Microscopy preprints – new tools and techniques in imaging

Posted by FocalPlane, on 5 April 2024

Here is a curated selection of preprints posted recently on new tools and techniques in imaging. Let us know if we are missing any recent preprints that are on your reading list!

Imaging of cellular dynamics in vitro and in situ: from a whole organism to sub-cellular imaging with self-driving, multi-scale microscopy
Stephan Daetwyler, Hanieh Mazloom-Farsibaf, Felix Y. Zhou, Dagan Segal, Etai Sapoznik, Jill M. Westcott, Rolf A. Brekken, Gaudenz Danuser, Reto Fiolka

Fast volumetric fluorescence lifetime imaging of multicellular systems using single-objective light-sheet microscopy
Valentin Dunsing-Eichenauer, Johan Hummert, Claire Chardès, Thomas Schönau, Léo Guignard, Rémi Galland, Gianluca Grenci, Max Tillmann, Felix Koberling, Corinna Nock, Jean-Baptiste Sibarita, Virgile Viasnoff, Ivan Michel Antolovic, Rainer Erdmann, Pierre-François Lenne

Adaptive Optics in an Oblique Plane Microscope
Conor McFadden, Zach Marin, Bingying Chen, Stephan Daetwyler, Wang Xiaoding, Divya Rajendran, Kevin M. Dean, Reto Fiolka

Photoemission electron microscopy for connectomics
Kevin M. Boergens, Gregg Wildenberg, Ruiyu Li, Lola Lambert, Amin Moradi, Guido Stam, Rudolf Tromp, Sense Jan van der Molen, Sarah B. King, Narayanan Kasthuri

A Structured Illumination Microscopy Framework with Spatial-Domain Noise Propagation
Ayush Saurabh, Peter T. Brown, J. Shepard Bryan IV, Zachary R. Fox, Rory Kruithoff, Cristopher Thompson, Comert Kural, Douglas P. Shepherd, Steve Pressé

Development of AI-assisted microscopy frameworks through realistic simulation in pySTED
Anthony Bilodeau, Albert Michaud-Gagnon, Julia Chabbert, Benoit Turcotte, Jörn Heine, Audrey Durand, Flavie Lavoie-Cardinal

Synthesis of arbitrary interference patterns using a single galvanometric mirror, and its application to Structured Illumination Microscopy
Ke Guo, Abderrahim Boualam, James D Manton, Christopher J Rowlands

Figure extracted from Guo, *et al.* made available under a CC-BY 4.0 International license.

A Large Field-of-view, Single-cell-resolution Two- and Three-Photon Microscope for Deep and Wide Imaging
Aaron T. Mok, Tianyu Wang, Shitong Zhao, Kristine E. Kolkman, Danni Wu, Dimitre G Ouzounov, Changwoo Seo, Chunyan Wu, Joseph R. Fetcho, Chris Xu

High sensitivity cameras can lower spatial resolution in high-resolution optical microscopy
Henning Ortkrass, Marcel Müller, Anders Kokkvoll Engdahl, Gerhard Holst, Thomas Huser

Phase Contrast Tomography (PCT)
Ying Ma, Wenjing Feng, Yunze Lei, Lin Ma, Juanjuan Zheng, Sha An, Min Liu, Peng Gao

Figure extracted from Ma, *et al.* made available under a CC-BY-NC 4.0 International license.

Kilohertz volumetric imaging of in-vivo dynamics using squeezed light field microscopy
Zhaoqiang Wang, Ruixuan Zhao, Daniel A Wagenaar, Wenjun Kang, Calvin K. Lee, William C. Schmidt, Aryan Pammar, Enbo Zhu, Gerard C.L. Wong, Rongguang Liang, Tzung K. Hsiai, Liang Gao

Optimizing contrast in automated 4D-STEM cryo-tomography
Shahar Seifer, Peter Kirchweger, Karlina Maria Edel, Michael Elbaum

Figure extracted from Seifer, *et al.* made available under a CC-BY 4.0 International license.

Liquid phase electron microscopy of bacterial ultrastructure
Brian J. Caffrey, Adrián Pedrazo-Tardajos, Emanuela Liberti, Ben Gaunt, Judy S. Kim, Angus I. Kirkland

Depth-dependent scaling of axial distances in light microscopy
S.V. Loginov, D.B. Boltje, M.N.F. Hensgens, J.P. Hoogenboom, E.B. van der Wee

Label-free imaging of cellular organization in living mammalian cells via external apodization phase-contrast microscopy
Lay Nurhana Sari, Takafumi Miyamoto, Takenori Nishimura, Kenta Kainoh, Naoko Onodera, Mayuko Kano, Masato Masuda, Yoshiaki Tamura, Yusuke Hayashi, Yusuke Yamamoto, Shin-Ichiro Takahashi, Yuta Mishima, Yosuke Yoneyama, Yoshinori Takeuchi, Hiroshi Ohno, Yoshitaka Ohashi, Motohiro Sekiya, Takashi Matsuzaka, Hitoshi Shimano

Figure extracted from Nurhana Sari, *et al.* made available under a CC-BY 4.0 International license.

Three-dimensional spatio-angular fluorescence microscopy with a polarized dual-view inverted selective-plane illumination microscope (pol-diSPIM)
Talon Chandler, Min Guo, Yijun Su, Jiji Chen, Yicong Wu, Junyu Liu, Atharva Agashe, Robert S. Fischer, Shalin B. Mehta, Abhishek Kumar, Tobias I. Baskin, Valentin Jamouilĺe, Huafeng Liu, Vinay Swaminathan, Amrinder Nain, Rudolf Oldenbourg, Patrick La Rivère, Hari Shroff

Figure extracted from Chandler, *et al.* made available under a CC-BY 4.0 International license.

