Sequencing of environmental samples has great potential for biodiversity research, but its application is limited by the lack of reliable DNA barcode databases for species identifications. Such a database has been created for epiphytic lichens of Europe, allowing us to compare the results of environmental sequencing with standard taxonomic surveys. The species undetected by taxonomic surveys (what we term the ghost component) amount to about half of the species actually present in hectare plots of Central European forests. Some of these, which currently occur only as diaspores or weakly developed thalli, are likely to be favoured in the course of global change. The ghost component usually represents a larger fraction in managed forests than in old-growth unmanaged forests. The total species composition of different plots is much more similar than suggested by taxonomic surveys alone. On a regional scale, this supports the well-known statement that "everything is everywhere, but, the environment selects".