TY  - JOUR
A1  - Papenfort, Kai
A1  - Vogel, Jörg
T1  - Small RNA functions in carbon metabolism and virulence of enteric pathogens
JF  - Frontiers in Cellular and Infection Microbiology
N2  - Enteric pathogens often cycle between virulent and saprophytic lifestyles. To endure these frequent changes in nutrient availability and composition bacteria possess an arsenal of regulatory and metabolic genes allowing rapid adaptation and high flexibility. While numerous proteins have been characterized with regard to metabolic control in pathogenic bacteria, small non-coding RNAs have emerged as additional regulators of metabolism. Recent advances in sequencing technology have vastly increased the number of candidate regulatory RNAs and several of them have been found to act at the interface of bacterial metabolism and virulence factor expression. Importantly, studying these riboregulators has not only provided insight into their metabolic control functions but also revealed new mechanisms of post-transcriptional gene control. This review will focus on the recent advances in this area of host-microbe interaction and discuss how regulatory small RNAs may help coordinate metabolism and virulence of enteric pathogens.
KW  - sRNA
KW  - carbon metabolism
KW  - Hfq
KW  - CsrA
KW  - virulence
Y1  - 2014
U6  - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:bvb:20-opus-197520
SN  - 2235-2988
VL  - 4
IS  - 91
ER  - 
TY  - JOUR
A1  - Dimastrogiovanni, Daniela
A1  - Fröhlich, Kathrin S.
A1  - Bandyra, Katarzyna J.
A1  - Bruce, Heather A.
A1  - Hohensee, Susann
A1  - Vogel, Jörg
A1  - Luisi, Ben F.
T1  - Recognition of the small regulatory RNA RydC by the bacterial Hfq protein
JF  - eLife
N2  - Bacterial small RNAs (sRNAs) are key elements of regulatory networks that modulate gene expression. The sRNA RydC of Salmonella sp. and Escherichia coli is an example of this class of riboregulators. Like many other sRNAs, RydC bears a 'seed' region that recognises specific transcripts through base-pairing, and its activities are facilitated by the RNA chaperone Hfq. The crystal structure of RydC in complex with E. coli Hfq at 3.48 angstrom resolution illuminates how the protein interacts with and presents the sRNA for target recognition. Consolidating the protein-RNA complex is a host of distributed interactions mediated by the natively unstructured termini of Hfq. Based on the structure and other data, we propose a model for a dynamic effector complex comprising Hfq, small RNA, and the cognate mRNA target.
KW  - Hfq
KW  - small RNA
KW  - natively unstructured protein
KW  - protein-RNA recognition
KW  - gene regulation
KW  - Escherichia coli-Hfq
KW  - SM-like protein
KW  - messenger-RNA
KW  - chaperone Hfq
KW  - target recognition
KW  - noncoding RNAs
KW  - interaction surfaces
KW  - crystal-structures
KW  - soluble-RNAs
KW  - C-Terminus
Y1  - 2014
U6  - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:bvb:20-opus-114191
SN  - 2050-084X
VL  - 3
IS  - e05375
ER  - 
TY  - JOUR
A1  - Gorski, Stanislaw A.
A1  - Vogel, Jörg
A1  - Saliba, Antoine-Emmanuel
A1  - Westermann, Alexander J.
T1  - Single-cell RNA-seq: advances and future challenges
N2  - Phenotypically identical cells can dramatically vary with respect to behavior during their lifespan and this variation is reflected in their molecular composition such as the transcriptomic landscape. Singlecell transcriptomics using next-generation transcript sequencing (RNA-seq) is now emerging as a powerful tool to profile cell-to-cell variability on a genomic scale. Its application has already greatly impacted our conceptual understanding of diverse biological processes with broad implications for both basic and clinical research. Different single-cell RNAseq protocols have been introduced and are reviewed here – each one with its own strengths and current limitations. We further provide an overview of the biological questions single-cell RNA-seq has been used to address, the major findings obtained from such studies, and current challenges and expected future developments in this booming field.
KW  - RNS
Y1  - 2014
U6  - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:bvb:20-opus-110993
ER  -