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Kokkinidis, M.

Publications and source records attributed to Kokkinidis, M..

4 recordsLinked to original sources

Thermodynamic principles govern evolutionary tradeoffs by regulating allostery

Allostery governs biological activities by signaling environmental cues at distal sites, however, the molecular basis for the orchestration and evolution of "the second secret of life" is evanescent. Seminal work sheds light embracing structure- and function-centric approaches, overlooking the widely accepted ensemble allosteric model based on a proteins free-energy landscape and the thermodynamic nature of allostery. Here, we unraveled allosteric regulation and its evolvability by examining energetic funnels of proteins harboring a highly evolvable ancient scaffold. We uncover intricate allosteric connectivities and their coordinated cross-talk to enable the statistical thermodynamic coupling. We decipher universal molecular determinants for the emergence of functions and environmental adaptability. Our integrative biophysical/statistical/evolutionary analysis ties the evolutionary forces via thermodynamic principles and decrypts how tradeoffs are settled at the molecular level. One-Sentence SummaryWe reveal how physical and evolutionary laws shaped the biophysical properties of proteins

biophysics↗

The functional and structural characterization of Xanthomonas campestris pv. campestris core effector XopP revealed a new kinase activity

The exocyst complex subunit protein Exo70B1 plays a crucial role in a variety of cell mechanisms including immune responses against pathogens. The calcium dependent kinase 5 (CPK5) of Arapidopsis thaliana, phosphorylates AtExo70B1 upon functional disruption. We previously reported that, the Xanthomonas campestris pv. campestis effector XopP, compromises Exo70B1 and bypasses the hosts hypersensitive response (HR), in a way that is still unclear. Herein we designed an experimental approach based on biophysical, biochemical and molecular assays, based on structural and functional predictions, as well as, utilizing Aplhafold and DALI online servers respectively, in order to characterize the in vivo XccXopP function. The interaction between AtExo70B1 and XccXopP is very stable in high temperatures, while the AtExo70B1 appeared to be phosphorylated at XccXopP expressing transgenic Arabidopsis. XccXopP reveals similarities with known mammalian kinases, and phosphorylates AtExo70B1 at Ser107, Ser111, Ser248, Thr309 and Thr364. Furthermore, XccXopP protects AtExo70B1 from AtCPK5 phosphorylation. Together these findings show that, XccXopP is an effector, which not only functions as a novel serine/threonine kinase upon its hosts protein target AtExo70B1, but also protects the latter from the innate AtCPK5 phosphorylation, to bypass the hosts immune responses.

microbiology↗

Ralstonia solanacearum core effector RipE1 interacts and cleaves the Arabidopsis exocyst component Exo70B1

Ralstonia solanacearum depends on numerous virulence factors, also known as effectors, to promote disease in a wide range of economically important host plants. Although some of these effectors have been characterized, none have yet been shown to target the hosts secretion machinery. Here, we used an extended library of NLR plant immune receptor integrated domains (IDs), to identify new effector targets. The screen uncovered that the core effector RipE1, of the R. solanacearum species complex, among other targets, associates with Arabidopsis exocyst component Exo70B1. RipE1, in accordance with its predicted cysteine protease activity, cleaves Exo70B1 in vitro and also promotes Exo70B1 degradation in planta. RipE1 enzymatic activity additionally results in the activation of TN2-dependent ectopic cell death. TN2 is an atypical NLR that has been proposed to guard Exo70B1. Despite the fact that RipE1 has been previously reported to activate defense responses in model plant species, we present here a Nicotiana species, in which RipE1 expression does not activate cell death. In addition, we discovered that RipE1 is recognized by Ptr1, a Nicotiana benthamiana CC-NLR, via its cysteine protease activity. Overall, this study uncovers a new RipE1 host target and a new RipE1-activated NLR while providing evidence and novel tools to advance in-depth studies of RipE1 and homologous effectors. Author SummaryBacterial wilt disease caused by Ralstonia solanacearum, poses a serious global threat for a wide range of agriculturally important plant species. This Gram-negative bacterium utilizes a collection of Type III Secretion System (T3SS) effectors to manipulate host cell defense and physiology. In this study, we searched for new subcellular plant targets of the core R. solanacearum effector RipE1, a cysteine protease. We discovered that RipE1 has multiple potential eukaryotic targets and further elucidated its association with the host exocyst complex. Using Artificial Intelligence (AI)-based predictions and performing both in vitro and in planta assays, we found that RipE1 promotes the degradation of plant exocyst component Exo70B1 through its enzymatic activity. Apart from being the first report of a R. solanacearum effector targeting a component of the host secretion machinery, our findings also identify an NLR from a model plant species that is able to recognize RipE1 protease activity and provide evidence that can lead to the discovery of additional RipE1 targets inside the host cell.

microbiology↗

The host exocyst complex is targeted by a conserved bacterial type III effector protein that promotes virulence

For most Gram-negative bacteria, pathogenicity largely depends on the type-III secretion system that delivers virulence effectors into eukaryotic cells. The subcellular targets for the majority of these effectors remain unknown. Here, we show that Xanthomonas campestris, the causal agent of black rot disease, delivers the highly conserved effector XopP that interacts with hosts EXO70 protein. EXO70 is an essential component of the exocyst complex with a role in plant immunity. The XopP/EXO70 interaction is specific and inhibits exocyst-dependent exocytosis without activating a specific plant NLR receptor that guards EXO70. In this way, Xanthomonas efficiently inhibits the hosts PAMP-triggered immunity (PTI) by blocking exocytosis of PR1, callose deposition and the FLS2 immunity-receptor translocation to the plasma membrane, promoting successful infection.

microbiology↗