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Dr. C. Kröger - Research Page

Research Activities – Assistant Professor Carsten Kröger

Functional Genomics of Pathogenic Bacteria

Carsten Kröger
Dipl.-Biol., Dr. rer. nat.
Assistant Professor in Microbiology


Phone: +353 1 896 1414öger.pdf

Google Scholar link: Google Scholar Profile - Carsten Kröger

Salmonella Expression Compendium (SalCom): SalCom Website

Acinetobacter Expression Compendium (AcinetoCom): AcinetoCom Website

Follow us on Twitter - @KroegerLab:

Research in the Kröger Lab
Our research focusses on virulence gene regulation, antibiotic resistance and RNA biology of Gram-negative bacterial pathogens using Salmonella enterica and Acinetobacter baumannii as model organisms. To adapt and respond to changing conditions during infection and in the environment, bacteria possess the remarkable ability to modulate their gene expression programs quickly and efficiently. We use whole genome (Next-Generation Sequencing, RNA-seq) and gene specific methods to study transcriptional networks, mechanisms and antibiotic resistance of Gram-negative pathogens and their regulation (by small RNAs and protein transcription factors) to understand how bacterial pathogens sense, respond and survive during environmental changes.

If you're interested in working with us, please do not hesitate to contact Carsten directly:

Research Personnel
Research Fellows
Dr Aleksandra Miranda Caso Luengo;

Postgraduate Students
Stefani Kary;

Current collaborators:
Jay C.D. Hinton, University of Liverpool, UK
Andrew D.S. Cameron, University of Regina, Canada
Tzu-Chiao Chao, University of Regina, Canada
Shabarinath Srikumar, University College Dublin, Ireland
Kristina Schauer, Ludwig-Maximilians Universität München, Germany
Thilo M. Fuchs, Friedrich-Loeffler-Institut Jena, Germany
Karsten Hokamp, Trinity College Dublin, Ireland
Marc Erhardt, Humboldt University, Berlin, Germany

Former lab members:

Conal Brown (Senior Sophister Project 2017-18)
Sean Clerkin (Senior Sophister Project 2017-18)
Naoise McGarry (Senior Sophister Project 2017-18)
Maria Conway (Senior Sophister Project 2016-17)
Sally Felle (Senior Sophister Project 2016-17)
Kevin Lyons (Senior Sophister Project 2016-17)
Cormac O’Grifin (Senior Sophister Project 2016-17)
Jessica Fletcher (Senior Sophister Project 2015-16)
Julie McGrath (Senior Sophister Project 2015-16)
Agnieszka Sobolewska (Senior Sophister Project 2015-16)

Emma Bouvy (Erasmus fellowship, Radboud University Nijmegen, 2017)
Vivian Monzon (Erasmus fellowship, Johannes Gutenberg Universität Mainz, 2016)
Marina Martinez (Erasmus fellowship, Universitat Autonoma of Barcelona, 2016)

Highlighted Publications:
Role of a single noncoding nucleotide in the evolution of an African clade of Salmonella.
Hammarlöf DL*, Kröger C*, Owen SV*, Canals R, Lacharme-Lora L, Wenner N, Schager AE, Wells TJ, Henderson IR, Wigley P, Hokamp K, Feasey NA, Gordon MA, Hinton JC
Proc Natl Acad Sci U S A. 2018 Mar 13;115(11):E2614-E2623. doi: 10.1073/pnas.1714718115.
*Contributed equally

RNA-seq Brings New Insights to the Intra-Macrophage Transcriptome of Salmonella Typhimurium
Srikumar S*, Kröger C*, Hébrard M, Colgan A, Owen SV, Sivasankaran SK, Cameron AD, Hokamp K, Hinton JC.
PLoS Pathog . 2015 Nov 12;11(11):e1005262. doi: 10.1371/journal.ppat.1005262. eCollection 2015 Nov.
*Contributed equally

An infection-relevant transcriptomic compendium for Salmonella enterica serovar Typhimurium.
Kröger C , Colgan A, Srikumar S, Händler K, Sivasankaran SK, Hammarlöf DL, Canals R, Grissom JE, Conway T, Hokamp K, Hinton JC.
Cell Host Microbe. 2013 Dec 11;14(6):683-95. doi: 10.1016/j.chom.2013.11.010.

The transcriptional landscape and small RNAs of Salmonella enterica serovar Typhimurium.
Kröger C , Dillon SC, Cameron AD, 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 DW, Dorman CJ, Thomson NR, Vogel J, Hinton JC.
Proc Natl Acad Sci U S A. 2012 May 15;109(20):E1277-86. doi: 10.1073/pnas.1201061109. Epub 2012 Apr 25.


