan, A. Saucedo, L. S. Richards, C. Zee, J. Cardenas, L. Fioriti, J. A. Rodriguez, Structure, 33, 1314-1324.e5, (2025).

10.1016/j.str.2025.05.007

8

Combining MicroED and native mass spectrometry for structural discovery of enzyme-small molecule complexes

N. W. Vlahakis, C. W. Flowers, M. Liu, M. P. Agdanowski, S. Johnson, J. A. Summers, L. C. Jacobs, C. Keyser, P. Russell, S. L. Rose, J. Orlans, N. Adhami, Y. Chen, M. R. Sawaya, S. Basu, D. de Sanctis, Y. Chen, S. Wakatsuki, H. M. Nelson, J. A. Loo, Y. Tang, J. A. Rodriguez, Proceedings of the National Academy of Sciences, 122, e2503780122, (2025).

10.1073/pnas.2503780122

9

Structure of a new capsid form and comparison with A-, B-, and C-capsids clarify herpesvirus assembly

A. Stevens, S. Kashyap, E. Crofut, A. Alvarez-Cabrera, J. Jih, Y. Liu, Z. ng Zhou, Journal of Virology, 99, 7, (2025).

10.1128/jvi.00504-25

10

Curvature Generation and Engineering Principles from Shewanella oneidensis Multi-flagellin Flagellum

Q. Lou, H. Fan, Y. Liu, J. F. Miller, Y. Huang, Z. ng Zhou, ACS Nano, 19, 25682-25696, (2025).

10.1021/acsnano.5c02744

11

In situ insights into antibody-mediated neutralization of a pre-fusion Junin virus glycoprotein complex

L. J. Taylor, M. R. Sawaya, J. B. Westover, C. Wang, F. Jimenez, A. J. Muñoz, J. Whitelegge, B. B. Gowen, G. F. Helguera, R. Castells-Graells, J. A. Rodriguez, Cell Reports, 44, 115971, (2025).

10.1016/j.celrep.2025.115971

12

Secondary electron emission current mapping for nanoscale thermometry

W. Hubbard, M. Mecklenburg, H. Chan, B. Regan, Nanotechnology, 36, 265704, (2025).

10.1088/1361-6528/ade445

13

Fabrication of a novel porous silicon biomembrane for applications in organ-on-chip technology

M. C. Williams, C. Wiens, S. Genc, S. Thompson, L. Gislason, D. Blake, J. Jessing, Biomedical Microdevices, 27, 32, (2025).

10.1007/s10544-025-00760-3

14

Sample motion for structured illumination fluorescence microscopy

R. Cao, G. Meng, L. Waller, Optics Letters, 50, 4074, (2025).

10.1364/ol.560873

15

Nanoscale confinement of phonon flow and heat transport

A. Beardo, W. Chen, B. McBennett, T. Karimzadeh Sabet, E. E. Nelson, T. H. Culman, H. C. Kapteyn, J. L. Knobloch, M. M. Murnane, I. Dabo, npj Computational Materials, 11, 172, (2025).

10.1038/s41524-025-01593-7

16

Structure, identification, and characterization of the RibD-enolase complex in Francisella

X. Liu, D. Clemens, B. Lee, R. Aguirre, M. Horwitz, Z. Zhou, Protein & Cell, pwaf045, 1-6, (2025).

10.1093/procel/pwaf045

17

Demonstration and structural basis of a therapeutic DNA aptamer for SARS-CoV-2 spike protein detection

Y. Liu, K. Wang, W. Wang, S. Kashyap, J. Jih, A. Imani, T. Hsiai, Z. ng Zhou, Biosensors and Bioelectronics, 287, 117691, (2025).

10.1016/j.bios.2025.117691

18

Scattering-based super-resolution optical fluctuation imaging

S. Yudovich, G. Posnjak, L. Shani, E. Teblum, T. Liedl, J. Enderlein, S. Weiss, Optics Express, 33, 18824, (2025).

10.1364/oe.541324

19

Infectivity and structure of SARS-CoV-2 after hydrogen peroxide treatment

S. R. Aliyari, G. Xie, X. Xia, L. Wang, Z. ng Zhou, G. Cheng, mBio, 16, e03994-24, (2025).

10.1128/mbio.03994-24

20

Fast partial Fourier transforms for large-scale ptychography

R. Parada, S. Wu Fung, S. Osher, Inverse Problems and Imaging, 0-0, (2025).

10.3934/ipi.2025019

21

Structures of Native Doublet Microtubules from Trichomonas vaginalis Reveal Parasite-Specific Proteins

A. Stevens, S. Kashyap, E. H. Crofut, S. E. Wang, K. A. Muratore, P. J. Johnson, Z. ng Zhou, Nature Communications, 16, 3996, (2025).

