@article {68561,
	title = {Time-tagged ticker tapes for intracellular recordings.},
	journal = {Nature Biotechnology},
	volume = {41},
	year = {2023},
	month = {2023 May 01},
	pages = {631-9},
	abstract = {<p>Recording transcriptional histories of a cell would enable deeper understanding of cellular developmental trajectories and responses to external perturbations. Here we describe an engineered protein fiber that incorporates diverse fluorescent marks during its growth to store a ticker tape-like history. An embedded HaloTag reporter incorporates user-supplied dyes, leading to colored stripes that map the growth of each individual fiber to wall clock time. A co-expressed eGFP tag driven by a promoter of interest records a history of transcriptional activation. High-resolution multi-spectral imaging on fixed samples reads the cellular histories, and interpolation of eGFP marks relative to HaloTag timestamps provides accurate absolute timing. We demonstrate recordings of doxycycline-induced transcription in HEK cells and cFos promoter activation in cultured neurons, with a single-cell absolute accuracy of 30-40 minutes over a 12-hour recording. The protein-based ticker tape design we present here could be generalized to achieve massively parallel single-cell recordings of diverse physiological modalities.</p>
},
	issn = {1546-1696},
	doi = {10.1038/s41587-022-01524-7},
	author = {Lin, Dingchang and Li, Xiuyuan and Moult, Eric and Park, Pojeong and Tang, Benjamin and Shen, Hao and Grimm, Jonathan B and Falco, Natalie and Jia, Bill Z and Baker, David and Lavis, Luke D and Cohen, Adam E}
}
@article {49456,
	title = {A toolbox for multiplexed super-resolution imaging of the E. coli nucleoid and membrane using novel PAINT labels.},
	journal = {Scientific Reports},
	volume = {8},
	year = {2018},
	month = {2018 Oct 03},
	pages = {14768},
	abstract = {<p>Maintenance of the bacterial homeostasis initially emanates from interactions between proteins and the bacterial nucleoid. Investigating their spatial correlation requires high spatial resolution, especially in tiny, highly confined and crowded bacterial cells. Here, we present super-resolution microscopy using a palette of fluorescent labels that bind transiently to either the membrane or the nucleoid of fixed E. coli cells. The presented labels are easily applicable, versatile and allow long-term single-molecule super-resolution imaging independent of photobleaching. The different spectral properties allow for multiplexed imaging in combination with other localisation-based super-resolution imaging techniques. As examples for applications, we demonstrate correlated super-resolution imaging of the bacterial nucleoid with the position of genetic loci, of nascent DNA in correlation to the entire nucleoid, and of the nucleoid of metabolically arrested cells. We furthermore show that DNA- and membrane-targeting labels can be combined with photoactivatable fluorescent proteins and visualise the nano-scale distribution of RNA polymerase relative to the nucleoid in drug-treated E. coli cells.</p>
},
	issn = {2045-2322},
	doi = {10.1038/s41598-018-33052-3},
	author = {Spahn, Christoph K and Glaesmann, Mathilda and Grimm, Jonathan B and Ayala, Anthony X and Lavis, Luke D and Heilemann, Mike}
}
