@article{%a1:%Y%j,

title = {Gene Expression Profiles Controlled by the Alternative Splicing Factor Nova2 in Endothelial Cells.},

author = {Belloni E and Di Matteo A and Pradella D and Vacca M and Wyatt CDR and Alfieri R and Maffia A and Sabbioneda S and Ghigna C},

url = {https://www.mdpi.com/2073-4409/8/12/1498},

doi = {10.3390/cells8121498},

year  = {2022},

date = {2022-11-23},

journal = {Cells},

volume = {8},

number = {12},

pages = { pii: E1498},

abstract = {Alternative splicing (AS) plays an important role in expanding the complexity of the human genome through the production of specialized proteins regulating organ development and physiological functions, as well as contributing to several pathological conditions. How AS programs impact on the signaling pathways controlling endothelial cell (EC) functions and vascular development is largely unknown. Here we identified, through RNA-seq, changes in mRNA steady-state levels in ECs caused by the neuro-oncological ventral antigen 2 (Nova2), a key AS regulator of the vascular morphogenesis. Bioinformatics analyses identified significant enrichment for genes regulated by peroxisome proliferator-activated receptor-gamma (Ppar-γ) and E2F1 transcription factors. We also showed that Nova2 in ECs controlled the AS profiles of Ppar-γ and E2F dimerization partner 2 (Tfdp2), thus generating different protein isoforms with distinct function (Ppar-γ) or subcellular localization (Tfdp2). Collectively, our results supported a mechanism whereby Nova2 integrated splicing decisions in order to regulate Ppar-γ and E2F1 activities. Our data added a layer to the sequential series of events controlled by Nova2 in ECs to orchestrate vascular biology.},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{%a1.%Ybr,

title = {Lamin A and the LINC complex act as potential tumor suppressors in Ewing Sarcoma},

author = {Chiarini F and Paganelli F and Balestra T and Capanni C and Fazio A and Manara MC and Landuzzi L and Petrini S and Evangelisti C and Lollini PL and Martelli AM and Lattanzi G and Scotlandi K},

url = {https://www.nature.com/articles/s41419-022-04729-5},

doi = {10.1038/s41419-022-04729-5},

year  = {2022},

date = {2022-05-30},

journal = {Cell death & disease},

volume = {13},

issue = {4},

pages = {346},

abstract = {Lamin A, a main constituent of the nuclear lamina, is involved in mechanosignaling and cell migration through dynamic interactions with the LINC complex, formed by the nuclear envelope proteins SUN1, SUN2 and the nesprins. Here, we investigated lamin A role in Ewing Sarcoma (EWS), an aggressive bone tumor affecting children and young adults. In patients affected by EWS, we found a significant inverse correlation between LMNA gene expression and tumor aggressiveness. Accordingly, in experimental in vitro models, low lamin A expression correlated with enhanced cell migration and invasiveness and, in vivo, with an increased metastatic load. At the molecular level, this condition was linked to altered expression and anchorage of nuclear envelope proteins and increased nuclear retention of YAP/TAZ, a mechanosignaling effector. Conversely, overexpression of lamin A rescued LINC complex organization, thus reducing YAP/TAZ nuclear recruitment and preventing cell invasiveness. These effects were also obtained through modulation of lamin A maturation by a statin-based pharmacological treatment that further elicited a more differentiated phenotype in EWS cells. These results demonstrate that drugs inducing nuclear envelope remodeling could be exploited to improve therapeutic strategies for EWS.},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{%a1.%Ybq,

title = {Sex disparities in DNA damage response pathways: Novel determinants in cancer formation and therapy},

author = {Cardano M and Buscemi G and Zannini L},

url = {https://www.sciencedirect.com/science/article/pii/S2589004222001456?via%3Dihub},

