Low-dose phase retrieval of biological specimens using cryo-electron ptychography

• Published in: Nature communications 2020-06, Vol.11 (1), p.2773-2773, Article 2773
• Main Authors: Zhou, Liqi, Song, Jingdong, Kim, Judy S., Pei, Xudong, Huang, Chen, Boyce, Mark, Mendonça, Luiza, Clare, Daniel, Siebert, Alistair, Allen, Christopher S., Liberti, Emanuela, Stuart, David, Pan, Xiaoqing, Nellist, Peter D., Zhang, Peijun, Kirkland, Angus I., Wang, Peng
• Format: Article
• Language: English
• Subjects: 101/28; 14/28; 147/137; 147/143; 631/1647/2258/1258/1259; 631/535/1258/1259; 639/925/930/328/2082; Cryoelectron Microscopy - instrumentation; Cryoelectron Microscopy - methods; Electron microscopy; Electrons; Frequency dependence; Frequency spectrum; HIV; HIV-1; Human immunodeficiency virus; Humanities and Social Sciences; Image Processing, Computer-Assisted - methods; Imaging; Information transfer; Microscopes; Microscopy; Microscopy, Electron, Transmission - methods; Microscopy, Phase-Contrast - methods; Models, Theoretical; multidisciplinary; Phase contrast; Phase retrieval; Recovery; Rotavirus; Science; Science (multidisciplinary); Transmission electron microscopy; Virion - ultrastructure; Virus-like particles; Viruses
• ISSN: 2041-1723; 2041-1723
• DOI: 10.1038/s41467-020-16391-6

Cryo-electron microscopy is an essential tool for high-resolution structural studies of biological systems. This method relies on the use of phase contrast imaging at high defocus to improve information transfer at low spatial frequencies at the expense of higher spatial frequencies. Here we demonstrate that electron ptychography can recover the phase of the specimen with continuous information transfer across a wide range of the spatial frequency spectrum, with improved transfer at lower spatial frequencies, and as such is more efficient for phase recovery than conventional phase contrast imaging. We further show that the method can be used to study frozen-hydrated specimens of rotavirus double-layered particles and HIV-1 virus-like particles under low-dose conditions (5.7 e/Å 2 ) and heterogeneous objects in an Adenovirus-infected cell over large fields of view (1.14 × 1.14 μm), thus making it suitable for studies of many biologically important structures. Cryo-electron microscopy is widely employed in structural biology and uses phase contrast imaging. Here, the authors employ electron ptychography, a quantitative phase retrieval method for high-contrast, low-dose phase imaging of cryo-state rotavirus and immature HIV-1 virus-like particles, and show that electron ptychography is more efficient for phase recovery than conventional phase contrast imaging.