10.1038/s41467-025-59369-y

22

Ring deconvolution microscopy: exploiting symmetry for efficient spatially varying aberration correction

A. Kohli, A. N. Angelopoulos, D. McAllister, E. Whang, S. You, K. Yanny, F. M. Gasparoli, B. Chang, R. Fiolka, L. Waller, Nature Methods, (2025).

10.1038/s41592-025-02684-5

23

Interferometric scattering microscopy

N. S. Ginsberg, C. Hsieh, P. Kukura, M. Piliarik, V. Sandoghdar, Nature Reviews Methods Primers, 5, 23, (2025).

10.1038/s43586-025-00391-1

24

Self-Assembled Magnetic Nanoparticle Layers: Structural Control for Reconfigurable Magnetism and Functional Applications

X. Lu, J. Zou, M. Pham, A. Rana, C. Liao, E. Cating Subramanian, X. Wu, Y. Lo, C. S. Bevis, R. M. Karl, S. Lepadatu, Y. Yu, Y. Tserkovnyak, T. P. Russell, D. A. Shapiro, H. Kapteyn, M. Murnane, R. Streubel, J. Miao, ACS Applied Nano Materials, 8, 6643-6650, (2025).

10.1021/acsanm.5c00461

25

Trypanosome doublet microtubule structures reveal flagellum assembly and motility mechanisms

X. Xia, M. M. Shimogawa, H. Wang, S. Liu, A. Wijono, G. Langousis, A. M. Kassem, J. A. Wohlschlegel, K. L. Hill, Z. ng Zhou, Science, 387, 1162, (2025).

10.1126/science.adr3314

26

Accounting for electron-beam-induced warping of molecular nanocrystals in MicroED structure determination

N. Vlahakis, A. Clauss, J. A. Rodriguez, IUCrJ, 12, 223-238, (2025).

10.1107/s2052252524012132

27

A Liquid-Core Fiber Platform for Classical and Entangled Two-Photon Absorption Measurements

K. M. Parzuchowski, M. D. Mazurek, C. H. Camp, M. J. Stevens, R. Jimenez, ACS Photonics, 4C02076, (2025).

10.1021/acsphotonics.4c02076

28

Correlated nanoimaging of structure and dynamics of cation-polaron coupling in hybrid perovskites

R. Wilcken, B. L. Esses, R. S. Nithyananda Kumar, L. A. Hurley, S. E. Shaheen, M. B. Raschke, Science Advances, 11, eads3706, (2025).

10.1126/sciadv.ads3706

29

Near-Field Thermal Radiation as a Probe of Nanoscale Hot Electron and Phonon Transport

M. Habibi, A. Beardo, L. Cui, ACS Nano, 19, 6033-6043, (2025).

10.1021/acsnano.4c11893

30

Self-Heating Conductive Ceramic Composites for High Temperature Thermal Energy Storage

L. Yang, P. Peng, N. Weger, S. Mills, C. Messeri, A. K. Menon, S. Zeltmann, F. Babbe, Q. Zheng, C. Dun, C. Zhang, J. J. Urban, A. M. Minor, R. Prasher, H. Breunig, S. Lubner, ACS Energy Letters, 10, 1002-1012, (2025).

10.1021/acsenergylett.4c03270

31

Computational microscopy with coherent diffractive imaging and ptychography

J. Miao, Nature, 637, 281-295, (2025).

10.1038/s41586-024-08278-z

32

Robust broadband ptychography algorithms for high-harmonic soft X-ray supercontinua

B. Shearer, H. Kapteyn, I. Binnie, N. W. Jenkins, M. Murnane, Optics Express, 33, 717, (2025).

10.1364/oe.541675

33

Perturbative Fourier ptychographic microscopy for fast quantitative phase imaging

M. Zach, K. Shen, R. Cao, M. Unser, L. Waller, J. Dong, Optics Express, 33, 38984, (2025).

10.1364/oe.560811

34

Dynamics and structure of the B2→B19’ phase transformation in NiTi revealed through in situ 4D-STEM

J. Donohue, S. H. Mills, B. H. Savitzky, S. E. Zeltmann, C. Ophus, A. M. Minor, Materials Science and Engineering: A, 926, 147951, (2025).

10.1016/j.msea.2025.147951

35

Multi-slice electron ptychographic tomography for three-dimensional phase-contrast microscopy beyond the depth of focus limits

A. Romanov, M. Cho, M. Scott, P. Pelz, Journal of Physics: Materials, 8, 015005, (2024).

10.1088/2515-7639/ad9ad2

36

Composition and in situ structure of the Methanospirillum hungatei cell envelope and surface layer

H. Wang, J. Zhang, S. Liao, A. M. Henstra, D. Leon, J. Erde, J. A. Loo, R. R. Ogorzalek Loo, Z. ng Zhou, R. P. Gunsalus, Science Advances, 10, eadr8596, (2024).

