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Ramachandran, R.

Publications and source records attributed to Ramachandran, R..

44 records · Page 3Linked to original sources

Identification of Proteinase Activated Receptor (PAR) cleaving enzymes in human osteoarthritis knee joint synovial fluids.

ObjectiveOsteoarthritis (OA) is the most prevalent joint disorder with incidence increasing worldwide. Mechanistic insights into OA pathophysiology are still evolving and there are currently no disease-modifying OA drugs available. It is well established that an increase in proteolytic enzyme activity is linked to progressive degradation of the cartilage in OA. Proteolytic enzymes can also trigger inflammation through activation of a family of G-protein coupled receptors (GPCRs) called the Proteinase Activated Receptors (PARs). Here we sought to characterize the PAR activating enzyme repertoire in human OA knee joint fluids. MethodsHuman knee joint synovial fluids derived from twenty-five OA patients and four healthy donors were screened for PAR cleavage activity using novel genetically encoded human PAR biosensor expressing cells. The class or type of enzymes cleaving the PARs was further characterized using enzyme-selective inhibitors and enzyme-specific fluorogenic substrates. ResultsActivity of PAR1, PAR2 and PAR4 activating enzymes were identified at substantially different levels in OA patients relative to healthy knee joint synovial fluids. Using enzyme class or type selective inhibitors and fluorogenic substrates we found that serine proteinases, including thrombin-like enzymes, trypsin-like enzymes, and matrix metalloproteinases are the major PAR activating enzymes present in the OA knee synovial fluids. ConclusionsMultiple enzymes activating PAR1, PAR2 and PAR4 are present in OA joint fluids. PAR signalling can trigger pro-inflammatory responses and targeting PARs has been proposed as a therapeutic approach in OA. Knowledge of the PAR activators present in the human knee joint will guide study of relevant signaling events and enable future development of novel PAR targeted therapies for OA and other inflammatory joint diseases.

pharmacology and toxicology↗

Spatial separation of Streptomyces aerial mycelium during fermentation enhances secondary metabolite production

Conditioning of morphology is an effective technique to enhance secondary metabolite production by Streptomyces. Here we report a novel conditioning method employing glass marbles in batch cultures to enhance secondary metabolite production by Streptomyces sp. The marbles seem to spatially separate aerial and submerged mycelia in the flask which was necessary for the qualitative and quantitative enhancement of metabolite production of secondary metabolites. The method also offers shorter incubation period compared to conventional methods for effective production. Further, using a combination of this method and response surface methodology we could enhance the production of antimycobacterial molecules chrysomycin A and B significantly. ImportanceRediscovery of existing molecules and lack of techniques to induce production of secondary metabolites are the major bottlenecks associated with drug discovery of novel bioactive molecules from Streptomyces, the major source of marketable drugs today. We found a new method to increase the diversity and quantity of secondary metabolites in two Streptomyces species. This method thus enhances the chance of finding novel active principles from Streptomyces.

microbiology↗

Role of the C-terminal tail in regulating Proteinase Activated Receptor 2 (PAR2) signalling

The C-terminal tail of G-protein-coupled receptors contain important regulatory sites that enable interaction with intracellular signalling effectors. Here we examine the relative contribution of the C-tail serine/threonine phosphorylation sites (Ser383-385, Ser387-Thr392) and the helix-8 palmitoylation site (Cys361) in signalling regulation downstream of the proteolytically-activated GPCR, PAR2. We examined Gq/11-coupled calcium signalling, {beta}-arrestin-1/-2 recruitment, and MAPK activation (p44/42 phosphorylation) by wild-type and mutant receptors expressed in a CRISPR/Cas9 PAR2-knockout HEK-293 cell background. We find that alanine substitution of the membrane proximal serine residues (Ser383-385Ala) had no effect on SLIGRL-NH2- or trypsin-stimulated {beta}-arrestin recruitment. Alanine substitutions in the Ser387-Thr392 cluster resulted in a large ([~]50%) decrease in {beta}-arrestin-1/2 recruitment triggered by the activating peptide, SLIGRL-NH2, but was without effect on trypsin-activated {beta}-arrestin-1/-2 recruitment. Additionally, we find that alanine substitution of the helix-8 cysteine residue (Cys361Ala) led to a ([~]50%) decrease in {beta}-arrestin-1/-2 recruitment in response to both trypsin and SLIGRL-NH2. We further show that Gq/11inhibition with YM254890, inhibited ERK phosphorylation by PAR2 agonists, while genetic deletion of {beta}-arrestin-1/-2 by CRISPR/Cas9 enhanced MAPK activation. Knockout of {beta}-arrestins also enhanced Gq/11-mediated calcium signalling. In line with these findings, C-tail serine/threonine and cysteine residue mutants that have decreased {beta}-arrestin recruitment also showed enhanced ERK activation. Thus, our studies point to multiple mechanisms that regulate {beta}-arrestin interaction with PAR2 to regulate receptor-mediated signalling.

