This can be done by adding hibernate.hbm2ddl.auto property for persistence-unit 
in persistence.xml file.
It enable utomatic validation or export schema DDL to the database when the 
SessionFactory is created. With create-drop, the database schema will be 
dropped when the SessionFactory is closed explicitly.
Available values are: validate | update | create | create-drop

Exampe:<persistence xmlns="http://java.sun.com/xml/ns/persistence";
  |    xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance";
  |    xsi:schemaLocation="http://java.sun.com/xml/ns/persistence 
http://java.sun.com/xml/ns/persistence/persistence_1_0.xsd";
  |    version="1.0">
  |    <persistence-unit name="sample">
  |       <jta-data-source>java:/DefaultDS</jta-data-source>
  |       <properties>
  |          <property name="hibernate.dialect" 
value="org.hibernate.dialect.HSQLDialect"/>
  |          <property name="hibernate.hbm2ddl.auto" value="create-drop"/>
  |       </properties>
  |    </persistence-unit>
  | </persistence>

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