SQLyog and MariaDB engine
By default, XtraDB is used as the InnoDB replacement. 

If you login to MariaDB and run SHOW ENGINES;, look for the InnoDB.

According to the Documentation for SHOW ENGINES;:


  Note that both MySQL's InnoDB and Percona's XtraDB replacement are labeled as InnoDB. However, if XtraDB is in use, it will be specified in the COMMENT field. See XtraDB and InnoDB. The same applies to FederatedX.


Based on your SHOW ENGINES; output, you are using XtraDB now.

In case you need to revert back to the original InnoDB, see Using InnoDB Instead of XtraDB. It discusses flipping the plugins and restart MariaDB.

As for XtraDB, you can read the Documentation.

I can tell you one thing that I wish MySQL's InnoDB had: MORE INFORMATION_SCHEMA

Check out the 5.5 and 5.6 INFORMATION_SCHEMA extensions for Percona and see how they compare to those in MariaDB.

To see which parts of XtraDB can be tuned and monitored (which InnoDB cannot do), look at this Pictorial Representation of InnoDB (originated by Vadim Tkachenko).