The primary transcriptome, small RNAs and regulation of antimicrobial resistance in Acinetobacter baumannii
Kröger C , MacKenzie KD, Al-shabib EY, Kirzinger MW, Suchan DM, Chao TC, Akulova V, Miranda-CasoLuengo AA, Monzon VA, Conway T, Sivasankaran SK, Hinton JC, Hokamp K, Cameron AD.
bioRxiv, 2017 doi:

Broad-scale distribution of mRNA abundance and transcriptional machinery in response to growth rate in Salmonella enterica serovar Typhimurum.
Cameron AD, Dillon SC, Kröger C , Beran L, Dorman CJ.
Microb Genom. 2017 Aug 4;3(10):e000127. doi: 10.1099/mgen.0.000127.

Small RNA, big Effect: Control of Flagellin Production.
Miranda CasoLuengo AA, Kary SC, Erhardt M, Kröger C.
Trends Microbiol. 2017 Dec;25(12):953-954. doi: 10.1016/j.tim.2017.10.003. Review

If it transcribes, we can sequence it: mining the complexities of host-pathogen-environment interactions using RNA-seq.
Colgan AM, Cameron AD, Kröger C.
Curr Opin Microbiol. 2017 Feb 9;36:37-46. doi: 10.1016/j.mib.2017.01.010. Review.

Whole-Genome Sequence and Annotation of Salmonella enterica subsp. enterica Serovar Enteritidis Phage Type 8 Strain EN1660.
Perry BJ, Fitzgerald SF, Kröger C , Cameron AD.
Genome Announc. 2017 Jan 26;5(4). pii: e01517-16. doi: 10.1128/genomeA.01517-16.

Genetic Regulation of Virulence and Antibiotic Resistance in Acinetobacter baumannii.
Kröger C , Kary SC, Schauer K, Cameron AD.
Genes (Basel). 2016 Dec 28;8(1). pii: E12. doi: 10.3390/genes8010012. Review.

The Impact of 18 Ancestral and Horizontally-Acquired Regulatory Proteins upon the Transcriptome and sRNA Landscape of Salmonella enterica serovar Typhimurium.
Colgan AM, Kröger C , Diard M, Hardt WD, Puente JL, Sivasankaran SK, Hokamp K, Hinton JC.
PLoS Genet. 2016 Aug 26;12(8):e1006258. doi: 10.1371/journal.pgen.1006258.

Bistable expression of CsgD in Salmonella enterica serovar Typhimurium connects virulence to persistence.
MacKenzie KD, Wang Y, Shivak DJ, Wong CS, Hoffman LJ, Lam S, Kröger C , Cameron AD, Townsend HG, Köster W, White AP.
Infect Immun. 2015 Jun;83(6):2312-26. doi: 10.1128/IAI.00137-15. Epub 2015 Mar 30.

The orphan regulator ReiD of Salmonella enterica is essential for myo -inositol utilization.
Rothhardt JE, Kröger C , Broadley SP, Fuchs TM.
Mol Microbiol. 2014 Nov;94(3):700-12. doi: 10.1111/mmi.12788. Epub 2014 Oct 6.

Transmission of an oxygen availability signal at the Salmonella enterica serovar Typhimurium fis promoter.
Cameron AD, Kröger C , Quinn HJ, Scally IK, Daly AJ, Kary SC, Dorman CJ.
PLoS One. 2013 Dec 16;8(12):e84382. doi: 10.1371/journal.pone.0084382. eCollection 2013.

sRNAs and the virulence of Salmonella enterica serovar Typhimurium.
Hébrard M, Kröger C , Srikumar S, Colgan A, Händler K, Hinton JC.
RNA Biol. 2012 Apr;9(4):437-45. doi: 10.4161/rna.20480. Epub 2012 Apr 1. Review.

The challenge of relating gene expression to the virulence of Salmonella enterica serovar Typhimurium.
Hébrard M, Kröger C , Sivasankaran SK, Händler K, Hinton JC.
Curr Opin Biotechnol. 2011 Apr;22(2):200-10. doi: 10.1016/j.copbio.2011.02.007. Epub 2011 Mar 22. Review.

Bistability in myo -inositol utilization by Salmonella enterica serovar Typhimurium.
Kröger C* , Srikumar S*, Ellwart J, Fuchs TM.
J Bacteriol. 2011 Mar;193(6):1427-35. doi: 10.1128/JB.00043-10. Epub 2011 Jan 14.
*contributed equally

myo -Inositol transport by Salmonella enterica serovar Typhimurium.
Kröger C , Stolz J, Fuchs TM.
Microbiology. 2010 Jan;156(Pt 1):128-38. doi: 10.1099/mic.0.032250-0. Epub 2009 Oct 15.

Characterization of the myo -inositol utilization island of Salmonella enterica serovar Typhimurium.
Kröger C , Fuchs TM.
J Bacteriol. 2009 Jan;191(2):545-54. doi: 10.1128/JB.01253-08. Epub 2008 Nov 14.

Escherichia coli twin arginine (Tat) mutant translocases possessing relaxed signal peptide recognition specificities.
Kreutzenbeck P, Kröger C , Lausberg F, Blaudeck N, Sprenger GA, Freudl R.
J Biol Chem. 2007 Mar 16;282(11):7903-11. Epub 2007 Jan 16.

Last updated 25 April 2018 by Microbiology (Email).