All the Single Cells: if You Like It then You Should Put Some Virus on It

Overview

Journal J Virol

Publisher American Society for Microbiology

Date 2024 Jun 21

PMID 38904395

Authors

Sophia K Adams

Grace E Ducharme

Emma K Loveday

Affiliations

Soon will be listed here.

Abstract

Across a rich 70-year history, single-cell virology has revealed the impact of host and pathogen heterogeneity during virus infections. Recent technological innovations have enabled higher-resolution analyses of cellular and viral heterogeneity. Furthermore, single-cell analysis has revealed extreme phenotypes and provided additional insights into host-pathogen dynamics. Using a single-cell approach to explore fundamental virology questions, contemporary researchers have contributed to a revival of interest in single-cell virology with increased insights and enthusiasm.

References

DULBECCO R, Vogt M . Plaque formation and isolation of pure lines with poliomyelitis viruses. J Exp Med. 1954; 99(2):167-82. PMC: 2180341. DOI: 10.1084/jem.99.2.167. View

Bacsik D, Dadonaite B, Butler A, Greaney A, Heaton N, Bloom J . Influenza virus transcription and progeny production are poorly correlated in single cells. Elife. 2023; 12. PMC: 10484525. DOI: 10.7554/eLife.86852. View

Bost P, Drayman N . Dissecting viral infections, one cell at a time, by single-cell technologies. Microbes Infect. 2023; 26(7):105268. PMC: 11161131. DOI: 10.1016/j.micinf.2023.105268. View

Alonso D, Yu M, Qu H, Ma L, Shen F . Advances in Microfluidics-Based Technologies for Single Cell Culture. Adv Biosyst. 2020; 3(11):e1900003. DOI: 10.1002/adbi.201900003. View

Sun J, Vera J, Drnevich J, Lin Y, Ke R, Brooke C . Single cell heterogeneity in influenza A virus gene expression shapes the innate antiviral response to infection. PLoS Pathog. 2020; 16(7):e1008671. PMC: 7363107. DOI: 10.1371/journal.ppat.1008671. View

Nalehua M, Zaia J . A critical evaluation of ultrasensitive single-cell proteomics strategies. Anal Bioanal Chem. 2024; 416(9):2359-2369. DOI: 10.1007/s00216-024-05171-6. View

Fischer A, Wu S, Proescher J, Rotem A, Chang C, Zhang H . A high-throughput drop microfluidic system for virus culture and analysis. J Virol Methods. 2014; 213:111-7. DOI: 10.1016/j.jviromet.2014.12.003. View

Sannier G, Dube M, Kaufmann D . Single-Cell Technologies Applied to HIV-1 Research: Reaching Maturity. Front Microbiol. 2020; 11:297. PMC: 7064469. DOI: 10.3389/fmicb.2020.00297. View

Heldt F, Kupke S, Dorl S, Reichl U, Frensing T . Single-cell analysis and stochastic modelling unveil large cell-to-cell variability in influenza A virus infection. Nat Commun. 2015; 6:8938. PMC: 4673863. DOI: 10.1038/ncomms9938. View

10.

Srinivasachar Badarinarayan S, Sauter D . Switching Sides: How Endogenous Retroviruses Protect Us from Viral Infections. J Virol. 2021; 95(12). PMC: 8315955. DOI: 10.1128/JVI.02299-20. View

11.

Fredrikson J, Domanico L, Pratt S, Loveday E, Taylor M, Chang C . Single-cell herpes simplex virus type 1 infection of neurons using drop-based microfluidics reveals heterogeneous replication kinetics. Sci Adv. 2024; 10(9):eadk9185. PMC: 10901367. DOI: 10.1126/sciadv.adk9185. View

12.

Tian T, Lin S, Yang C . Beyond single cells: microfluidics empowering multiomics analysis. Anal Bioanal Chem. 2023; 416(9):2203-2220. DOI: 10.1007/s00216-023-05028-4. View

13.

Guo M, Rotem A, Heyman J, Weitz D . Droplet microfluidics for high-throughput biological assays. Lab Chip. 2012; 12(12):2146-55. DOI: 10.1039/c2lc21147e. View

14.

Sekellick M, Marcus P . Viral interference by defective particles of vesicular stomatitis virus measured in individual cells. Virology. 1980; 104(1):247-52. DOI: 10.1016/0042-6822(80)90385-2. View

15.

Rotem A, Serohijos A, Chang C, Wolfe J, Fischer A, Mehoke T . Evolution on the Biophysical Fitness Landscape of an RNA Virus. Mol Biol Evol. 2018; 35(10):2390-2400. PMC: 6188569. DOI: 10.1093/molbev/msy131. View

16.

DULBECCO R . Production of Plaques in Monolayer Tissue Cultures by Single Particles of an Animal Virus. Proc Natl Acad Sci U S A. 1952; 38(8):747-52. PMC: 1063645. DOI: 10.1073/pnas.38.8.747. View

17.

Loveday E, Zath G, Bikos D, Jay Z, Chang C . Screening of Additive Formulations Enables Off-Chip Drop Reverse Transcription Quantitative Polymerase Chain Reaction of Single Influenza A Virus Genomes. Anal Chem. 2021; 93(10):4365-4373. PMC: 10016143. DOI: 10.1021/acs.analchem.0c03455. View

18.

Neogi U, Elaldi N, Appelberg S, Ambikan A, Kennedy E, Dowall S . Multi-omics insights into host-viral response and pathogenesis in Crimean-Congo hemorrhagic fever viruses for novel therapeutic target. Elife. 2022; 11. PMC: 9018070. DOI: 10.7554/eLife.76071. View

19.

Drayman N, Patel P, Vistain L, Tay S . HSV-1 single-cell analysis reveals the activation of anti-viral and developmental programs in distinct sub-populations. Elife. 2019; 8. PMC: 6570482. DOI: 10.7554/eLife.46339. View

20.

Wang H, Xin X, Zheng C, Shen C . Single-Cell Analysis of Foot-and-Mouth Disease Virus. Front Microbiol. 2020; 11:361. PMC: 7066083. DOI: 10.3389/fmicb.2020.00361. View