An azumamide C analogue without the zinc-binding functionality

Histone deacetylase (HDAC) inhibitors have attracted considerable attention due to their promise as therapeutic agents.</p

The <i>agr</i> inhibitors solonamide B and analogues alter immune responses to <i>Staphylococccus aureus</i> but do not exhibit adverse effects on immune cell functions

Staphylococcus aureus infections are becoming increasingly difficult to treat due to antibiotic resistance with the community-associated methicillin-resistant S. aureus (CA-MRSA) strains such as USA300 being of particular concern. The inhibition of bacterial virulence has been proposed as an alternative approach to treat multi-drug resistant pathogens. One interesting anti-virulence target is the agr quorum-sensing system, which regulates virulence of CA-MRSA in response to agr-encoded autoinducing peptides. Agr regulation confines exotoxin production to the stationary growth phase with concomitant repression of surface-expressed adhesins. Solonamide B, a non-ribosomal depsipeptide of marine bacterial origin, was recently identified as a putative anti-virulence compound that markedly reduced expression of α-hemolysin and phenol-soluble modulins. To further strengthen solonamide anti-virulence candidacy, we report the chemical synthesis of solonamide analogues, investigation of structure-function relationships, and assessment of their potential to modulate immune cell functions. We found that structural differences between solonamide analogues confer significant differences in interference with agr, while immune cell activity and integrity is generally not affected. Furthermore, treatment of S. aureus with selected solonamides was found to only marginally influence the interaction with fibronectin and biofilm formation, thus addressing the concern that application of compounds inducing an agr-negative state may have adverse interactions with host factors in favor of host colonization

Chemical Editing of Macrocyclic Natural Products and Kinetic Profiling Reveal Slow, Tight-Binding Histone Deacetylase Inhibitors with Picomolar Affinities

Histone deacetylases (HDACs) are validated targets for treatment of certain cancer types and play numerous regulatory roles in biology, ranging from epigenetics to metabolism. Small molecules are highly important as tool compounds for probing these mechanisms as well as for the development of new medicines. Therefore, detailed mechanistic information and precise characterization of the chemical probes used to investigate the effects of HDAC enzymes are vital. We interrogated Nature’s arsenal of macrocyclic nonribosomal peptide HDAC inhibitors by chemical synthesis and evaluation of more than 30 natural products and analogues. This furnished surprising trends in binding affinities for the various macrocycles, which were then exploited for the design of highly potent class I and IIb HDAC inhibitors. Furthermore, thorough kinetic investigation revealed unexpected inhibitory mechanisms of important tool compounds as well as the approved drug Istodax (romidepsin). This work provides novel inhibitors with varying potencies, selectivity profiles, and mechanisms of inhibition and, importantly, affords insight into known tool compounds that will improve the interpretation of their effects in biology and medicine

Lipids Reprogram Metabolism to Become a Major Carbon Source for Histone Acetylation

Cells integrate nutrient sensing and metabolism to coordinate proper cellular responses to a particular nutrient source. For example, glucose drives a gene expression program characterized by activating genes involved in its metabolism, in part by increasing glucose-derived histone acetylation. Here, we find that lipid-derived acetyl-CoA is a major source of carbon for histone acetylation. Using 13C-carbon tracing combined with acetyl-proteomics, we show that up to 90% of acetylation on certain histone lysines can be derived from fatty acid carbon, even in the presence of excess glucose. By repressing both glucose and glutamine metabolism, fatty acid oxidation reprograms cellular metabolism, leading to increased lipid-derived acetyl-CoA. Gene expression profiling of octanoate-treated hepatocytes shows a pattern of upregulated lipid metabolic genes, demonstrating a specific transcriptional response to lipid. These studies expand the landscape of nutrient sensing and uncover how lipids and metabolism are integrated by epigenetic events that control gene expression

Compound and AIP Structures.

<p>Structures of autoinducing peptides (AIP-I and III) used in the study as well as tested depsipeptides and their modified lactam analogues.</p

Solonamides (A) and lactam analogues (B) differentially interfere with AgrC activation as monitored by direct RNAIII expression.

<p>Cultures of RN10829 (P2-agrA:P3-blaZ) containing the pagrC-I-WT, were grown to an OD₆₀₀ of 0.4–0.5 where a 1/10 volume of AIP-I containing supernatant was added and solonamides and analogues in DMSO to a final concentration of 10 μg/mL. Samples obtained at 15 min time intervals after addition of test solutions were analysed for β-lactamase activity. Each bar represents the average of 3 replicates and the error bars represent the standard deviation. Comparisons were made for each individual time point between AIP and AIP + Compound samples. ns (no significance); *, p<0.05; **, p<0.01; ***, p<0.001.</p

Solonamides marginally enhance biofilm formation of WT strain 8325–4.

<p>A dilution series of an 8325–4 culture were inoculated (5 μL) into wells of a 96-well microtiter plate containing 200 μL TSB. SolB (A), ESB (C) or Am16-L (C) was added to final concentrations of 5, 10, 20, 40, and 80μg/mL. Inoculum alone, DMSO and no inoculum were used as controls. Biofilm formation was assessed by crystal violet staining and OD590 nm measurement. Each bar represents the average of 3 experiments, and the error bars represent the standard deviation. For statistical significance, comparisons were made between untreated versus vehicle and treated (black bracket), and between vehicle control versus compound treated (red square). ns (no significance);*, p<0.05; **, p<0.01; ***, p<0.001.</p

Biological validation of the synthetic solonamides (a) and lactam analogues (b).

<p>Agar plates containing the <i>hla–lacZ</i> (PC322), the <i>rnaIII-lacZ</i> (SH101F7) or <i>spa–lacZ</i> (PC203) reporter strains of <i>S</i>. <i>aureus</i> were exposed to DMSO (20 μL) containing the test compound (0.5 mg/mL). Vehicle (DMSO), H₂O, AIP-I (autologous) and AIP-III (heterologous) were used as controls. Virulence gene down-regulation is represented by a white zone and up-regulation by a darker than background blue zone.</p