Abstract:
:It is postulated that in addition to cell density, other factors such as the dimensions and diffusional characteristics of the environment could influence quorum sensing (QS) and induction of genetic reprogramming. Modeling studies predict that QS may operate at the level of a single cell, but, owing to experimental challenges, the potential benefits of QS by individual cells remain virtually unexplored. Here we report a physical system that mimics isolation of a bacterium, such as within an endosome or phagosome during infection, and maintains cell viability under conditions of complete chemical and physical isolation. For Staphylococcus aureus, we show that quorum sensing and genetic reprogramming can occur in a single isolated organism. Quorum sensing allows S. aureus to sense confinement and to activate virulence and metabolic pathways needed for survival. To demonstrate the benefit of confinement-induced quorum sensing to individuals, we showed that quorum-sensing bacteria have significantly greater viability over non-QS bacteria.
journal_name
Nat Chem Bioljournal_title
Nature chemical biologyauthors
Carnes EC,Lopez DM,Donegan NP,Cheung A,Gresham H,Timmins GS,Brinker CJdoi
10.1038/nchembio.264subject
Has Abstractpub_date
2010-01-01 00:00:00pages
41-5issue
1eissn
1552-4450issn
1552-4469pii
nchembio.264journal_volume
6pub_type
杂志文章abstract::Sulfoquinovose is produced by photosynthetic organisms at a rate of 10(10) tons per annum and is degraded by bacteria as a source of carbon and sulfur. We have identified Escherichia coli YihQ as the first dedicated sulfoquinovosidase and the gateway enzyme to sulfoglycolytic pathways. Structural and mutagenesis studi...
journal_title:Nature chemical biology
pub_type: 杂志文章
doi:10.1038/nchembio.2023
更新日期:2016-04-01 00:00:00
abstract::We report that simple glycoside donors can drastically shift the equilibria of glycosyltransferase-catalyzed reactions, transforming NDP-sugar formation from an endothermic to an exothermic process. To demonstrate the utility of this thermodynamic adaptability, we highlight the glycosyltransferase-catalyzed synthesis ...
journal_title:Nature chemical biology
pub_type: 杂志文章
doi:10.1038/nchembio.638
更新日期:2011-08-21 00:00:00
abstract::F(1)-ATPase is an ATP-driven rotary motor protein in which the γ-subunit rotates against the catalytic stator ring. Although the reaction scheme of F(1) has mostly been revealed, the timing of inorganic phosphate (P(i)) release remains controversial. Here we addressed this issue by verifying the reversibility of ATP h...
journal_title:Nature chemical biology
pub_type: 杂志文章
doi:10.1038/nchembio.443
更新日期:2010-11-01 00:00:00
abstract::The eukaryotic 26S proteasome controls cellular processes by degrading specific regulatory proteins. Most proteins are targeted for degradation by a signal or degron that consists of two parts: a proteasome-binding tag, typically covalently attached polyubiquitin chains, and an unstructured region that serves as the i...
journal_title:Nature chemical biology
pub_type: 杂志文章
doi:10.1038/nchembio.521
更新日期:2011-03-01 00:00:00
abstract::Amyotrophic lateral sclerosis (ALS) and frontotemporal dementia (FTD) have distinct clinical features but a common pathology--cytoplasmic inclusions rich in transactive response element DNA-binding protein of 43 kDa (TDP43). Rare TDP43 mutations cause ALS or FTD, but abnormal TDP43 levels and localization may cause di...
journal_title:Nature chemical biology
pub_type: 杂志文章
doi:10.1038/nchembio.1563
更新日期:2014-08-01 00:00:00
abstract::Transient receptor potential (TRP) proteins form plasma-membrane cation channels that act as sensors for diverse cellular stimuli. Here, we report a novel activation mechanism mediated by cysteine S-nitrosylation in TRP channels. Recombinant TRPC1, TRPC4, TRPC5, TRPV1, TRPV3 and TRPV4 of the TRPC and TRPV families, wh...
journal_title:Nature chemical biology
pub_type: 杂志文章
doi:10.1038/nchembio821
更新日期:2006-11-01 00:00:00
abstract::What do organic synthesis, mechanistic enzymology, structural biology and glycoscience have in common? They all span chemistry and biology, benefit from and contribute to multidisciplinary approaches, and were up for discussion at a recent symposium in Dublin. ...
journal_title:Nature chemical biology
pub_type:
doi:10.1038/nchembio0206-59
更新日期:2006-02-01 00:00:00
abstract::The N-end rule pathway senses the N-terminal destabilizing residues of degradation substrates for the ubiquitin-proteasome system, whose integrity shields against various human syndromes including cancer and cardiovascular diseases. GID4, a subunit of the ubiquitin ligase GID complex, has been recently identified as t...
