To overcome these problems in the identification of Trichoderma by means of gene sequences, the subcommission for Hypocrea/Trichoderma taxonomy (ISTH) of the International Commission on the Taxonomy of Fungi (Mycological Division of IUMS) has initiated the development of automated methods for species identification in Trichoderma
based on thoroughly revised and validated sequence data (www.isth.info). To this end, several tools for sequence analysis were developed and incorporated into the portal. The flowchart in Fig. 3 shows interconnections between various Hypocrea/Trichoderma sequence databases and programs for species identification. Below, we describe these tools individually, and explain the most optimal and up-to-date path through these tools, which should lead the user to a reliable identification of currently known Hypocrea/Trichoderma species.