We have a curated set of ribosomal RNA (rRNA) reference sequences (Targeted Loci) with verifiable organism sources and current names. This set is critical for correctly identifying and classifying prokaryotic (bacteria and archaea) and fungal samples (Table 1). To provide easy access to these sequences, we recently added a separate rRNA/ITS databases section on the nucleotide BLAST page for these targeted sequences that makes it convenient to quickly identify source organisms (Figure 1)
Database | BioProjects | Sequences |
16S ribosomal RNA (Bacteria and Archaea) | PRJNA33317 , PRJNA33175
|
20,845 |
18S ribosomal RNA sequences (SSU) from Fungi type and reference material | PRJNA39195 | 2,337 |
28S ribosomal RNA sequences (LSU) from Fungi type and reference material | PRJNA51803 | 5,185 |
Internal transcribed spacer region (ITS) from Fungi and Oomycete type and reference material | PRJNA177353, PRJNA362621
|
10,874 |
Table 1. NCBI curated targeted rRNA sequences now available as BLAST databases. Continue reading “New ribosomal RNA BLAST databases available on the web BLAST service and for download”