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If lysosomes stop functioning properly waste would accumulate within the cell. If the enzymes in the lysosomes stopped working properly you would get Tay-Sachs disease. In Tay Sachs the enzymes in the lysosomes to not function properly and results build up in the cells in the nervous system and the retina. Overtime people will go blind and develop motor and mental issues.
If the GA is not working properly the proteins and lipids transport will not work. An example of this is I-Cell disease, in this disease the GA transports enzymes that go to the lysosomes but instead release it into the bloodstream. There are two major problems that will occur. 1) if enzymes are in the blood it will start digesting things not do not need to be digested. 2) the lysosomes cannot do its job because it's missing enzymes and there will be a enzyme shortage. Cell muscoskeltal deformities will begin to be present. There will be a heart lung and CNS problems.
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