pharmacology and toxicology↗

Putative TetR family transcriptional regulator Rv1019 of Mycobacterium tuberculosis is an auto-repressor and a negative regulator of mfd-mazG operon

Regulation of gene expression at the level of transcription is one of the ways living organisms differentially make proteins in their cells. Intracellular pathogen Mycobacterium tuberculosis persists in the host for years in a latent state in structures called granuloma. Rv1019, a member of an uncharacterized TetR family of transcriptional regulators of Mtb H37Rv, was found to be differentially expressed during dormancy and reactivation in vitro. By GFP reporter assays, electrophoretic mobility shift assays and chromatin immuno-precipitation assays we showed that this protein binds to its own promoter and acts as a negative regulator of its own expression. It forms dimers in vitro which is essential for the DNA binding activity, which is abrogated in the presence of tetracycline. We show that Rv1019 and downstream genes Rv1020 (mfd), Rv1021 (mazG) are co-transcribed. Constitutive expression of Rv1019 in M. smegmatis downregulated MSMEG_5423 (mfd) and MSMEG_5422 (mazG) suggesting that Rv1019 negatively regulates these downstream genes. M. smegmatis expressing Rv1019 was found to be sensitive to UV and H2O2 compared to the control suggesting its role in regulating DNA damage response in mycobacterium. ImportanceOne of the reasons for our inability to eradicate tuberculosis, in spite of the availability of effective drugs and BCG vaccine, is the ingenuity of Mycobacterium tuberculosis to survive, persist and multiply inside the lungs where it employs clever strategies to counter the host defence systems. The number of anti-TB drugs in the current therapeutic regimen is limited, and the long duration of treatment increases the chances for emergence of drug resistant bacteria. Rv1019, a transcriptional regulator differentially expressed in in vitro dormancy-reactivation studies, was found to be an auto-repressor and negatively regulating mfd-mazG operon involved in DNA repair. As Rv1019 is a regulator of critical pathways in bacterial persistence, it could be a prospective target for prophylactic intervention.

microbiology↗

Proteinase-Activated Receptor 4 (PAR4) Activation Triggers Cell Membrane Blebbing through RhoA and β-arrestin

Proteinase-Activated Receptors (PARs) are a four-member family of G-protein coupled receptors that are activated via proteolysis. PAR4 is a member of this family that is cleaved and activated by serine proteinases such as thrombin, trypsin and cathepsin-G. PAR4 is expressed in a variety of tissues and cell types including platelets, vascular smooth muscle cells and neuronal cells. In studying PAR4 signalling and trafficking, we observed dynamic changes in the cell membrane with spherical membrane protrusions that resemble plasma membrane blebbing. Since non-apoptotic membrane blebbing is now recognized as an important regulator of cell migration, cancer cell invasion, and vesicular content release we sought to elucidate the signalling pathway downstream of PAR4 activation that leads to such events. Using a combination of pharmacological inhibition and CRISPR/Cas9-mediated gene-editing approaches we establish that PAR4-dependent membrane blebbing occurs independently of the Gq/11 and Gi signalling pathways and is dependent on signalling via the {beta}-arrestin-1/-2 and RhoA signalling pathways. In order to gain a more comprehensive understanding of {beta}-arrestin-mediated signalling downstream of PAR4 and to guide future studies, we undertook RNA-seq analysis of PAR4 activated genes in control cells and in cells lacking {beta}-arrestin-1/-2. A list of differentially expressed genes was generated followed by Gene Ontology (GO) and enrichment analysis, revealing PAR4 regulation of genes involved in processes including blood coagulation and circulation, cell-cell adhesion, sensory perception and neuron-neuron synaptic transmission-terms that relate back to known functions of PAR4 and are consistent with our finding of membrane blebbing triggered by PAR4 activation. Together these studies provide further mechanistic insight into PAR4 regulation of cellular function.\n\nSignificance StatementWe find that the thrombin receptor PAR4 triggers cell membrane blebbing in a RhoA- and {beta}-arrestin-dependent manner. In addition to identifying novel cellular responses mediated by PAR4, these data provide further evidence for biased signaling in PAR4 since membrane blebbing was dependent on some, but not all, signaling pathways activated by PAR4. Finally through CRISPR/Cas9-mediated targeting and RNA-seq analysis we catalogue here PAR4-dependent transcription that is dependent on {beta}-arrestin.