doi = {10.1016/j.isci.2022.103875},

year  = {2022},

date = {2022-05-30},

journal = {iScience},

volume = {25},

issue = {3},

pages = {103875},

abstract = {Cancer incidence and survival are different between men and women. Indeed, females have a lesser risk and a better prognosis than males in many tumors unrelated to reproductive functions. Although the reasons for these disparities are still unknown, they constitute an important starting point for the development of personalized cancer therapies. One of the mechanisms that fuels carcinogenesis is the accumulation of defects in DNA damage response (DDR) pathways, a complex signaling cascade that senses DNA lesions and, depending on the severity, coordinates transient cell-cycle arrest, DNA replication, repair, apoptosis, and senescence, preventing genomic instability and cancer. Recently, evidence of sexual dimorphisms is emerging in these pathways, therefore providing new opportunities for precision medicine. Here, we will discuss current knowledge about sexual disparities in the DDR, their role in tumorigenesis and cancer progression, and the importance of considering sex contribution in both research and cancer therapies.},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{%a1.%Ybp,

title = {In Vitro Neurotoxicity of Flumethrin Pyrethroid on SH-SY5Y Neuroblastoma Cells: Apoptosis Associated with Oxidative Stress},

author = {Barrios-Arpi L and Arias Y and Lopez-Torres B and Ramos-Gonzalez M and Ticli G and Prosperi E and Rodríguez JL.},

url = {https://www.mdpi.com/2305-6304/10/3/131},

doi = {10.3390/toxics10030131},

year  = {2022},

date = {2022-05-30},

journal = {Toxics},

volume = {10},

issue = {3},

pages = {131},

abstract = {Pyrethroids are neurotoxicants for animals, showing a pattern of toxic action on the nervous system. Flumethrin, a synthetic pyrethroid, is used against ectoparasites in domestic animals, plants, and for public health. This compound has been shown to be highly toxic to bees, while its effects on other animals have been less investigated. However, in vitro studies to evaluate cytotoxicity are scarce, and the mechanisms associated with this effect at the molecular level are still unknown. This study aimed to investigate the oxidative stress and cell death induction in SH-SY5Y neuroblastoma cells in response to flumethrin exposure (1-1000 µM). Flumethrin induced a significant cytotoxic effect, as evaluated by MTT and LDH leakage assays, and produced an increase in the biomarkers of oxidative stress as reactive oxygen species and nitric oxide (ROS and NO) generation, malondialdehyde (MDA) concentration, and caspase-3 activity. In addition, flumethrin significantly increased apoptosis-related gene expressions (Bax, Casp-3, BNIP3, APAF1, and AKT1) and oxidative stress and antioxidative (NFκB and SOD2) mediators. The results demonstrated, by biochemical and gene expression assays, that flumethrin induces oxidative stress and apoptosis, which could cause DNA damage. Detailed knowledge obtained about these molecular changes could provide the basis for elucidating the molecular mechanisms of flumethrin-induced neurotoxicity.},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{%a1.%Ybo,

title = {Peptides Regulating Proliferative Activity and Inflammatory Pathways in the Monocyte/Macrophage THP-1 Cell Line},

author = {Avolio F and Martinotti S and Khavinson VK and Esposito JE and Giambuzzi G and Marino A and Mironova E and Pulcini R and Robuffo I and Bologna G and Simeone P and Lanuti P and Guarnieri S and Trofimova S and Procopio AD and Toniato E.},

url = {https://www.mdpi.com/1422-0067/23/7/3607

},

doi = {10.3390/ijms23073607},

year  = {2022},

date = {2022-05-30},

journal = {International journal of molecular sciences},

volume = {23},

issue = {7},

pages = {3607},

abstract = {This study evaluates the effects of five different peptides, the Epitalon® tetrapeptide, the Vilon® dipeptide, the Thymogen® dipeptide, the Thymalin® peptide complex, and the Chonluten® tripeptide, as regulators of inflammatory and proliferative processes in the human monocytic THP-1, which is a human leukemia monocytic cell line capable of differentiating into macrophages by PMA in vitro. These peptides (Khavinson Peptides®), characterized by Prof. Khavinson from 1973 onwards, were initially isolated from animal tissues and found to be organ specific. We tested the capacity of the five peptides to influence cell cultures in vitro by incubating THP-1 cells with peptides at certain concentrations known for being effective on recipient cells in culture. We found that all five peptides can modulate key proliferative patterns, increasing tyrosine phosphorylation of mitogen-activated cytoplasmic kinases. In addition, the Chonluten tripeptide, derived from bronchial epithelial cells, inhibited in vitro tumor necrosis factor (TNF) production of monocytes exposed to pro-inflammatory bacterial lipopolysaccharide (LPS). The low TNF release by monocytes is linked to a documented mechanism of TNF tolerance, promoting attenuation of inflammatory action. Therefore, all peptides inhibited the expression of TNF and pro-inflammatory IL-6 cytokine stimulated by LPS on terminally differentiated THP-1 cells. Lastly, by incubating the THP1 cells, treated with the peptides, on a layer of activated endothelial cells (HUVECs activated by LPS), we observed a reduction in cell adhesion, a typical pro-inflammatory mechanism. Overall, the results suggest that the Khavinson Peptides® cooperate as natural inducers of TNF tolerance in monocyte, and act on macrophages as anti-inflammatory molecules during inflammatory and microbial-mediated activity.},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{%a1.%Ybm,