Vitrification by high pressure freezing of a wide variety of sample using the HPM Live µ
Chie Kodera, Yann Bret, Frederic Eyraud, Jérôme Heiligenstein, Martin Belle, Xavier Heiligenstein

Open-source, high performance miniature multiphoton microscopy systems for freely behaving animals
Blake A. Madruga, Conor C. Dorian, Megha Sehgal, Alcino J. Silva, Matthew Shtrahman, Daniel Aharoni, Peyman Golshani

Surface passivation and functionalization for interferometric scattering microscopy
Jenny Sülzle, Laila Elfeky, Suliana Manley

Iterative Bleaching Extends Multiplexity (IBEX) imaging facilitates simultaneous identification of all cell types in the vertebrate retina
Aanandita Kothurkar, Gregory S. Patient, Nicole C. L. Noel, Colin J. Chu, Ryan B. MacDonald

NanoPlex: a universal strategy for fluorescence microscopy multiplexing using nanobodies with erasable signals
Nikolaos Mougios, Elena R. Cotroneo, Nils Imse, Jonas Setzke, Silvio Rizzoli, Nadja A. Simeth, Roman Tsukanov, Felipe Opazo

Figure extracted from Mougios, *et al.* made available under a CC-BY-NC 4.0 International license.

Development of BODIPY-based fluorescent probes for highly selective amino acid identification
Nathaniel Hendrick, Andrew Martin, Andrew Chan, Jason Lenihan, Harrison Reiter, Mitchell Clough, Lian Jiang, Edward Whaley, Yoo Jeong Huh, James McNeely, Anderson Chen, Andrew Emili, Aaron B Beeler

Novel Genetically Encoded Biosensors for Functional Imaging of Cell Signaling by Polarization Microscopy
Paul Miclea, Vendula Nagy-Marková, Alina Sakhi, Alexey Bondar, Josef Lazar

Super-resolved protein imaging using bifunctional light-up aptamers
Franziska Grün, Niklas van den Bergh, Maja Klevanski, Mrigank S. Verma, Bastian Bühler, G. Ulrich Nienhaus, Thomas Kuner, Andres Jäschke, Murat Sunbul

Generation of densely labeled oligonucleotides for the detection of small genomic elements
Clemens Steinek, Miguel Guirao Ortiz, Gabriela Stumberger, Annika J. Tölke, David Hörl, Thomas Carell, Hartmann Harz, Heinrich Leonhardt

A palette of bright and photostable monomeric fluorescent proteins for bacterial time-lapse imaging
Nathan Fraikin, Agathe Couturier, Christian Lesterlin

A vector system for single and tandem expression of cloned genes and multi-colour fluorescent tagging in Haloferax volcanii
Solenne Ithurbide, Roshali T. de Silva, Hannah J. Brown, Vinaya Shinde, Iain G. Duggin

BenzoHTag, a fluorogenic self-labeling protein developed using molecular evolution
Bryan J. Lampkin, Benjamin J. Goldberg, Joshua A. Kritzer

Designed fluorescent protein cages as fiducial markers for targeted cell imaging
Morgan Gee, Kaiser Atai, Hilary A. Coller, Todd O. Yeates, Roger Castells-Graells

Three-dimensional multi-target super-resolution microscopy of cells using Metal-Induced Energy Transfer and DNA-PAINT
Nazar Oleksiievets, Nikolaos Mougios, Daniel C. Jans, Lara Hauke, Jan Christoph Thiele, Samrat Basak, Stefan Jakobs, Felipe Opazo, Joerg Enderlein, Roman Tsukanov

Figure extracted from Oleksiievets, *et al.* made available under a CC-BY 4.0 International license.

Comparison of monomeric variants of StayGold
Satoshi Shimozono, Ryoko Ando, Mayu Sugiyama, Masahiko Hirano, Yusuke Niino, Atsushi Miyawaki

Figure extracted from Shimozono, *et al.* made available under a CC-BY 4.0 International license.

Self-quenched fluorophore-DNA labels for super-resolution fluorescence microscopy
Laurell Kessler, Ashwin Balakrishnan, Tanja Menche, Dongni Wang, Yunqing Li, Maximilian Mantel, Marius Glogger, Marina S. Dietz, Mike Heilemann

Figure extracted from Kessler, *et al.* made available under a CC-BY 4.0 International license.

Tissue-specific and endogenous protein labeling with split fluorescent proteins
Gloria D. Ligunas, German Paniagua, Jesselynn LaBelle, Adela Ramos-Martinez, Kyle Shen, Emma H. Gerlt, Kaddy Aguilar, Alice Nguyen, Stefan C. Materna, Stephanie Woo

A series of spontaneously blinking dyes for super-resolution microscopy
Katie L. Holland, Sarah E. Plutkis, Timothy A. Daugird, Abhishek Sau, Jonathan B. Grimm, Brian P. English, Qinsi Zheng, Sandeep Dave, Fariha Rahman, Liangqi Xie, Peng Dong, Ariana N. Tkachuk, Timothy A. Brown, Robert H. Singer, Zhe Liu, Catherine G. Galbraith, Siegfried M. Musser, Wesley R. Legant, Luke D. Lavis