Use mongodump
:
$ ./mongodump --host prod.example.com
connected to: prod.example.com
all dbs
DATABASE: log to dump/log
log.errors to dump/log/errors.bson
713 objects
log.analytics to dump/log/analytics.bson
234810 objects
DATABASE: blog to dump/blog
blog.posts to dump/log/blog.posts.bson
59 objects
DATABASE: admin to dump/admin
Source: http://www.mongodb.org/display/DOCS/Import+Export+Tools
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