Literature DB >> 33368000

In Situ Imaging and Structure Determination of Biomolecular Complexes Using Electron Cryo-Tomography.

Mohammed Kaplan1, William J Nicolas1,2, Wei Zhao1,2, Stephen D Carter1, Lauren Ann Metskas1,2, Georges Chreifi1, Debnath Ghosal1,3, Grant J Jensen4,5,6.   

Abstract

Electron cryo-tomography (cryo-ET) is a technique that allows the investigation of intact macromolecular complexes while they are in their cellular milieu. Over the years, cryo-ET has had a huge impact on our understanding of how large biomolecular complexes look like, how they assemble, disassemble, function, and evolve(d). Recent hardware and software developments and combining cryo-ET with other techniques, e.g., focused ion beam milling (FIB-milling) and cryo-light microscopy, has extended the realm of cryo-ET to include transient molecular complexes embedded deep in thick samples (like eukaryotic cells) and enhanced the resolution of structures obtained by cryo-ET. In this chapter, we will present an outline of how to perform cryo-ET studies on a wide variety of biological samples including prokaryotic and eukaryotic cells and biological plant tissues. This outline will include sample preparation, data collection, and data processing as well as hybrid approaches like FIB-milling, cryosectioning, and cryo-correlated light and electron microscopy (cryo-CLEM).

Keywords:  Cryo-ET; Cryosectioning; FIB-milling; High-resolution tomography; In situ structural biology; Subtomogram averaging

Mesh:

Substances:

Year:  2021        PMID: 33368000     DOI: 10.1007/978-1-0716-0966-8_4

Source DB:  PubMed          Journal:  Methods Mol Biol        ISSN: 1064-3745


  49 in total

1.  Probing a cell-embedded megadalton protein complex by DNP-supported solid-state NMR.

Authors:  Mohammed Kaplan; Abhishek Cukkemane; Gydo C P van Zundert; Siddarth Narasimhan; Mark Daniëls; Deni Mance; Gabriel Waksman; Alexandre M J J Bonvin; Rémi Fronzes; Gert E Folkers; Marc Baldus
Journal:  Nat Methods       Date:  2015-05-18       Impact factor: 28.547

2.  In situ imaging of the bacterial flagellar motor disassembly and assembly processes.

Authors:  Mohammed Kaplan; Poorna Subramanian; Debnath Ghosal; Catherine M Oikonomou; Sahand Pirbadian; Ruth Starwalt-Lee; Shrawan Kumar Mageswaran; Davi R Ortega; Jeffrey A Gralnick; Mohamed Y El-Naggar; Grant J Jensen
Journal:  EMBO J       Date:  2019-05-20       Impact factor: 11.598

3.  A new view into prokaryotic cell biology from electron cryotomography.

Authors:  Catherine M Oikonomou; Grant J Jensen
Journal:  Nat Rev Microbiol       Date:  2016-12-28       Impact factor: 60.633

4.  Architecture of the type IVa pilus machine.

Authors:  Yi-Wei Chang; Lee A Rettberg; Anke Treuner-Lange; Janet Iwasa; Lotte Søgaard-Andersen; Grant J Jensen
Journal:  Science       Date:  2016-03-10       Impact factor: 47.728

5.  EGFR Dynamics Change during Activation in Native Membranes as Revealed by NMR.

Authors:  Mohammed Kaplan; Siddarth Narasimhan; Cecilia de Heus; Deni Mance; Sander van Doorn; Klaartje Houben; Dušan Popov-Čeleketić; Reinier Damman; Eugene A Katrukha; Purvi Jain; Willie J C Geerts; Albert J R Heck; Gert E Folkers; Lukas C Kapitein; Simone Lemeer; Paul M P van Bergen En Henegouwen; Marc Baldus
Journal:  Cell       Date:  2016-11-10       Impact factor: 41.582

Review 6.  Visualizing and discovering cellular structures with super-resolution microscopy.

Authors:  Yaron M Sigal; Ruobo Zhou; Xiaowei Zhuang
Journal:  Science       Date:  2018-08-30       Impact factor: 47.728

7.  Evolution of higher torque in Campylobacter-type bacterial flagellar motors.

Authors:  Bonnie Chaban; Izaak Coleman; Morgan Beeby
Journal:  Sci Rep       Date:  2018-01-08       Impact factor: 4.379

8.  γ-proteobacteria eject their polar flagella under nutrient depletion, retaining flagellar motor relic structures.

Authors:  Josie L Ferreira; Forson Z Gao; Florian M Rossmann; Andrea Nans; Susanne Brenzinger; Rohola Hosseini; Amanda Wilson; Ariane Briegel; Kai M Thormann; Peter B Rosenthal; Morgan Beeby
Journal:  PLoS Biol       Date:  2019-03-19       Impact factor: 8.029

Review 9.  Cryo-electron tomography: the challenge of doing structural biology in situ.

Authors:  Vladan Lučič; Alexander Rigort; Wolfgang Baumeister
Journal:  J Cell Biol       Date:  2013-08-05       Impact factor: 10.539

10.  The presence and absence of periplasmic rings in bacterial flagellar motors correlates with stator type.

Authors:  Mohammed Kaplan; Debnath Ghosal; Poorna Subramanian; Catherine M Oikonomou; Andreas Kjaer; Sahand Pirbadian; Davi R Ortega; Ariane Briegel; Mohamed Y El-Naggar; Grant J Jensen
Journal:  Elife       Date:  2019-01-16       Impact factor: 8.140

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  3 in total

Review 1.  High-resolution in situ structure determination by cryo-electron tomography and subtomogram averaging using emClarity.

Authors:  Tao Ni; Thomas Frosio; Luiza Mendonça; Yuewen Sheng; Daniel Clare; Benjamin A Himes; Peijun Zhang
Journal:  Nat Protoc       Date:  2022-01-12       Impact factor: 17.021

2.  In situ imaging of bacterial outer membrane projections and associated protein complexes using electron cryo-tomography.

Authors:  Mohammed Kaplan; Georges Chreifi; Lauren Ann Metskas; Janine Liedtke; Cecily R Wood; Catherine M Oikonomou; William J Nicolas; Poorna Subramanian; Lori A Zacharoff; Yuhang Wang; Yi-Wei Chang; Morgan Beeby; Megan J Dobro; Yongtao Zhu; Mark J McBride; Ariane Briegel; Carrie L Shaffer; Grant J Jensen
Journal:  Elife       Date:  2021-09-01       Impact factor: 8.140

3.  Discovery of a Novel Inner Membrane-Associated Bacterial Structure Related to the Flagellar Type III Secretion System.

Authors:  Mohammed Kaplan; Catherine M Oikonomou; Cecily R Wood; Georges Chreifi; Debnath Ghosal; Megan J Dobro; Qing Yao; Ritesh Ranjan Pal; Amit K Baidya; Yuxi Liu; Stefano Maggi; Alasdair W McDowall; Sigal Ben-Yehuda; Ilan Rosenshine; Ariane Briegel; Morgan Beeby; Yi-Wei Chang; Carrie L Shaffer; Grant J Jensen
Journal:  J Bacteriol       Date:  2022-07-18       Impact factor: 3.476

  3 in total

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