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Corruption. In MySQL if a database (more likely a few tables) become corrupt, you can repair them individually. In MongoDB, you have to repair on a database level. There is a command to do this but it reads all the data and re-writes it to a new set of files.
Purpose of Database Duplication. A duplicate database is useful for a variety of purposes, most of which involve testing. For example, you can duplicate the production database on host1 to host2, and then use the duplicate database on host2 to practice restoring and recovering this database while the production database on host1 operates as usual.