From: Dual role of autophagy in HIV-1 replication and pathogenesis
Targeted component of autophagy | Procedure ** |
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Direct enumeration and quantitation of autophagosomes. Visible as double-membrane vesicles. | Electron microscopy*** |
LC3-II to LC3-I ratio. Provides a measurement of autophagic flux with the LC3B-II/LC3B-I ratio concomitantly increasing with autophagosome numbers. | WB**** |
LC3 localization. Punctate spots visible by microscopy. Total intracellular levels may increase along with autophagosome numbers. | ICC, FC, transfection of LC3 reporter plasmid followed by fluorescent microscopy or FC |
Quantitation of autophagy-associated gene expression levels, e.g., BECN1. | qPCR |
Quantitation of autophagy-associated protein levels, e.g., Beclin-1. | WB, ELISA |
Silencing of autophagy-associated genes. | RNAi |
Manipulation of autophagic flux. | Use of rapamycin, bafilomycin A1, and 3-MA |