Java Data Objects (JDO) defines an interface (or API) to persist normal Java objects (or POJO's in some peoples terminology) to a datastore. JDO doesn't define the type of datastore; it is datastore-agnostic. You would use the same interface to persist your Java object to RDBMS, or OODBMS, or XML, or whatever form of data storage. The JDO API itself is provided by the javax.jdo JAR. DataNucleus provides an implementation of the JDO API in the datanucleus-api-jdo JAR, so make sure you have datanucleus-api-jdo.jar in your CLASSPATH for using this API.
Note that this version of DataNucleus requires the JDO 3.2 API
The process of mapping a class can be split into the following areas
At runtime with JDO you start with the creation of a PersistenceManagerFactory (PMF) which provides the connectivity to the datastore. The connection to the datastore is dependent on a set of persistence properties defining the datastore location, URL etc as well as behaviour of the persistence process.
With JDO, to persist/retrieve objects you require a PersistenceManager (PM) that provides the interface to persistence and querying of the datastore. You can perform persistence and querying within a transaction if required, or just use it non-transactionally.
If in doubt about how things fit together, please make use of the JDO Tutorial
If you just want to get the JDO API javadocs, then you can access those here