CRISPR sequences are sometimes erroneously translated and can contaminate public databases with spurious proteins containing spaced repeats. (18th November 2020)

• Record Type: Journal Article
• Authors: Rubio, Alejandro; Mier, Pablo; Andrade-Navarro, Miguel A; Garzón, Andrés; Jiménez, Juan; Pérez-Pulido, Antonio J
• Is Part Of: Database. Volume 2020(2020)
• Publication Date: 2020-11-18
• Subjects: Biology -- Databases -- Periodicals; Bioinformatics -- Periodicals; 570.285
• DOI: 10.1093/database/baaa088
• Languages: English
• ISSNs: 1758-0463

Abstract

Abstract: The genomics era is resulting in the generation of a plethora of biological sequences that are usually stored in public databases. There are many computational tools that facilitate the annotation of these sequences, but sometimes they produce mistakes that enter the databases and can be propagated when erroneous data are used for secondary analyses, such as gene prediction or homology searching. While developing a computational gene finder based on protein-coding sequences, we discovered that the reference UniProtKB protein database is contaminated with some spurious sequences translated from DNA containing clustered regularly interspaced short palindromic repeats. We therefore encourage developers of prokaryotic computational gene finders and protein database curators to consider this source of error.