In the new version (2.7.1) of the BLAST+ executables, blastdbcmd can look up taxonomic names (e.g., scientific or common name) faster. We have also made some low-level improvement that allow BLAST to multithread more efficiently, especially when available memory is not sufficient for the database.
Note: Some LINUX and MacOSX users may find that they need to increase the number of open file descriptors allowed for a process. The number of allowed open file descriptors can be easily changed with “ulimit -n” (under bash). We suggest setting the limit to at least 1024.
See the BLAST+ release notes for more information.