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RISSC - Ribosomal Internal Spacer Sequence Collection


NAR Molecular Biology Database Collection entry number 244
Casado, J.C.A., GarcÍa-MartÍnez, J., RodrÍguez-Sala, J.J., RodrÍguez-Valera, F.
DivisiÓn de MicrobiologÍa, Campus de San Juan, Universidad Miguel HernÁndez, Alicante, Spain
Contact frvalera@umh.es

Database Description

This is a database of ribosomal 16S-23S spacer sequences intended mainly for molecular biology studies in typing, phylogeny and population genetics. It compiles more than 2500 entries of edited DNA sequence data from the 16S-23S ribosomal spacers present in most prokaryotes and organelles. Ribosomal spacers have proven to be extremely useful tools for typing and identifying closely related prokaryotes due to their high variability in size and/or sequence, much more so than the flanking 16S and 23S rRNA genes. These genes are commonly used to establish molecular relationships among microbes at a taxonomic level of species or higher (e.g genus, domain). However their internal transcribed spacers (ITS) are much more useful to discriminate at the species or even strain level. Currently, many published papers are showing the growing importance of these regions of the ribosomal operon in these types of studies. By creating RISSC, our intention is to provide the scientific community with a comprehensive set of ribosomal spacer sequences, fully edited and characterized with a key feature as is the presence/absence of tRNA genes within them, ready to be used and compared with their own ITS sequences. A second, much shorter, ribosomal spacer can be found between rRNA genes 23S and 5S, also of phylogenetic interest. We intend to incorporate them into the database in the near future.


Go to the abstract in the NAR 2001 Database Issue.
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