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I completely agree that classification in science is extremely important. As we learned with our lab, the chosen classification system can yield completely different results. With the system that we used, shrubbery and trees were the same type of plant. This subjectivity in science, like you said, "makes me feel uneasy." If someone had presented an argument in favor of putting trees and shrubbery in the same category that was persuasive enough to win over a large number of people, that is the classification we would be using.