Literature DB >> 34458405

Purification and Cryo-electron Microscopy Analysis of Plant Mitochondrial Ribosomes.

Florent Waltz1, Philippe Giegé2, Yaser Hashem1.   

Abstract

Plants make up by far the largest part of biomass on Earth. They are the primary source of food and the basis of most drugs used for medicinal purposes. Similarly to all eukaryotes, plant cells also use mitochondria for energy production. Among mitochondrial gene expression processes, translation is the least understood; although, recent advances have revealed the specificities of its main component, the mitochondrial ribosome (mitoribosome). Here, we present a detailed protocol to extract highly pure cauliflower mitochondria by differential centrifugation for the purification of mitochondrial ribosomes using a sucrose gradient and the preparation of cryo-electron microscopy (cryo-EM) grids. Finally, the specific bioinformatics pipeline used for image acquisition, the processing steps, and the data analysis used for cryo-EM of the plant mitoribosome are described. This protocol will be used for further analysis of the critical steps of mitochondrial translation, such as its initiation and regulation.
Copyright © 2021 The Authors; exclusive licensee Bio-protocol LLC.

Entities:  

Keywords:  Cryo-EM; Electron microscopy image processing; Mitoribosome; Plant mitochondria; Sucrose density gradient

Year:  2021        PMID: 34458405      PMCID: PMC8376613          DOI: 10.21769/BioProtoc.4111

Source DB:  PubMed          Journal:  Bio Protoc        ISSN: 2331-8325


  19 in total

1.  UCSF Chimera--a visualization system for exploratory research and analysis.

Authors:  Eric F Pettersen; Thomas D Goddard; Conrad C Huang; Gregory S Couch; Daniel M Greenblatt; Elaine C Meng; Thomas E Ferrin
Journal:  J Comput Chem       Date:  2004-10       Impact factor: 3.376

Review 2.  Mitochondrial ribosome assembly in health and disease.

Authors:  Dasmanthie De Silva; Ya-Ting Tu; Alexey Amunts; Flavia Fontanesi; Antoni Barrientos
Journal:  Cell Cycle       Date:  2015-06-01       Impact factor: 4.534

3.  Mosaic nature of the mitochondrial proteome: Implications for the origin and evolution of mitochondria.

Authors:  Michael W Gray
Journal:  Proc Natl Acad Sci U S A       Date:  2015-04-06       Impact factor: 11.205

4.  MotionCor2: anisotropic correction of beam-induced motion for improved cryo-electron microscopy.

Authors:  Shawn Q Zheng; Eugene Palovcak; Jean-Paul Armache; Kliment A Verba; Yifan Cheng; David A Agard
Journal:  Nat Methods       Date:  2017-02-27       Impact factor: 28.547

Review 5.  Mitochondria: in sickness and in health.

Authors:  Jodi Nunnari; Anu Suomalainen
Journal:  Cell       Date:  2012-03-16       Impact factor: 41.582

6.  Cryo-EM structure of the RNA-rich plant mitochondrial ribosome.

Authors:  Florent Waltz; Heddy Soufari; Anthony Bochler; Philippe Giegé; Yaser Hashem
Journal:  Nat Plants       Date:  2020-04-06       Impact factor: 15.793

7.  Cryo-electron microscopy wins chemistry Nobel.

Authors:  Daniel Cressey; Ewen Callaway
Journal:  Nature       Date:  2017-10-04       Impact factor: 49.962

Review 8.  Striking Diversity of Mitochondria-Specific Translation Processes across Eukaryotes.

Authors:  Florent Waltz; Philippe Giegé
Journal:  Trends Biochem Sci       Date:  2019-11-25       Impact factor: 13.807

9.  Small is big in Arabidopsis mitochondrial ribosome.

Authors:  Florent Waltz; Tan-Trung Nguyen; Mathilde Arrivé; Anthony Bochler; Johana Chicher; Philippe Hammann; Lauriane Kuhn; Martine Quadrado; Hakim Mireau; Yaser Hashem; Philippe Giegé
Journal:  Nat Plants       Date:  2019-01-09       Impact factor: 15.793

10.  Quantifying the local resolution of cryo-EM density maps.

Authors:  Alp Kucukelbir; Fred J Sigworth; Hemant D Tagare
Journal:  Nat Methods       Date:  2013-11-10       Impact factor: 28.547

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