Pitting and discoloration of skin are indications of chill damage.
Limes are sensitive to ethylene; exposure to the gas may cause skin deterioration and increase the fruit’s susceptibility to decay. Store away from ethylene-producing fruits and ripening rooms.
Low humidity may cause limes to lose moisture, resulting in shriveling and loss of juice.
Pebbly brown or black skin is an indication of bruising or decay caused by rough handling.