title = {Novel Perceptions on Chemical Profile and Biopharmaceutical Properties of Mentha spicata Extracts: Adding Missing Pieces to the Scientific Puzzle},

author = {Zengin G and Ak G and Ceylan R and Uysal S and Llorent-Martínez E and Di Simone SC and Rapino M and Acquaviva A and Libero ML and Chiavaroli A and Recinella L and Leone S and Brunetti L and Cataldi A and Orlando G and Menghini L and Ferrante C and Balaha M and di Giacomo V},

url = {https://www.mdpi.com/2223-7747/11/2/233},

doi = {10.3390/plants11020233},

year  = {2022},

date = {2022-03-21},

journal = {Plants (Basel)},

volume = {11},

issue = {2},

pages = {233},

abstract = {Mentha spicata is one of the most popular species in the genus, and it is of great interest as a gastrointestinal and sedative agent in the folk medicine system. In this study, different M. spicata extracts, obtained by the use of four solvents (hexane, chloroform, acetone and acetone/water) were chemically characterized using HPLC-ESI-MS n, which allowed for identification of 27 phenolic compounds. The extracts' antioxidant and enzyme inhibitory properties were investigated. In addition, neuroprotective effects were evaluated in hypothalamic HypoE22 cells, and the ability of the extracts to prevent the hydrogen peroxide-induced degradation of dopamine and serotonin was observed. The best antioxidant effect was achieved for all the extraction methods using acetone/water as a solvent. These extracts were the richest in acacetin, eriodictyol, hesperidin, sagerinic acid, naringenin, luteolin, chlorogenic acid, chrysoeriol and apigenin. The intrinsic antioxidant and enzyme inhibition properties of the acetone/water extract could also explain, albeit partially, its efficacy in preventing prostaglandin E2 overproduction and dopamine depletion (82.9% turnover reduction) in HypoE22 cells exposed to hydrogen peroxide. Thus, our observations can provide a scientific confirmation of the neuromodulatory and neuroprotective effects of M. spicata.},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{%a1.%Ybl,

title = {Early Morphological Changes of the Rectus Femoris Muscle and Deep Fascia in Ullrich Congenital Muscular Dystrophy},

author = {Sabatelli P and Merlini L and Di Martino A and Cenni V and Faldini C},

url = {https://www.mdpi.com/1660-4601/19/3/1252},

doi = {International journal of environmental research and public health},

year  = {2022},

date = {2022-03-21},

journal = {International journal of environmental research and public health},

volume = {19},

issue = {3},

pages = {1252},

abstract = {Ullrich congenital muscular dystrophy (UCMD) is a severe form of muscular dystrophy caused by the loss of function of collagen VI, a critical component of the muscle-tendon matrix. Magnetic resonance imaging of UCMD patients' muscles shows a peculiar rim of abnormal signal at the periphery of each muscle, and a relative sparing of the internal part. The mechanism/s involved in the early fat substitution of muscle fiber at the periphery of muscles remain elusive. We studied a muscle biopsy of the rectus femoris/deep fascia (DF) of a 3-year-old UCMD patient, with a homozygous mutation in the COL6A2 gene. By immunohistochemical and ultrastructural analysis, we found a marked fatty infiltration at the interface of the muscle with the epimysium/DF and an atrophic phenotype, primarily in fast-twitch fibers, which has never been reported before. An unexpected finding was the widespread increase of interstitial cells with long cytoplasmic processes, consistent with the telocyte phenotype. Our study documents for the first time in a muscle biopsy the peculiar pattern of outside-in muscle degeneration followed by fat substitution as already shown by muscle imaging, and an increase of telocytes in the interstitium of the deep fascia, which highlights a potential involvement of this structure in the pathogenesis of UCMD.},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{%a1.%Ybk,

