Separation and Paired Proteome Profiling of Plant Chloroplast and Cytoplasmic Ribosomes

Plants
Alexandre Augusto Pereira FirminoOlga Beine-Golovchuk

Abstract

Conventional preparation methods of plant ribosomes fail to resolve non-translating chloroplast or cytoplasmic ribosome subunits from translating fractions. We established preparation of these ribosome complexes from Arabidopsis thaliana leaf, root, and seed tissues by optimized sucrose density gradient centrifugation of protease protected plant extracts. The method co-purified non-translating 30S and 40S ribosome subunits separated non-translating 50S from 60S subunits, and resolved assembled monosomes from low oligomeric polysomes. Combining ribosome fractionation with microfluidic rRNA analysis and proteomics, we characterized the rRNA and ribosomal protein (RP) composition. The identity of cytoplasmic and chloroplast ribosome complexes and the presence of ribosome biogenesis factors in the 60S-80S sedimentation interval were verified. In vivo cross-linking of leaf tissue stabilized ribosome biogenesis complexes, but induced polysome run-off. Omitting cross-linking, the established paired fractionation and proteome analysis monitored relative abundances of plant chloroplast and cytoplasmic ribosome fractions and enabled analysis of RP composition and ribosome associated proteins including transiently associated biogenesis fa...Continue Reading

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Citations

Jan 30, 2021·Scientific Reports·Bo Eng CheongJoachim Kopka
Jul 3, 2021·International Journal of Molecular Sciences·Federico Martinez-SeidelAlexandre Augusto Pereira Firmino
Oct 1, 2021·Journal of Experimental Botany·Thiruvenkadam ShanmugamEnrico Schleiff

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Datasets Mentioned

BETA
PXD019329

Methods Mentioned

BETA
density gradient sedimentation
dissection

Software Mentioned

Molecular [UNK]
MaxQuant
agriGo
Andromeda

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