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Yuting Chen, Miao Ye, Zhaojie Liu, Yigang Wang, Cong Yi. Detection of ribophagy in yeast and mammals[J]. Biophysics Reports. doi: 10.52601/bpr.2024.240002
Citation: Yuting Chen, Miao Ye, Zhaojie Liu, Yigang Wang, Cong Yi. Detection of ribophagy in yeast and mammals[J]. Biophysics Reports. doi: 10.52601/bpr.2024.240002

Detection of ribophagy in yeast and mammals

doi: 10.52601/bpr.2024.240002
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  • Ribophagy, the cellular process wherein ribosomes are selectively self-digested through autophagy, plays a pivotal role in maintaining ribosome turnover. Understanding the molecular regulatory mechanisms governing ribophagy is pivotal to uncover its significance. Consequently, the establishment of methods for detecting ribophagy becomes important. In this protocol, we have optimized, enriched, and advanced existing ribophagy detection techniques, including immunoblotting, fluorescence microscopy, and transmission electron microscopy (TEM), to precisely monitor and quantify ribophagic events. Particularly noteworthy is the introduction of TEM technology for yeast ribophagy detection. In summary, the delineated methods are applicable for detecting ribophagy in both yeast and mammals, laying a solid foundation for further exploring the physiological importance of ribophagy and its potential implications in diverse cellular environments.

  • Yuting Chen, Miao Ye, Zhaojie Liu, Yigang Wang, and Cong Yi declare that they have no conflict of interest.
    This article does not contain any studies with human or animal subjects performed by the any of the authors.
    Yuting Chen, Miao Ye and Zhaojie Liu contributed equally to this work.

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  • An H, Harper JW (2018) Systematic analysis of ribophagy in human cells reveals bystander flux during selective autophagy. Nat Cell Biol 20: 135−143 doi: 10.1038/s41556-017-0007-x
    Cebollero E, Reggiori F, Kraft C (2012) Reticulophagy and ribophagy: regulated degradation of protein production factories. Int J Cell Biol 2012: 182834. https://doi.org/10.1155/2012/182834
    Janke C, Magiera MM, Rathfelder N, Taxis C, Reber S, Maekawa H, Moreno-Borchart A, Doenges G, Schwob E, Schiebel E, Knop M (2004) A versatile toolbox for PCR-based tagging of yeast genes: new fluorescent proteins, more markers and promoter substitution cassettes. Yeast 21: 947−962 doi: 10.1002/yea.1142
    Kang J, Brajanovski N, Chan KT, Xuan J, Pearson RB, Sanij E (2021) Ribosomal proteins and human diseases: molecular mechanisms and targeted therapy. Signal transduction and targeted therapy 6(1): 323. https://doi.org/10.1038/s41392-021-00728-8
    Kraft C, Deplazes A, Sohrmann M, Peter M (2008) Mature ribosomes are selectively degraded upon starvation by an autophagy pathway requiring the Ubp3p/Bre5p ubiquitin protease. Nat Cell Biol 10: 602−610 doi: 10.1038/ncb1723
    Kushnirov VV (2000) Rapid and reliable protein extraction from yeast. Yeast 16: 857−860 doi: 10.1002/1097-0061(20000630)16:9<857::AID-YEA561>3.0.CO;2-B
    Lafontaine DLJ (2010) A 'garbage can' for ribosomes: how eukaryotes degrade their ribosomes. Trends Biochem Sci 35: 267−277 doi: 10.1016/j.tibs.2009.12.006
    Li H, He CW, Zhu J, Xie Z (2022) A Validated set of ascorbate peroxidase-based organelle markers for electron microscopy of Saccharomyces cerevisiae. mSphere 7(4): e0010722. https://doi.org/10.1128/msphere.00107-22
    Li J, Yu W, Huang S, Wu S, Li L, Zhou J, Cao Y, Huang X, Qiao Y (2021) Structure-guided engineering of adenine base editor with minimized RNA off-targeting activity. Nat Commun 12: 2287. https://doi.org/10.1038/s41467-021-22519-z
    Ni C, Buszczak M (2023) The homeostatic regulation of ribosome biogenesis. Semin Cell Dev Biol 136: 13−26 doi: 10.1016/j.semcdb.2022.03.043
    Qian X, He L, Yang J, Sun J, Peng X, Zhang Y, Mao Y, Cui Y (2023) UVRAG cooperates with cargo receptors to assemble the ER-phagy site. EMBO J 42: e113625. https://doi.org/10.15252/embj.2023113625
    Shedlovskiy D, Shcherbik N, Pestov DG (2017) One-step hot formamide extraction of RNA from Saccharomyces cerevisiae. RNA Biol 14: 1722−1726 doi: 10.1080/15476286.2017.1345417
    Shore D, Albert B (2022) Ribosome biogenesis and the cellular energy economy. Curr Biol 32: R611−R617 doi: 10.1016/j.cub.2022.04.083
    Wyant GA, Abu-Remaileh M, Frenkel EM, Laqtom NN, Dharamdasani V, Lewis CA, Chan SH, Heinze I, Ori A, Sabatini DM (2018) NUFIP1 is a ribosome receptor for starvation-induced ribophagy. Science 360: 751−758 doi: 10.1126/science.aar2663
    Yi C, Ma M, Ran L, Zheng J, Tong J, Zhu J, Ma C, Sun Y, Zhang S, Feng W, Zhu L, Le Y, Gong X, Yan X, Hong B, Jiang FJ, Xie Z, Miao D, Deng H, Yu L (2012) Function and molecular mechanism of acetylation in autophagy regulation. Science 336: 474−477 doi: 10.1126/science.1216990
    Yorimitsu T, Klionsky DJ (2005) Autophagy: molecular machinery for self-eating. Cell Death Differ 12(Suppl 2): 1542−1552
    Yu L, McPhee CK, Zheng L, Mardones GA, Rong Y, Peng J, Mi N, Zhao Y, Liu Z, Wan F, Hailey DW, Oorschot V, Klumperman J, Baehrecke EH, Lenardo MJ (2010) Termination of autophagy and reformation of lysosomes regulated by mTOR. Nature 465: 942−946 doi: 10.1038/nature09076
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