The transcriptional landscape and small RNAs of Salmonella enterica serovar Typhimurium

Publication: Research - peer-reviewJournal article – Annual report year: 2012

Standard

The transcriptional landscape and small RNAs of Salmonella enterica serovar Typhimurium. / Kröger, Carsten; Dillon, Shane C.; Cameron, Andrew D. S.; Papenfort, Kai; Sivasankaran, Sathesh K.; Hokamp, Karsten; Chao, Yanjie; Sittka, Alexandra; Hébrard, Magali; Händler, Kristian; Colgan, Aoife; Leekitcharoenphon, Pimlapas; Langridge, Gemma C.; Lohan, Amanda J.; Loftus, Brendan; Lucchini, Sacha; Ussery, David; Dorman, Charles J.; Thomson, Nicholas R.; Vogel, Jörg; Hinton, Jay C. D.

In: National Academy of Sciences. Proceedings, Vol. 109, No. 20, 2012, p. E1277-E1286.

Publication: Research - peer-reviewJournal article – Annual report year: 2012

Harvard

Kröger, C, Dillon, SC, Cameron, ADS, Papenfort, K, Sivasankaran, SK, Hokamp, K, Chao, Y, Sittka, A, Hébrard, M, Händler, K, Colgan, A, Leekitcharoenphon, P, Langridge, GC, Lohan, AJ, Loftus, B, Lucchini, S, Ussery, D, Dorman, CJ, Thomson, NR, Vogel, J & Hinton, JCD 2012, 'The transcriptional landscape and small RNAs of Salmonella enterica serovar Typhimurium' National Academy of Sciences. Proceedings, vol 109, no. 20, pp. E1277-E1286., 10.1073/pnas.1201061109

APA

Kröger, C., Dillon, S. C., Cameron, A. D. S., Papenfort, K., Sivasankaran, S. K., Hokamp, K., ... Hinton, J. C. D. (2012). The transcriptional landscape and small RNAs of Salmonella enterica serovar Typhimurium. National Academy of Sciences. Proceedings, 109(20), E1277-E1286. 10.1073/pnas.1201061109

CBE

Kröger C, Dillon SC, Cameron ADS, Papenfort K, Sivasankaran SK, Hokamp K, Chao Y, Sittka A, Hébrard M, Händler K, Colgan A, Leekitcharoenphon P, Langridge GC, Lohan AJ, Loftus B, Lucchini S, Ussery D, Dorman CJ, Thomson NR, Vogel J, Hinton JCD. 2012. The transcriptional landscape and small RNAs of Salmonella enterica serovar Typhimurium. National Academy of Sciences. Proceedings. 109(20):E1277-E1286. Available from: 10.1073/pnas.1201061109

MLA

Vancouver

Kröger C, Dillon SC, Cameron ADS, Papenfort K, Sivasankaran SK, Hokamp K et al. The transcriptional landscape and small RNAs of Salmonella enterica serovar Typhimurium. National Academy of Sciences. Proceedings. 2012;109(20):E1277-E1286. Available from: 10.1073/pnas.1201061109

Author

Kröger, Carsten; Dillon, Shane C.; Cameron, Andrew D. S.; Papenfort, Kai; Sivasankaran, Sathesh K.; Hokamp, Karsten; Chao, Yanjie; Sittka, Alexandra; Hébrard, Magali; Händler, Kristian; Colgan, Aoife; Leekitcharoenphon, Pimlapas; Langridge, Gemma C.; Lohan, Amanda J.; Loftus, Brendan; Lucchini, Sacha; Ussery, David; Dorman, Charles J.; Thomson, Nicholas R.; Vogel, Jörg; Hinton, Jay C. D. / The transcriptional landscape and small RNAs of Salmonella enterica serovar Typhimurium.

In: National Academy of Sciences. Proceedings, Vol. 109, No. 20, 2012, p. E1277-E1286.

Publication: Research - peer-reviewJournal article – Annual report year: 2012

Bibtex

@article{bcce9c69fca64167a2ad1d857a6a7d3d,
title = "The transcriptional landscape and small RNAs of Salmonella enterica serovar Typhimurium",
keywords = "Transcriptional mapping, Noncoding RNA, Posttranscriptional regulation, Pathogenicity, Genome sequence",
publisher = "National Academy of Sciences",
author = "Carsten Kröger and Dillon, {Shane C.} and Cameron, {Andrew D. S.} and Kai Papenfort and Sivasankaran, {Sathesh K.} and Karsten Hokamp and Yanjie Chao and Alexandra Sittka and Magali Hébrard and Kristian Händler and Aoife Colgan and Pimlapas Leekitcharoenphon and Langridge, {Gemma C.} and Lohan, {Amanda J.} and Brendan Loftus and Sacha Lucchini and David Ussery and Dorman, {Charles J.} and Thomson, {Nicholas R.} and Jörg Vogel and Hinton, {Jay C. D.}",
year = "2012",
doi = "10.1073/pnas.1201061109",
volume = "109",
number = "20",
pages = "E1277--E1286",
journal = "National Academy of Sciences. Proceedings",
issn = "0027-8424",

}

RIS

TY - JOUR

T1 - The transcriptional landscape and small RNAs of Salmonella enterica serovar Typhimurium

A1 - Kröger,Carsten

A1 - Dillon,Shane C.