10.1126/sciadv.adr8596

37

Native DGC structure rationalizes muscular dystrophy-causing mutations

S. Liu, T. Su, X. Xia, Z. ng Zhou, Nature, 637, 1261-1271, (2024).

10.1038/s41586-024-08324-w

38

Single-shot ionization-based monitor for pulsed electron beams

P. P. Denham, A. A. Ody, P. P. Musumeci, N. N. Burger, N. N. Cook, G. G. Andonian, Physical Review Applied, 22, 064033, (2024).

10.1103/physrevapplied.22.064033

39

Molecular sociology of virus-induced cellular condensates supporting reovirus assembly and replication

X. Liu, X. Xia, M. W. Martynowycz, T. Gonen, Z. ng Zhou, Nature Communications, 15, 10638, (2024).

10.1038/s41467-024-54968-7

40

From Beam Damage to Massive Reaction Amplification under the Electron Microscope: An Ionization-Induced Chain Reaction in Crystals of a Dewar Benzene

K. A. Konieczny, I. Paul, J. A. Rodriguez, M. A. Garcia-Garibay, ACS Central Science, 10, 2346-2352, (2024).

10.1021/acscentsci.4c01429

41

Capturing intermediates and membrane remodeling in class III viral fusion

L. Milojević, Z. Si, X. Xia, L. Chen, Y. He, S. Tang, M. Luo, Z. ng Zhou, Science Advances, 10, eadn8579, (2024).

10.1126/sciadv.adn8579

42

Reversible Electron Beam Patterning of Colloidal Nanoparticles at Fluid Interfaces

J. G. Raybin, E. J. Dunsworth, V. Guo, N. S. Ginsberg, ACS Applied Materials & Interfaces, 16, 68611-68620, (2024).

10.1021/acsami.4c14882

43

Computational microscopy beyond perfect lenses

X. Lu, M. Pham, E. Negrini, D. Davis, S. J. Osher, J. Miao, Physical Review E, 110, 054407, (2024).

10.1103/physreve.110.054407

44

Structure and identification of the native PLP synthase complex from Methanosarcina acetivorans lysate

A. Agnew, E. Humm, K. Zhou, R. P. Gunsalus, Z. ng Zhou, mBio, 16, e03090-24, (2025).

10.1128/mbio.03090-24

45

Tabletop deep-ultraviolet transient grating for ultrafast nanoscale carrier-transport measurements in ultrawide-band-gap materials

E. E. Nelson, B. McBennett, T. H. Culman, A. Beardo, H. C. Kapteyn, M. H. Frey, M. R. Atkinson, M. M. Murnane, J. L. Knobloch, Physical Review Applied, 22, 054007, (2024).

10.1103/physrevapplied.22.054007

46

Real-time optical thickness determination for producing ultra-thin silicon membranes using anisotropic potassium hydroxide etching

L. Gislason, S. Genc, S. Thompson, J. Crawford, J. Jessing, MRS Advances, (2024).

10.1557/s43580-024-00945-7

47

Aberration correction in epi-fluorescence microscopy using unknown speckle illumination

E. Premillieu, A. M. Caravaca-Aguirre, S. Labouesse, K. Irsch, R. Piestun, Optics Express, 32, 37658, (2024).

10.1364/oe.526148

48

Elucidating the role of Cr migration in Ni-Cr exposed to molten FLiNaK via multiscale characterization

S. H. Mills, R. D. Hayes, N. Bieberdorf, S. E. Zeltmann, A. M. Kennedy, L. Capolungo, M. Asta, R. O. Scarlat, A. M. Minor, Acta Materialia, 279, 120206, (2024).

10.1016/j.actamat.2024.120206

49

The hierarchical structure of organic mixed ionic–electronic conductors and its evolution in water

Y. Tsarfati, K. C. Bustillo, B. H. Savitzky, L. Balhorn, T. J. Quill, A. Marks, J. Donohue, S. E. Zeltmann, C. J. Takacs, A. Giovannitti, I. McCulloch, C. Ophus, A. M. Minor, A. Salleo, Nature Materials, (2024).

10.1038/s41563-024-02016-6

50

Neural space–time model for dynamic multi-shot imaging

R. Cao, N. S. Divekar, J. K. Nuñez, S. Upadhyayula, L. Waller, Nature Methods, (2024).

10.1038/s41592-024-02417-0

Publications

STROBE Publications

2025