title = {Telomere dysfunction in ageing and age-related diseases},

author = {Rossiello F and Jurk D and Passos JF and {d'Adda di Fagagna F}},

url = {https://www.nature.com/articles/s41556-022-00842-x},

doi = {10.1038/s41556-022-00842-x},

year  = {2022},

date = {2022-03-21},

volume = {24},

issue = {2},

pages = {135-147},

abstract = {Ageing organisms accumulate senescent cells that are thought to contribute to body dysfunction. Telomere shortening and damage are recognized causes of cellular senescence and ageing. Several human conditions associated with normal ageing are precipitated by accelerated telomere dysfunction. Here, we systematize a large body of evidence and propose a coherent perspective to recognize the broad contribution of telomeric dysfunction to human pathologies.},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{%a1.%Ybj,

title = {Exosomes Recovered From the Plasma of COVID-19 Patients Expose SARS-CoV-2 Spike-Derived Fragments and Contribute to the Adaptive Immune Response},

author = {Pesce E and Manfrini N and Cordiglieri C and Santi S and Bandera A and Gobbini A and Gruarin P and Favalli A and Bombaci M and Cuomo A and Collino F and Cricri' G and Ungaro R and Lombardi A and Mangioni D and Muscatello A and Aliberti S and Blasi F and Gori A and Abrignani S and De Francesco R and Biffo S and Grifantini R},

url = {http://www.scopus.com/inward/record.url?eid=2-s2.0-85123854300&partnerID=q2rCbXpz},

doi = {10.3389/fimmu.2021.785941},

year  = {2022},

date = {2022-03-21},

journal = {Frontiers in immunology},

volume = {12},

pages = {7859},

abstract = {Coronavirus disease 2019 (COVID-19) is an infectious disease caused by beta-coronavirus severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) that has rapidly spread across the globe starting from February 2020. It is well established that during viral infection, extracellular vesicles become delivery/presenting vectors of viral material. However, studies regarding extracellular vesicle function in COVID-19 pathology are still scanty. Here, we performed a comparative study on exosomes recovered from the plasma of either MILD or SEVERE COVID-19 patients. We show that although both types of vesicles efficiently display SARS-CoV-2 spike-derived peptides and carry immunomodulatory molecules, only those of MILD patients are capable of efficiently regulating antigen-specific CD4+ T-cell responses. Accordingly, by mass spectrometry, we show that the proteome of exosomes of MILD patients correlates with a proper functioning of the immune system, while that of SEVERE patients is associated with increased and chronic inflammation. Overall, we show that exosomes recovered from the plasma of COVID-19 patients possess SARS-CoV-2-derived protein material, have an active role in enhancing the immune response, and possess a cargo that reflects the pathological state of patients in the acute phase of the disease.},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{nokey,

title = {Dynamic susceptibility MR perfusion imaging of the brain: not a question of contrast agent molarity},

author = {Panara V and Chiacchiaretta P and Rapino M and Maruotti V and Parenti M and Piccirilli E and Pizzi AD and Caulo M},

