Burkholderia cepacia complex infection in a cohort of Italian patients with cystic fibrosis

The aims of this study were to detect Burkholderia cepacia complex (Bcc) strains in a cohort of Cystic Fibrosis patients (n=276) and to characterize Bcc isolates by molecular techniques. The results showed that 11.23% of patients were infected by Bcc. Burkholderia cenocepacia lineage III-A was the most prevalent species (64.3%) and, of these, 10% was cblA positive and 50% esmR positive. Less than half of the strains were sensitive to ceftazidime, meropenem, piperacillin tazobactam, and trimethoprim-sulfamethoxazole. About half of the strains (41%) had homogeneous profiles, suggesting cross-transmission. The infection by B. cenocepacia was associated to a high rate of mortality (p=0.01).     

Lipid peroxidation and inflammatory molecules as markers of coronary artery disease

Oxidized low density lipoproteins (oxLDLs) may exert several pro-inflammatory effects that can contribute to the development of coronary artery disease (CAD). Evaluating a possible correlation between oxLDLs and clinical expression of CAD, we measured specific lipid peroxidation indices in healthy subjects and in patients at different clinical stages of CAD. We observed a slight, but not significant, increase in plasma content of cholesterol oxidation products, i.e. oxysterols, in all CAD patients, and a slight, but not significant, increase of 4-hydroxynonenal-protein adducts only in subjects with acute CAD. Moreover, CAD patients showed a plasma rise of specific inflammatory proteins, i.e. C-reactive protein, intercellular adhesion molecule-1, and interleukin-8, but not of monocyte chemotactic protein-1. These preliminary data, without excluding an involvement of oxidative stress and inflammation in CAD, do not show a strict correlation between relevant plasma markers, other than C-reactive protein, and acute phase of the disease.     

HDAC inhibitors induce apoptosis in glucocorticoid-resistant acute lymphatic leukemia cells despite a switch from the extrinsic to the intrinsic death pathway

Inhibitors of histone deacetylases (HDACi's) are promising novel tools for cancer therapy. We have compared the growth inhibitory and apoptogenic potential of the pan-HDACi SAHA and the sub-class I selective HDAC inhibitor MS275, as well as valproic acid (VPA) on glucocorticoid sensitive and resistant B (B-ALL) and T (T-ALL) cell acute lymphoblastic leukemia cells and patients blasts. In contrast, to our previous results with U937 acute myeloid leukemia (AML) cells which showed a similar activity of MS275 and SAHA in growth inhibition and apoptosis induction, both B and T-ALL cells were much more efficiently killed by SAHA and VPA than by MS275. The same relative potency was observed with some patient ALL blasts treated ex vivo. SAHA displayed similar efficacy on glucocorticoid-sensitive and insensitive ALL cells but did not synergize with dexamethasone. In studying mediators of apoptosis we found that the TRAIL receptor DR5 is constitutively expressed in glucocorticoid-sensitive CEM-C7 cells which are also TRAIL sensitive. In contrast, glucocorticoid-insensitive CEM-C1 cells do not express DR5 and are insensitive to TRAIL. However, SAHA induces, in addition to p21(WAF1/CIP1) also re-expression of DR5. Importantly, SAHA-induced apoptosis of CEM-C7 cells operates through initiator caspase 10, while it induces apoptosis of CEM-C1 cells through the intrinsic, as well as through caspase-independent death pathways. Our data suggest that the generation of resistance to glucocorticoids has dramatically altered death signaling in these cells and that SAHA overcomes these restrictions by inducing alternative death pathways.     

Synthesis and biophysical characterization of G-rich oligonucleotides conjugated with sugar-phosphate tails

A number of 5'-and 3'-glycoconjugates of the oligonucleotide (5')d(TGGGAG)(3') have been synthesized, exploiting fully automated, online phosphoramidite-based solid phase strategy, as potential anti-HIV-1 agents. The thermodynamic stability of the resulting quadruplexes has been investigated by thermal denaturation studies, via a detailed CD Q1 analysis.     

The midgut ultrastructure of the endoparasite Xenos vesparum (Rossi) (Insecta, Strepsiptera) during post-embryonic development and stable carbon isotopic analyses of the nutrient uptake

Females of the endoparasite Xenos vesparum (Strepsiptera, Stylopidae) may survive for months inside the host Polistes dominulus (Hymenoptera, Vespidae). The midgut structure and function in larval instars and neotenic females has been studied by light and electron microscope and by stable carbon isotopic technique. The 1st instar larva utilizes the yolk material contained in the gut lumen, whereas the subsequent larval instars are actively involved in nutrient uptake from the wasp hemolymph and storage in the adipocytes. At the end of the 4th instar, the neotenic female extrudes with its anterior region from the host; the midgut progressively degenerates following an autophagic cell death program. First the midgut epithelial cells accumulate lamellar bodies and then expel their nuclei into the gut lumen; the remnant gut consists of a thin epithelium devoid of nuclei but still provided with intercellular junctions. We fed the parasitized wasps with sugar from different sources (beet or cane), characterized by their distinctive carbon isotope compositions, and measured the bulk (13)C/(12)C ratios of both wasps and parasites. Female parasites developing inside the wasp hemocoel are able to absorb nutrients from the host but, after their extrusion, they stop incorporating nutrients and survive thanks to the adipocytes content.     

