scholarly journals A dual function for a bacterial small RNA: SgrS performs base pairing-dependent regulation and encodes a functional polypeptide

2007 ◽  
Vol 104 (51) ◽  
pp. 20454-20459 ◽  
Author(s):  
C. S. Wadler ◽  
C. K. Vanderpool
Keyword(s):  
Small Rna ◽  
Dual Function ◽  
Base Pairing ◽  
Bacterial Small Rna

scholarly journals The Small Protein SgrT Controls Transport Activity of the Glucose-Specific Phosphotransferase System

2017 ◽  
Vol 199 (11) ◽  
Author(s):  
Chelsea R. Lloyd ◽  
Seongjin Park ◽  
Jingyi Fei ◽  
Carin K. Vanderpool
Keyword(s):  
Small Rna ◽  
Carbon Sources ◽  
Dual Function ◽  
Transport Activity ◽  
Base Pairing ◽  
Small Protein ◽  
Small Proteins ◽  
Carbohydrate Transport ◽  
Biological Problem ◽  
Sugar Phosphates

ABSTRACTThe bacterial small RNA (sRNA) SgrS has been a fruitful model for discovery of novel RNA-based regulatory mechanisms and new facets of bacterial physiology and metabolism. SgrS is one of only a few characterized dual-function sRNAs. SgrS can control gene expression posttranscriptionally via sRNA-mRNA base-pairing interactions. Its second function is coding for the small protein SgrT. Previous work demonstrated that both functions contribute to relief of growth inhibition caused by glucose-phosphate stress, a condition characterized by disrupted glycolytic flux and accumulation of sugar phosphates. The base-pairing activity of SgrS has been the subject of numerous studies, but the activity of SgrT is less well characterized. Here, we provide evidence that SgrT acts to specifically inhibit the transport activity of the major glucose permease PtsG. Superresolution microscopy demonstrated that SgrT localizes to the cell membrane in a PtsG-dependent manner. Mutational analysis determined that residues in the N-terminal domain of PtsG are important for conferring sensitivity to SgrT-mediated inhibition of transport activity. Growth assays support a model in which SgrT-mediated inhibition of PtsG transport activity reduces accumulation of nonmetabolizable sugar phosphates and promotes utilization of alternative carbon sources by modulating carbon catabolite repression. The results of this study expand our understanding of a basic and well-studied biological problem, namely, how cells coordinate carbohydrate transport and metabolism. Further, this work highlights the complex activities that can be carried out by sRNAs and small proteins in bacteria.IMPORTANCESequencing, annotation and investigation of hundreds of bacterial genomes have identified vast numbers of small RNAs and small proteins, the majority of which have no known function. In this study, we explore the function of a small protein that acts in tandem with a well-characterized small RNA during metabolic stress to help bacterial cells maintain balanced metabolism and continue growing. Our results indicate that this protein acts on the glucose transport system, inhibiting its activity under stress conditions in order to allow cells to utilize alternative carbon sources. This work sheds new light on a key biological problem: how cells coordinate carbohydrate transport and metabolism. The study also expands our understanding of the functional capacities of small proteins.

scholarly journals Effects of individual base-pairs on in vivo target search and destruction kinetics of bacterial small RNA

2021 ◽  
Vol 12 (1) ◽  
Author(s):  
Anustup Poddar ◽  
Muhammad S. Azam ◽  
Tunc Kayikcioglu ◽  
Maksym Bobrovskyy ◽  
Jichuan Zhang ◽  
...  
Keyword(s):  
Small Rna ◽  
Base Pair ◽  
High Throughput Sequencing ◽  
Base Pairing ◽  
Target Search ◽  
Single Base ◽  
Base Pair Mismatch ◽  
Single Base Pair ◽  
Bacterial Small Rna

