Perkins, TT, Kingsley, RA, Fookes, MC, Gardner, PP, James, KD, Yu, L, Assefa, SA, He, M, Croucher, NJ, Pickard, DJ, Maskell, DJ, Parkhill, J, Choudhary, J, Thomson, NR and Dougan, G. 2009. A Strand-Specific RNA–Seq Analysis of the Transcriptome of the Typhoid Bacillus Salmonella Typhi. [Online]. PLOS Genetics. Available from: https://doi.org/10.1371/journal.pgen.1000569
Perkins, TT, Kingsley, RA, Fookes, MC, Gardner, PP, James, KD, Yu, L, Assefa, SA, He, M, Croucher, NJ, Pickard, DJ, Maskell, DJ, Parkhill, J, Choudhary, J, Thomson, NR and Dougan, G. A Strand-Specific RNA–Seq Analysis of the Transcriptome of the Typhoid Bacillus Salmonella Typhi [Internet]. PLOS Genetics; 2009. Available from: https://doi.org/10.1371/journal.pgen.1000569
Perkins, TT, Kingsley, RA, Fookes, MC, Gardner, PP, James, KD, Yu, L, Assefa, SA, He, M, Croucher, NJ, Pickard, DJ, Maskell, DJ, Parkhill, J, Choudhary, J, Thomson, NR and Dougan, G (2009). A Strand-Specific RNA–Seq Analysis of the Transcriptome of the Typhoid Bacillus Salmonella Typhi. [Data Collection]. PLOS Genetics. https://doi.org/10.1371/journal.pgen.1000569
Description
High-density, strand-specific cDNA sequencing (ssRNA–seq) was used to analyze the transcriptome of Salmonella enterica serovar Typhi (S. Typhi). By mapping sequence data to the entire S. Typhi genome, we analyzed the transcriptome in a strand-specific manner and further defined transcribed regions encoded within prophages, pseudogenes, previously un-annotated, and 3′- or 5′-untranslated regions (UTR). An additional 40 novel candidate non-coding RNAs were identified beyond those previously annotated. Proteomic analysis was combined with transcriptome data to confirm and refine the annotation of a number of hpothetical genes. ssRNA–seq was also combined with microarray and proteome analysis to further define the S. Typhi OmpR regulon and identify novel OmpR regulated transcripts. Thus, ssRNA–seq provides a novel and powerful approach to the characterization of the bacterial transcriptome.
| Data capture method | Other |
|---|---|
| Date (Date published in a 3rd party system) | 17 July 2009 |
| Language(s) of written materials | English |
| Data Creators | Perkins, TT, Kingsley, RA, Fookes, MC, Gardner, PP, James, KD, Yu, L, Assefa, SA, He, M, Croucher, NJ, Pickard, DJ, Maskell, DJ, Parkhill, J, Choudhary, J, Thomson, NR and Dougan, G |
|---|---|
| LSHTM Faculty/Department | Faculty of Infectious and Tropical Diseases > Dept of Pathogen Molecular Biology |
| Participating Institutions | London School of Hygiene & Tropical Medicine, London, United Kingdom |
| Date Deposited | 05 Mar 2019 10:10 |
|---|---|
| Last Modified | 30 Sep 2021 13:50 |
| Publisher | PLOS Genetics |