pharmacology and toxicology↗

Molecular Basis for G-protein-Coupled Receptor (GPCR) Activation and Biased Signalling at the Platelet Thrombin Receptor Proteinase Activated Receptor-4 (PAR4)

Proteinase Activated Receptor-4 (PAR4) is a member of the proteolytically-activated PAR family of G-Protein-coupled Receptors (GPCRs). PARs are activated following proteolytic cleavage of the receptor N-terminus by enzymes such as thrombin, trypsin, and cathepsin-G to reveal the receptor-activating motif termed the tethered ligand. The tethered ligand binds intramolecularly to the receptor and triggers receptor signalling and cellular responses. In spite of this unusual mechanism of activation, PARs are fundamentally peptide receptors and can also be activated by exogenous application of short synthetic peptides derived from the tethered ligand sequence. In order to gain a better understanding of the molecular basis for PAR4-dependent signalling, we examined signalling responses to a library of peptides derived from the canonical PAR4 activating peptide (PAR4-AP), AYPGKF-NH2. We examined peptide residues involved in activation of the Gq/11-coupled calcium signalling pathway, {beta}-arrestin recruitment, and mitogen-activated protein kinase pathway activation. The peptide N-methyl-alanine-YPGKF-NH2 was identified as a compound that is a poor activator of PAR4-dependent calcium signalling but was fully competent in recruiting {beta}-arrestin-1 and -2. In order to gain a better understanding of the ligand-binding pocket, we used in silico docking to identify key residues involved in PAR4 interaction with AYPGKF-NH2. The predicted interactions were verified by site-directed mutagenesis and analysis of calcium signalling and {beta}-arrestin-1/-2 recruitment following proteolytic activation (with thrombin) or activation with the synthetic agonist peptide (AYPGKF-NH2). We determined that a key extracellular loop-2 aspartic acid residue (Asp230) is critical for signalling following both proteolytic and peptide activation of PAR4. Finally, we investigated platelet aggregation in response to AyPGKF-NH2 (a peptide with D-tyrosine in position two) which is unable to activate calcium signalling, and AYPGRF-NH2 a peptide that is equipotent to the parental peptide AYPGKF-NH2 for calcium signalling but is more potent at recruiting {beta}-arrestins. We found that AyPGKF-NH2 fails to activate platelets while AYPGRF-NH2 causes a platelet aggregation response that is greater than that seen with the parental peptide and is comparable to that seen with thrombin stimulation. Overall, these studies uncover molecular determinants for agonist binding and signalling through a non-canonically activated GPCR and provide a template for development of small molecule modulators of PAR4.

pharmacology and toxicology↗

Multisensory perception reflects individual differences in processing temporal correlations

Sensory signals originating from a single event, such as audiovisual speech, are temporally correlated. Correlated signals are known to facilitate multisensory integration and binding. We sought to further elucidate the nature of this relationship, hypothesizing that multisensory perception will vary with the strength of audiovisual correlation. Human participants detected near-threshold amplitude modulations in auditory and/or visual stimuli. During audiovisual trials, the frequency and phase of auditory modulations were varied, producing signals with a range of correlations. After accounting for individual differences which likely reflect relative temporal processing abilities of participants auditory and visual systems, we found that multisensory perception varied linearly with strength of correlation. Diffusion modelling confirmed this and revealed that correlation is supplied to the decisional system as sensory evidence. These data implicate correlation as an important cue in audiovisual feature integration and binding and suggest correlational strength as an important factor for flexibility in these processes.

neuroscience↗