Matrix Metalloproteinase 10 Degradomics in Keratinocytes and Epidermal Tissue Identifies Bioactive Substrates With Pleiotropic Functions*

Matrix metalloproteinases (MMPs) are important players in skin homeostasis, wound repair, and in the pathogenesis of skin cancer. It is now well established that most of their functions are related to processing of bioactive proteins rather than components of the extracellular matrix (ECM). MMP10 is highly expressed in keratinocytes at the wound edge and at the invasive front of tumors, but hardly any non-ECM substrates have been identified and its function in tissue repair and carcinogenesis is unclear. To better understand the role of MMP10 in the epidermis, we employed multiplexed iTRAQ-based Terminal Amine Isotopic Labeling of Substrates (TAILS) and monitored MMP10-dependent proteolysis over time in secretomes from keratinocytes. Time-resolved abundance clustering of neo-N termini classified MMP10-dependent cleavage events by efficiency and refined the MMP10 cleavage site specificity by revealing a so far unknown preference for glutamate in the P1 position. Moreover, we identified and validated the integrin alpha 6 subunit, cysteine-rich angiogenic inducer 61 and dermokine as novel direct MMP10 substrates and provide evidence for MMP10-dependent but indirect processing of phosphatidylethanolamine-binding protein 1. Finally, we sampled the epidermal proteome and degradome in unprecedented depth and confirmed MMP10-dependent processing of dermokine in vivo by TAILS analysis of epidermis from transgenic mice that overexpress a constitutively active mutant of MMP10 in basal keratinocytes. The newly identified substrates are involved in cell adhesion, migration, proliferation, and/or differentiation, indicating a contribution of MMP10 to local modulation of these processes during wound healing and cancer development. Data are available via ProteomeXchange with identifier PXD002474.Matrix metalloproteinases (MMPs)¹ are extracellular zinc-dependent endoproteinases that are highly expressed in tissues undergoing remodeling processes during development, in response to injury, or as a result of neoplastic transformation (1–3). MMP10, also known as stromelysin-2, gained particular interest in the skin, because of its specific and strong expression in wound edge keratinocytes as well as at the invasive front of epithelial tumors (4–6). Overexpression of a constitutively active MMP10 mutant in wound keratinocytes in mice led to scattering of these cells at the tip of the migrating wound epithelium, altered β1-integrin expression, reduced AKT phosphorylation and increased apoptosis (7). Lack of MMP10 in a lung infection model affected genes that are involved in the regulation of apoptosis, cell proliferation, immune response and signal transduction (8). In the gut, bone marrow-derived MMP10 had a protective role in experimental colitis with implications in macrophage polarization (9). MMP10 released from hepatocytes and macrophages positively contributed to liver regeneration (10), whereby it promoted hepatocarcinogenesis in a complicated crosstalk with chemokine signaling (11). Most recently, Rohani et al. demonstrated a role for macrophage-derived MMP10 in moderating scar formation by controlling collagenase activity of dermal macrophages (12).Similar complex phenotypes have been associated with activities of most MMPs that, however, were not related to processing of extracellular matrix (ECM) proteins, the classical MMP substrates (13), but of bioactive mediators, including cell surface receptors, growth factor binding proteins, proteases, inhibitors, cytokines, and chemokines (14, 15). This changed the view on MMPs as simple tissue degraders to precise modulators of diverse processes, such as cell proliferation, migration, differentiation, angiogenesis, apoptosis and immune response (2, 16). As an example, functions of MMP3, the closest homolog of MMP10, in keratinocyte differentiation (17), tumor cell invasion (18), and immune cell recruitment (19) could be explained by processing of non-ECM proteins that have been identified as direct substrates of this protease (2, 20) in addition to ECM components (21). However, because MMP10 has been mostly neglected in the quest for new MMP substrates, it remains to be elucidated, if it also exerts its functions in part by processing of bioactive proteins whose identification is instrumental in understanding the mechanisms of action of MMP10 in tissue repair and carcinogenesis.Recently, we applied iTRAQ-based Terminal Amine Isotopic Labeling of Substrates (TAILS), a multiplexed quantitative proteomics workflow for identification of protease substrates in complex proteomes (22–24), to reveal new targets of MMP10 in secretomes from mouse embryonic fibroblasts (25). Moreover, to mimic MMP10 activity at the epidermal–dermal interface, we devised a new workflow that allowed monitoring both cellular origins and cleavages of substrates in mixed secretomes from keratinocytes and fibroblasts (26). However, this study focused on basement membrane components and missed additional information on cleavage kinetics. Thus, in this work, we employed time-resolved TAILS to identify novel MMP10 substrates in keratinocyte secretomes and mouse epidermal tissue, aiming at further characterizing the MMP10 substrate degradome in epidermal keratinocytes for a better understanding of its biological roles in the skin. Here, we identified novel bioactive substrates of MMP 10 in vitro and in the skin in vivo, which provide insight into its functions in wound repair and carcinogenesis. In addition, we revealed an unexpected preference of MMP10 for substrates that harbor a glutamate residue in P1 position, which might be exploited for the development of specific activity-based probes or inhibitors for this important wound- and tumor-related protease.     