journal_title:Nature chemical biology
pub_type: 杂志文章
doi:10.1038/s41589-018-0036-1
更新日期:2018-05-01 00:00:00
abstract::Learning regulatory networks from genomics data is an important problem with applications spanning all of biology and biomedicine. Functional genomics projects offer a cost-effective means of greatly expanding the completeness of our regulatory models, and for some prokaryotic organisms they offer a means of learning ...
journal_title:Nature chemical biology
pub_type: 杂志文章,评审
doi:10.1038/nchembio.122
更新日期:2008-11-01 00:00:00
abstract::Studies of gene function and molecular mechanisms in Plasmodium falciparum are hampered by difficulties in characterizing and measuring phenotypic differences between individual parasites. We screened seven parasite lines for differences in responses to 1,279 bioactive chemicals. Hundreds of compounds were active in i...
journal_title:Nature chemical biology
pub_type: 杂志文章
doi:10.1038/nchembio.215
更新日期:2009-10-01 00:00:00
abstract::Vertebrate vision is initiated by photoisomerization of the visual pigment chromophore 11-cis-retinal and is maintained by continuous regeneration of this retinoid through a series of reactions termed the retinoid cycle. However, toxic side reaction products, especially those involving reactive aldehyde groups of the ...
journal_title:Nature chemical biology
pub_type: 杂志文章
doi:10.1038/nchembio.759
更新日期:2011-12-25 00:00:00
abstract::Regulation of gene expression in response to the changing environment is critical for cell survival. For instance, binding of macrolide antibiotics to the ribosome promotes translation arrest at the leader open reading frames ermCL and ermBL, which is necessary for inducing the antibiotic resistance genes ermC and erm...
journal_title:Nature chemical biology
pub_type: 杂志文章
doi:10.1038/nchembio.1998
更新日期:2016-03-01 00:00:00
abstract::N-Acetylglucosamine β-O-linked to nucleocytoplasmic proteins (O-GlcNAc) is implicated in the regulation of gene expression in organisms, from humans to Drosophila melanogaster. Within Drosophila, O-GlcNAc transferase (OGT) is one of the Polycomb group proteins (PcGs) that act through Polycomb group response elements (...
journal_title:Nature chemical biology
pub_type: 杂志文章
doi:10.1038/nchembio.2247
更新日期:2017-02-01 00:00:00
abstract::Conditional cooperativity is a common mechanism involved in transcriptional regulation of prokaryotic type II toxin-antitoxin operons and is intricately related to bacterial persistence. It allows the toxin component of a toxin-antitoxin module to act as a co-repressor at low doses of toxin as compared to antitoxin. W...
journal_title:Nature chemical biology
pub_type: 杂志文章
doi:10.1038/nchembio.2078
更新日期:2016-07-01 00:00:00
abstract::Biosynthesis enables renewable production of manifold compounds, yet often biosynthetic performance must be improved for it to be economically feasible. Nongenetic, cell-to-cell variations in protein and metabolite concentrations are naturally inherent, suggesting the existence of both high- and low-performance varian...
journal_title:Nature chemical biology
pub_type: 杂志文章
doi:10.1038/nchembio.2046
更新日期:2016-05-01 00:00:00
abstract::We document a new dimension of surface recognition in which communication is controlled through the collective behavior of lipids. Membrane cholesterol induces a tilt in glycolipid receptor headgroup, resulting in loss of access for ligand binding. This property appears to organize erythrocyte blood group presentation...
journal_title:Nature chemical biology
pub_type: 杂志文章
doi:10.1038/nchembio.551
更新日期:2011-05-01 00:00:00
abstract::Methods for imaging and tracking single molecules conjugated with fluorescent probes, called single-molecule tracking (SMT), are now providing researchers with the unprecedented ability to directly observe molecular behaviors and interactions in living cells. Current SMT methods are achieving almost the ultimate spati...
journal_title:Nature chemical biology
pub_type: 杂志文章,评审
doi:10.1038/nchembio.1558
更新日期:2014-07-01 00:00:00
abstract::Bifunctional Rel stringent factors, the most abundant class of RelA/SpoT homologs, are ribosome-associated enzymes that transfer a pyrophosphate from ATP onto the 3' of guanosine tri-/diphosphate (GTP/GDP) to synthesize the bacterial alarmone (p)ppGpp, and also catalyze the 3' pyrophosphate hydrolysis to degrade it. T...
journal_title:Nature chemical biology
pub_type: 杂志文章
doi:10.1038/s41589-020-0520-2
更新日期:2020-08-01 00:00:00
abstract::The chemical scaffolds from which screening libraries are built have strong influence on the libraries' utility for screening campaigns. Here we present analysis of the scaffold composition of several types of commercially available screening collections and compare those compositions to those of drugs and drug candid...