url = {https://link.springer.com/article/10.1007%2Fs00234-021-02807-7},

doi = {10.1007/s00234-021-02807-7},

year  = {2022},

date = {2022-03-21},

urldate = {2022-03-21},

journal = {Neuroradiology},

abstract = {Purpose: Dynamic susceptibility contrast (DSC) perfusion-weighted MR imaging (PWI) is increasingly used in clinical neuroimaging for a range of conditions. More highly concentrated GBCAs (e.g., gadobutrol) are often preferred for DSC imaging because it is thought that more Gd is present in the volume of interest during first pass for a given equivalent injection rate. However, faster injection of a less viscous GBCA (e.g., gadoteridol) might generate a more compact and narrower contrast bolus thus obviating any perceived benefit of higher Gd concentration. This preliminary study aimed to analyze and compare DSC examinations in the healthy brain hemisphere of patients with brain tumors using gadobutrol and gadoteridol administered at injection rates of 4 and 6 mL/s. Methods: Thirty-nine brain tumor patients studied with DSC-PWI were evaluated. A simplified gamma-variate model function was applied to calculate the mean peak, area under the curve (AUC), and full-width at half-maximum (FHWM) of concentration-time curves derived from ΔR2* signals at four different regions-of-interest (ROIs). Qualitative assessment of the derived CBV maps was also performed independently by 2 neuroradiologists. Results: No qualitative or quantitative differences between the two GBCAs were observed when administered at a flow rate of 4 mL/s. At a flow rate of 6 mL/s, gadoteridol showed lower FWHM values. Conclusion: Gadobutrol and gadoteridol are equivalent for clinical assessment of qualitative CBV maps and quantitative perfusion parameters (FHWM) at a flow rate of 4 mL/s. At 6 mL/s, gadoteridol produces a narrower bolus shape and potentially improves quantitative assessment of perfusion parameters.},

keywords = {},

pubstate = {forthcoming},

tppubtype = {article}

}

@article{%a1.%Ybi,

title = {Mutation in senataxin alters the mechanism of R-loop resolution in amyotrophic lateral sclerosis 4},

author = {Kannan A and Cuartas J and Gangwani P and Branzei D and Gangwani L},

url = {https://academic.oup.com/brain/advance-article/doi/10.1093/brain/awab464/6511590},

doi = {10.1093/brain/awab464},

year  = {2022},

date = {2022-03-21},

journal = {Brain},

abstract = {Mutation in the Senataxin (SETX) gene causes an autosomal dominant neuromuscular disorder, amyotrophic lateral sclerosis 4 (ALS4), characterized by degeneration of motor neurons, muscle weakness and atrophy. SETX is an RNA-DNA helicase that mediates resolution of co-transcriptional RNA-DNA hybrids (R-loops). The process of R-loop resolution is essential for the normal functioning of cells, including neurons. The molecular basis of ALS4 pathogenesis and the mechanism of R-loop resolution are unclear. We report that the zinc finger protein ZPR1 binds to RNA-DNA hybrids, recruits SETX onto R-loops and is critical for R-loop resolution. ZPR1 deficiency disrupts the integrity of R-loop resolution complexes (RLRC) containing SETX and causes increased R-loop accumulation throughout gene transcription. We uncover that SETX is a downstream target of ZPR1 and that overexpression of ZPR1 can rescue RLRC assembly in SETX-deficient cells but not vice versa. To uncover the mechanism of R-loop resolution, we examined the function of SETX-ZPR1 complexes using two genetic motor neuron disease models with altered R-loop resolution. Notably, chronic low levels of SETX-ZPR1 complexes onto R-loops result in a decrease of R-loop resolution activity causing an increase in R-loop levels in spinal muscular atrophy (SMA). ZPR1 overexpression increases recruitment of SETX onto R-loops, decreases R-loops and rescues the SMA phenotype in motor neurons and patient cells. Strikingly, interaction of SETX with ZPR1 is disrupted in ALS4 patients that have heterozygous SETX (L389S) mutation. ZPR1 fails to recruit the mutant SETX homodimer but recruits the heterodimer with partially disrupted interaction between SETX and ZPR1. Interestingly, disruption of SETX-ZPR1 complexes causes increase in R-loop resolution activity leading to fewer R-loops in ALS4. Modulation of ZPR1 levels regulates R-loop accumulation and rescues the pathogenic R-loop phenotype in ALS4 patient cells. These findings originate a new concept, "opposite alterations in a cell biological activity (R-loop resolution) result in similar pathogenesis (neurodegeneration) in different genetic motor neuron disorders". We propose that ZPR1 collaborates with SETX and may function as a molecular brake to regulate SETX-dependent R-loop resolution activity critical for the normal functioning of motor neurons.},

keywords = {},

pubstate = {forthcoming},

tppubtype = {article}

}

@article{%a1.%Ybh,

title = {The wide and growing range of lamin B-related diseases: from laminopathies to cancer. },