AbstractBase-pairing interactions mediate many intermolecular target recognition events. Even a single base-pair mismatch can cause a substantial difference in activity but how such changes influence the target search kinetics in vivo is unknown. Here, we use high-throughput sequencing and quantitative super-resolution imaging to probe the mutants of bacterial small RNA, SgrS, and their regulation of ptsG mRNA target. Mutations that disrupt binding of a chaperone protein, Hfq, and are distal to the mRNA annealing region still decrease the rate of target association, kon, and increase the dissociation rate, koff, showing that Hfq directly facilitates sRNA–mRNA annealing in vivo. Single base-pair mismatches in the annealing region reduce kon by 24–31% and increase koff by 14–25%, extending the time it takes to find and destroy the target by about a third. The effects of disrupting contiguous base-pairing are much more modest than that expected from thermodynamics, suggesting that Hfq buffers base-pair disruptions.

scholarly journals Base-pairing requirement for RNA silencing by a bacterial small RNA and acceleration of duplex formation by Hfq

2006 ◽  
Vol 61 (4) ◽  
pp. 1013-1022 ◽  
Author(s):  
Hiroshi Kawamoto ◽  
Yukari Koide ◽  
Teppei Morita ◽  
Hiroji Aiba
Keyword(s):  
Small Rna ◽  
Rna Silencing ◽  
Base Pairing ◽  
Bacterial Small Rna ◽  
Duplex Formation

scholarly journals Identification of the Base-Pairing Requirements for Repression of hctA Translation by the Small RNA IhtA Leads to the Discovery of a New mRNA Target in Chlamydia trachomatis

PLoS ONE ◽  
2015 ◽  
Vol 10 (3) ◽  
pp. e0116593 ◽  
Author(s):  
Nicole A. Grieshaber ◽  
Jeremiah S. Tattersall ◽  
Johella Liguori ◽  
Joseph N. Lipat ◽  
Justin Runac ◽  
...  
Keyword(s):  
Chlamydia Trachomatis ◽  
Small Rna ◽  
Base Pairing

scholarly journals Synthetic dual-function RNA reveals features necessary for target regulation

2021 ◽  
Author(s):  
Jordan J. Aoyama ◽  
Medha Raina ◽  
Gisela Storz
Keyword(s):  
Functional Organization ◽  
Regulatory Protein ◽  
Growth Conditions ◽  
Proper Function ◽  
Dual Function ◽  
Bacterial Cells ◽  
Base Pairing ◽  
Small Protein ◽  
Reading Frame ◽  
Small Proteins

Small base pairing RNAs (sRNAs) and small proteins comprise two classes of regulators that allow bacterial cells to adapt to a wide variety of growth conditions. A limited number of transcripts encoding both of these activities, regulation of mRNA expression by base pairing and synthesis of a small regulatory protein, have been identified. Given that few have been characterized, little is known about the interplay between the two regulatory functions. To investigate the competition between the two activities, we constructed synthetic dual-function RNAs, hereafter referred to as MgtSR or MgtRS, comprised of the Escherichia coli sRNA MgrR and the open reading frame encoding the small protein MgtS. MgrR is a 98 nt base pairing sRNA that negatively regulates eptB encoding phosphoethanolamine transferase. MgtS is a 31 aa small inner membrane protein that is required for the accumulation of MgtA, a magnesium (Mg 2+ ) importer. Expression of the separate genes encoding MgrR and MgtS is normally induced in response to low Mg 2+ by the PhoQP two-component system. By generating various versions of this synthetic dual-function RNA, we probed how the organization of components and the distance between the coding and base pairing sequences contribute to the proper function of both activities of a dual-function RNA. By understanding the features of natural and synthetic dual-function RNAs, future synthetic molecules can be designed to maximize their regulatory impact. IMPORTANCE Dual-function RNAs in bacteria encode a small protein and also base pair with mRNAs to act as small, regulatory RNAs. Given that only a limited number of dual-function RNAs have been characterized, further study of these regulators is needed to increase understanding of their features. This study demonstrates that a functional synthetic dual-regulator can be constructed from separate components and used to study the functional organization of dual-function RNAs, with the goal of exploiting these regulators.

Sign in / Sign up

Export Citation Format

Share Document