journal_title:Nature chemical biology
pub_type: 杂志文章
doi:10.1038/nchembio0807-442
更新日期:2007-08-01 00:00:00
abstract::Small-molecule inhibitors of kinesin-5 (refs. 1-3), a protein essential for eukaryotic cell division, represent alternatives to antimitotic agents that target tubulin. While tubulin is needed for multiple intracellular processes, the known functions of kinesin-5 are limited to dividing cells, making it likely that kin...
journal_title:Nature chemical biology
pub_type: 杂志文章
doi:10.1038/nchembio812
更新日期:2006-09-01 00:00:00
abstract::AMPA receptors mediate fast excitatory neurotransmission by converting chemical signals into electrical signals, and thus it is important to understand the relationship between their chemical biology and their function. We used single-molecule fluorescence resonance energy transfer to examine the conformations explore...
journal_title:Nature chemical biology
pub_type: 杂志文章
doi:10.1038/nchembio.523
更新日期:2011-03-01 00:00:00
abstract::ADP-ribosylation is a post-translational modification that is known to be involved in cellular homeostasis and stress but has been challenging to analyze biochemically. To facilitate the detection of ADP-ribosylated proteins, we show that an alkyne-adenosine analog, N6-propargyl adenosine (N6pA), is metabolically inco...
journal_title:Nature chemical biology
pub_type: 杂志文章
doi:10.1038/nchembio.2280
更新日期:2017-03-01 00:00:00
abstract::Subtilosin A is a 35-residue, ribosomally synthesized bacteriocin encoded by the sbo-alb operon of Bacillus subtilis. It is composed of a head-to-tail circular peptide backbone that is additionally restrained by three unusual thioether bonds between three cysteines and the α-carbon of one threonine and two phenylalani...
journal_title:Nature chemical biology
pub_type: 杂志文章
doi:10.1038/nchembio.798
更新日期:2012-02-26 00:00:00
abstract::The Watson-Crick base pairs between the 3'-terminal end of tRNAs and ribosomal RNA in the peptidyl transferase center are universally conserved. Here, we report that the introduction of compensatory mutations to Escherichia coli RNAs in this site leads to an orthogonal system independent of the wild-type counterpart, ...
journal_title:Nature chemical biology
pub_type: 杂志文章
doi:10.1038/nchembio.1549
更新日期:2014-07-01 00:00:00
abstract::Gentamicin B (GB), a valuable starting material for the preparation of the semisynthetic aminoglycoside antibiotic isepamicin, is produced in trace amounts by the wild-type Micromonospora echinospora. Though the biosynthetic pathway to GB has remained obscure for decades, we have now identified three hidden pathways t...
journal_title:Nature chemical biology
pub_type: 杂志文章
doi:10.1038/s41589-018-0203-4
更新日期:2019-03-01 00:00:00
abstract::The active site of [NiFe] hydrogenases contains a strictly conserved arginine that suspends a guanidine nitrogen atom <4.5 Å above the nickel and iron atoms. The guanidine headgroup interacts with the side chains of two conserved aspartic acid residues to complete an outer-shell canopy that has thus far proved intract...
journal_title:Nature chemical biology
pub_type: 杂志文章
doi:10.1038/nchembio.1976
更新日期:2016-01-01 00:00:00
abstract::Ferroptosis is a form of regulated necrotic cell death controlled by glutathione peroxidase 4 (GPX4). At present, mechanisms that could predict sensitivity and/or resistance and that may be exploited to modulate ferroptosis are needed. We applied two independent approaches-a genome-wide CRISPR-based genetic screen and...
journal_title:Nature chemical biology
pub_type: 杂志文章
doi:10.1038/nchembio.2239
更新日期:2017-01-01 00:00:00
abstract::Hundreds of human proteins are modified by reversible palmitoylation of cysteine residues (S-palmitoylation), but the regulation of depalmitoylation is poorly understood. Here, we develop 'depalmitoylation probes' (DPPs), small-molecule fluorophores, to monitor the endogenous activity levels of 'erasers' of S-palmitoy...
journal_title:Nature chemical biology
pub_type: 杂志文章
doi:10.1038/nchembio.2262
更新日期:2017-02-01 00:00:00
abstract:: ...
journal_title:Nature chemical biology
pub_type: 评论,杂志文章
doi:10.1038/s41589-018-0174-5
更新日期:2018-12-01 00:00:00
abstract::Excessive aggregation of proteins has a major impact on cell fate and is a hallmark of amyloid diseases in humans. To resolve insoluble deposits and to maintain protein homeostasis, all cells use dedicated protein disaggregation, protein folding and protein degradation factors. Despite intense recent research, the und...
journal_title:Nature chemical biology
pub_type: 杂志文章
doi:10.1038/nchembio.1931
更新日期:2015-11-01 00:00:00