author = {Evangelisti C and Rusciano I and Mongiorgi S and Ramazzotti G and Lattanzi G and Manzoli L and Cocco L and Ratti S and},

url = {https://link.springer.com/article/10.1007/s00018-021-04084-2},

doi = {10.1007/s00018-021-04084-2},

year  = {2022},

date = {2022-03-21},

journal = {Cellular and molecular life sciences},

volume = {79},

number = {126},

issue = {2},

abstract = {B-type lamins are fundamental components of the nuclear lamina, a complex structure that acts as a scaffold for organization and function of the nucleus. Lamin B1 and B2, the most represented isoforms, are encoded by LMNB1 and LMNB2 gene, respectively. All B-type lamins are synthesized as precursors and undergo sequential post-translational modifications to generate the mature protein. B-type lamins are involved in a wide range of nuclear functions, including DNA replication and repair, regulation of chromatin and nuclear stiffness. Moreover, lamins B1 and B2 regulate several cellular processes, such as tissue development, cell cycle, cellular proliferation, senescence, and DNA damage response. During embryogenesis, B-type lamins are essential for organogenesis, in particular for brain development. As expected from the numerous and pivotal functions of B-type lamins, mutations in their genes or fluctuations in their expression levels are critical for the onset of several diseases. Indeed, a growing range of human disorders have been linked to lamin B1 or B2, increasing the complexity of the group of diseases collectively known as laminopathies. This review highlights the recent findings on the biological role of B-type lamins under physiological or pathological conditions, with a particular emphasis on brain disorders and cancer.},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{%a1.%Ybg,

title = {Parental histone deposition on the replicated strands promotes error-free DNA damage tolerance and regulates drug resistance},

author = {Dolce V and Dusi S and Giannattasio M and Joseph CR and Fumasoni M and Branzei D},

url = {http://genesdev.cshlp.org/content/early/2022/02/01/gad.349207.121.long},

doi = {10.1101/gad.349207.121},

year  = {2022},

date = {2022-03-21},

journal = {Genes & development},

abstract = {Ctf4 is a conserved replisome component with multiple roles in DNA metabolism. To investigate connections between Ctf4-mediated processes involved in drug resistance, we conducted a suppressor screen of ctf4delta sensitivity to the methylating agent MMS. We uncovered that mutations in Dpb3 and Dpb4 components of polymerase ε result in the development of drug resistance in ctf4Δ via their histone-binding function. Alleviated sensitivity to MMS of the double mutants was not associated with rescue of ctf4delta defects in sister chromatid cohesion, replication fork architecture, or template switching, which ensures error-free replication in the presence of genotoxic stress. Strikingly, the improved viability depended on translesion synthesis (TLS) polymerase-mediated mutagenesis, which was drastically increased in ctf4 dpb3 double mutants. Importantly, mutations in Mcm2-Ctf4-Polα and Dpb3-Dpb4 axes of parental (H3-H4)2 deposition on lagging and leading strands invariably resulted in reduced error-free DNA damage tolerance through gap filling by template switch recombination. Overall, we uncovered a chromatin-based drug resistance mechanism in which defects in parental histone transfer after replication fork passage impair error-free recombination bypass and lead to up-regulation of TLS-mediated mutagenesis and drug resistance.},

keywords = {},

pubstate = {forthcoming},

tppubtype = {article}

}

@article{%a1.%Yb,

title = {Three dimensional spheroid cell culture of human MSC-derived neuron-like cells: new in vitro model to assess magnetite nanoparticle-induced neurotoxicity effects},

author = {{De Simone U} and Croce AC and Pignatti P and Buscaglia E and Caloni F and Coccini T},

url = {https://analyticalsciencejournals.onlinelibrary.wiley.com/doi/10.1002/jat.4292},

