The correct order of steps in a gram staining procedure is:
(4) the specimen is treated with a stain called crystal violet.
(1) iodine is added as a fixative or mordant.
(3) the specimen is flushed with alcohol to dehydrate peptidoglycans and trap the stain.
(2) the specimen is treated with a stain such as safranin or fuchsin (a pink stain)
Gram staining is a common staining technique which helps to classify the bacteria into two categories: Gram positive and Gram negative. Gram positive bacteria appear violet in color and Gram negative bacteria appear to be pink. This color difference appears due to the difference in the bacterial cell walls.
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The researcher could look for the presence of proteins, because viruses have a envelope (capsid) composed of proteins that involve their genetic material. The capsid may have a helical or icosahedral structure and is extremely regular. Viroids cannot synthesize any type of protein, so differentiation is possible.
If you mean organelles then chloroplast