Mechanisms are provided for replicating transactions at a source database node on a target database node of the data processing system. A transaction message, for a transaction, is stored in a receive queue data structure of the target database node. An agent thread applies a change to data of the target database node based on a specification of the change in the transaction message. An identifier of the transaction message is stored in a done message data structure of the target database node and the identifier of the transaction message is also stored in a prune queue data structure of the target database node. A prune thread determines if a contiguous range of identifiers of transaction messages equal to or greater than a predetermined batch size is present in the prune queue data structure. If so, then a range of transaction messages is deleted from the done message data structure.