Droste, Julian; Rückert, Christian; Kalinowski, Jörn; Hamed, Mohamed Belal; Anné, Jozef; Simoens, Kenneth; Bernaerts, Kristel; Economou, Anastassios; Busche, Tobias: Extensive Reannotation of the Genome of the Model Streptomycete Streptomyces lividans TK24 Based on Transcriptome and Proteome Information. In: Frontiers in Microbiology. Jg.12. 2021
Inhalt
- Results and Discussion
- Annotating the Genome in a Multi-Omics Approach by Transcriptome and Proteome Data
- Verification of Automatic tRNA Predictions With RNA-seq Data Sets
- Identification of Novel Transcripts in the S. lividans TK24 Genome
- Improving the Annotation of Coding Regions by Correcting Wrongly Predicted Translation Start Sites
- Identification of Transcription Start Sites Through RNA-seq of 5-Ends of Native Transcripts
- Genomic Features Deduced From the Location of Transcription Start Sites of the S. lividans TK24 Genome Sequence
- Analysis of the S. lividans TK24 Transcripts With and Without 5-UTR
- Global Identification of -10 and -35 Promoter Consensus Motifs in the S. lividans TK24 Genome
- Determination of Ribosome Binding Sites in the S. lividans TK24 Genome Sequence
- Analysis of 5-UTRs for Cis-Regulatory Elements
- Identification of Operon Structures by Combining the 5-End and the Whole Transcriptome Data Sets
- The Transcriptional Organization of Secondary Metabolite Gene Clusters
- Methods
- Cultivation Conditions of S. lividans TK24
- Total RNA Isolation and Sequencing of cDNA Libraries Made From mRNA
- Read Mapping and Determination of Transcription Start Sites
- Proteomics Experimental Design and Statistical Rationale
- LC-MS/MS Analysis
- Additional Software Tools
- Conclusion
- Data Availability Statement
- Author Contributions
- Funding
- Acknowledgments
- Supplementary Material
- References