Transgenic Fatal Familial Insomnia Mice Indicate Prion Infectivity-Independent Mechanisms of Pathogenesis and Phenotypic Expression of Disease

Fatal familial insomnia (FFI) and a genetic form of Creutzfeldt-Jakob disease (CJD¹⁷⁸) are clinically different prion disorders linked to the D178N prion protein (PrP) mutation. The disease phenotype is determined by the 129 M/V polymorphism on the mutant allele, which is thought to influence D178N PrP misfolding, leading to the formation of distinctive prion strains with specific neurotoxic properties. However, the mechanism by which misfolded variants of mutant PrP cause different diseases is not known. We generated transgenic (Tg) mice expressing the mouse PrP homolog of the FFI mutation. These mice synthesize a misfolded form of mutant PrP in their brains and develop a neurological illness with severe sleep disruption, highly reminiscent of FFI and different from that of analogously generated Tg(CJD) mice modeling CJD¹⁷⁸. No prion infectivity was detectable in Tg(FFI) and Tg(CJD) brains by bioassay or protein misfolding cyclic amplification, indicating that mutant PrP has disease-encoding properties that do not depend on its ability to propagate its misfolded conformation. Tg(FFI) and Tg(CJD) neurons have different patterns of intracellular PrP accumulation associated with distinct morphological abnormalities of the endoplasmic reticulum and Golgi, suggesting that mutation-specific alterations of secretory transport may contribute to the disease phenotype.     

A plastic SQSTM1/p62-dependent autophagic reserve maintains proteostasis and determines proteasome inhibitor susceptibility in multiple myeloma cells

Multiple myeloma (MM) is the paradigmatic proteasome inhibitor (PI) responsive cancer, but many patients fail to respond. An attractive target to enhance sensitivity is (macro)autophagy, recently found essential to bone marrow plasma cells, the normal counterpart of MM. Here, integrating proteomics with hypothesis-driven strategies, we identified the autophagic cargo receptor and adapter protein, SQSTM1/p62 as an essential component of an autophagic reserve that not only synergizes with the proteasome to maintain proteostasis, but also mediates a plastic adaptive response to PIs, and faithfully reports on inherent PI sensitivity. Lentiviral engineering revealed that SQSTM1 is essential for MM cell survival and affords specific PI protection. Under basal conditions, SQSTM1-dependent autophagy alleviates the degradative burden on the proteasome by constitutively disposing of substantial amounts of ubiquitinated proteins. Indeed, its inhibition or stimulation greatly sensitized to, or protected from, PI-induced protein aggregation and cell death. Moreover, under proteasome stress, myeloma cells selectively enhanced SQSTM1 de novo expression and reset its vast endogenous interactome, diverting SQSTM1 from signaling partners to maximize its association with ubiquitinated proteins. Saturation of such autophagic reserve, as indicated by intracellular accumulation of undigested SQSTM1-positive aggregates, specifically discriminated patient-derived myelomas inherently susceptible to PIs from primarily resistant ones. These aggregates correlated with accumulation of the endoplasmic reticulum, which comparative proteomics identified as the main cell compartment targeted by autophagy in MM. Altogether, the data integrate autophagy into our previously established proteasome load-versus-capacity model, and reveal SQSTM1 aggregation as a faithful marker of defective proteostasis, defining a novel prognostic and therapeutic framework for MM.     

Data mining-based statistical analysis of biological data uncovers hidden significance: clustering Hashimoto’s thyroiditis patients based on the response of their PBMC with IL-2 and IFN-γ secretion to stimulation with Hsp60

The pathogenesis of Hashimoto’s thyroiditis includes autoimmunity involving thyroid antigens, autoantibodies, and possibly cytokines. It is unclear what role plays Hsp60, but our recent data indicate that it may contribute to pathogenesis as an autoantigen. Its role in the induction of cytokine production, pro- or anti-inflammatory, was not elucidated, except that we found that peripheral blood mononucleated cells (PBMC) from patients or from healthy controls did not respond with cytokine production upon stimulation by Hsp60 in vitro with patterns that would differentiate patients from controls with statistical significance. This “negative” outcome appeared when the data were pooled and analyzed with conventional statistical methods. We re-analyzed our data with non-conventional statistical methods based on data mining using the classification and regression tree learning algorithm and clustering methodology. The results indicate that by focusing on IFN-γ and IL-2 levels before and after Hsp60 stimulation of PBMC in each patient, it is possible to differentiate patients from controls. A major general conclusion is that when trying to identify disease markers such as levels of cytokines and Hsp60, reference to standards obtained from pooled data from many patients may be misleading. The chosen biomarker, e.g., production of IFN-γ and IL-2 by PBMC upon stimulation with Hsp60, must be assessed before and after stimulation and the results compared within each patient and analyzed with conventional and data mining statistical methods.