Extensive Reannotation of the Genome of the Model Streptomycete Streptomyces lividans TK24 Based on Transcriptome and Proteome Information.

摘要: Streptomyces lividans TK24 is a relevant Gram-positive soil inhabiting bacterium and one of the model organisms genus Streptomyces. It known for its potential to produce secondary metabolites, antibiotics other industrially products. S. plasmid-free derivative 66 close genetic relative strain coelicolor A3(2). In this study, we used RNA-seq improve initial annotation genome. context, 335 translation start sites (TLS) were corrected, 80 protein-coding sequences (CDS) removed due missing or misleading transcript evidence and, 2,550 CDS could be validated including 769 coding uncharacterized proteins. Furthermore, annotated 116 novel CDS, 14 small RNAs (sRNAs) 2 tRNAs. The data primary 5′-ends transcripts determine transcription (TSS) in We identified 5,580 TSS, which 4,812 assigned 768 antisense transcripts. Using TSS data, promoter regions their motifs analyzed detail, revealing conserved -10 (TAnnnT) weakly -35 region (nTGACn). Moreover, 5´ untranslated (UTRs) genes regarding lengthand revealed 21% leaderless Several cis-regulatory elements, like riboswitches, attenuator structures detected 5´-UTRs. transcriptome comprised 929 operons containing 2,274 genes. genome harbors 29 metabolite gene clusters 28 shown transcribed under at least applied conditions. Comparison reannotated with that A3(2) high similarity. This study presents an extensive reannotation organism based on proteome analyses. analysis insights into structure, 5´-UTRs, transcripts, RNAs. Finally, repertoire was examined. These provide basis future studies characterization, transcriptional regulatory networks, usage as producing strain.