A1 - Cameron,Andrew D. S.

A1 - Papenfort,Kai

A1 - Sivasankaran,Sathesh K.

A1 - Hokamp,Karsten

A1 - Chao,Yanjie

A1 - Sittka,Alexandra

A1 - Hébrard,Magali

A1 - Händler,Kristian

A1 - Colgan,Aoife

A1 - Leekitcharoenphon,Pimlapas

A1 - Langridge,Gemma C.

A1 - Lohan,Amanda J.

A1 - Loftus,Brendan

A1 - Lucchini,Sacha

A1 - Ussery,David

A1 - Dorman,Charles J.

A1 - Thomson,Nicholas R.

A1 - Vogel,Jörg

A1 - Hinton,Jay C. D.

AU - Kröger,Carsten

AU - Dillon,Shane C.

AU - Cameron,Andrew D. S.

AU - Papenfort,Kai

AU - Sivasankaran,Sathesh K.

AU - Hokamp,Karsten

AU - Chao,Yanjie

AU - Sittka,Alexandra

AU - Hébrard,Magali

AU - Händler,Kristian

AU - Colgan,Aoife

AU - Leekitcharoenphon,Pimlapas

AU - Langridge,Gemma C.

AU - Lohan,Amanda J.

AU - Loftus,Brendan

AU - Lucchini,Sacha

AU - Ussery,David

AU - Dorman,Charles J.

AU - Thomson,Nicholas R.

AU - Vogel,Jörg

AU - Hinton,Jay C. D.

PB - National Academy of Sciences

PY - 2012

Y1 - 2012

N2 - More than 50 y of research have provided great insight into the physiology, metabolism, and molecular biology of Salmonella enterica serovar Typhimurium (S. Typhimurium), but important gaps in our knowledge remain. It is clear that a precise choreography of gene expression is required for Salmonella infection, but basic genetic information such as the global locations of transcription start sites (TSSs) has been lacking. We combined three RNA-sequencing techniques and two sequencing platforms to generate a robust picture of transcription in S. Typhimurium. Differential RNA sequencing identified 1,873 TSSs on the chromosome of S. Typhimurium SL1344 and 13% of these TSSs initiated antisense transcripts. Unique findings include the TSSs of the virulence regulators phoP, slyA, and invF. Chromatin immunoprecipitation revealed that RNA polymerase was bound to 70% of the TSSs, and two-thirds of these TSSs were associated with σ70 (including phoP, slyA, and invF) from which we identified the −10 and −35 motifs of σ70-dependent S. Typhimurium gene promoters. Overall, we corrected the location of important genes and discovered 18 times more promoters than identified previously. S. Typhimurium expresses 140 small regulatory RNAs (sRNAs) at early stationary phase, including 60 newly identified sRNAs. Almost half of the experimentally verified sRNAs were found to be unique to the Salmonella genus, and

AB - More than 50 y of research have provided great insight into the physiology, metabolism, and molecular biology of Salmonella enterica serovar Typhimurium (S. Typhimurium), but important gaps in our knowledge remain. It is clear that a precise choreography of gene expression is required for Salmonella infection, but basic genetic information such as the global locations of transcription start sites (TSSs) has been lacking. We combined three RNA-sequencing techniques and two sequencing platforms to generate a robust picture of transcription in S. Typhimurium. Differential RNA sequencing identified 1,873 TSSs on the chromosome of S. Typhimurium SL1344 and 13% of these TSSs initiated antisense transcripts. Unique findings include the TSSs of the virulence regulators phoP, slyA, and invF. Chromatin immunoprecipitation revealed that RNA polymerase was bound to 70% of the TSSs, and two-thirds of these TSSs were associated with σ70 (including phoP, slyA, and invF) from which we identified the −10 and −35 motifs of σ70-dependent S. Typhimurium gene promoters. Overall, we corrected the location of important genes and discovered 18 times more promoters than identified previously. S. Typhimurium expresses 140 small regulatory RNAs (sRNAs) at early stationary phase, including 60 newly identified sRNAs. Almost half of the experimentally verified sRNAs were found to be unique to the Salmonella genus, and

KW - Transcriptional mapping

KW - Noncoding RNA

KW - Posttranscriptional regulation

KW - Pathogenicity

KW - Genome sequence

U2 - 10.1073/pnas.1201061109

DO - 10.1073/pnas.1201061109

JO - National Academy of Sciences. Proceedings

JF - National Academy of Sciences. Proceedings

SN - 0027-8424

IS - 20

VL - 109

SP - E1277-E1286

ER -