doi = {10.1002/jat.4292},

year  = {2022},

date = {2022-03-21},

urldate = {2022-03-21},

journal = {Journal of applied toxicology},

abstract = {As nanoparticles (NPs) can access the brain and impact on CNS function, novel in vitro models for the evaluation of NPs-induced neurotoxicity are advocated. 3D-spheroids of primary neuron-like cells (hNLCs) of human origin have been generated, from differentiation of human umbilical cord mesenchymal stem cells (MSCs). The study evaluated Fe3 O4 NP impact on the differentiation process by applying the challenge at complete 3D hNLC spheroid formation (after 4 days-T4) or at beginning of neurogenic induction/simultaneously 3D forming (T0). Different endpoints were monitored over time (up to 10 days): spheroid growth, size, morphology, ATP, cell death, neuronal markers (β-Tub III, MAP-2, NSE), NP-uptake. At T0-application, a marked concentration- and time-dependent cell mortality occurred: effect started early (day 2) and low concentration (1 μg/ml) and exacerbated (80% mortality) after prolonged time (day 6) and increased concentrations (50 μg/ml). ATP was strikingly affected. All neuronal markers were downregulated and spheroid morphology altered in a concentration-dependent manner (from ≥ 5μg/ml) after day 2. Fe3 O4 NPs applied at complete 3D formation (T4) still induced adverse effects although less severe: cell mortality (20-60%) and ATP content decrease (10-40%) were observed in a concentration-dependent manner (from ≥ 5 μg/ml). A neuronal-specific marker effect and spheroid size reduction from 25 μg/ml without morphology alteration were evidenced. This finding provides additional information on neurotoxic effects of Fe3 O4 NPs in a new 3D hNLC spheroid model derived from MSCs, that could find a consistent application as in a testing strategy serving in first step hazard identification for correct risk assessment.},

keywords = {},

pubstate = {forthcoming},

tppubtype = {article}

}

@article{%a1.%Ybe,

title = {Three dimensional spheroid cell culture of human MSC-derived neuron-like cells: new in vitro model to assess magnetite nanoparticle-induced neurotoxicity effects},

author = {De Simone U and Croce AC and Pignatti P and Buscaglia E and Caloni F and Coccini T},

url = {https://analyticalsciencejournals.onlinelibrary.wiley.com/doi/10.1002/jat.4292},

doi = {10.1002/jat.4292},

year  = {2022},

date = {2022-02-25},

journal = {Journal of applied toxicology},

abstract = {As nanoparticles (NPs) can access the brain and impact on CNS function, novel in vitro models for the evaluation of NPs-induced neurotoxicity are advocated. 3D-spheroids of primary neuron-like cells (hNLCs) of human origin have been generated, from differentiation of human umbilical cord mesenchymal stem cells (MSCs). The study evaluated Fe3 O4 NP impact on the differentiation process by applying the challenge at complete 3D hNLC spheroid formation (after 4 days-T4) or at beginning of neurogenic induction/simultaneously 3D forming (T0). Different endpoints were monitored over time (up to 10 days): spheroid growth, size, morphology, ATP, cell death, neuronal markers (β-Tub III, MAP-2, NSE), NP-uptake. At T0-application, a marked concentration- and time-dependent cell mortality occurred: effect started early (day 2) and low concentration (1 μg/ml) and exacerbated (80% mortality) after prolonged time (day 6) and increased concentrations (50 μg/ml). ATP was strikingly affected. All neuronal markers were downregulated and spheroid morphology altered in a concentration-dependent manner (from ≥ 5μg/ml) after day 2. Fe3 O4 NPs applied at complete 3D formation (T4) still induced adverse effects although less severe: cell mortality (20-60%) and ATP content decrease (10-40%) were observed in a concentration-dependent manner (from ≥ 5 μg/ml). A neuronal-specific marker effect and spheroid size reduction from 25 μg/ml without morphology alteration were evidenced. This finding provides additional information on neurotoxic effects of Fe3 O4 NPs in a new 3D hNLC spheroid model derived from MSCs, that could find a consistent application as in a testing strategy serving in first step hazard identification for correct risk assessment.},

keywords = {},

pubstate = {forthcoming},

tppubtype = {article}

}

@article{%a1.%Ybd,

title = {Genomic loci mispositioning in Tmem120a knockout mice yields latent lipodystrophy},

author = {Czapiewski R and Batrakou DG and de Las Heras JI and Carter RN and Sivakumar A and Sliwinska M and Dixon CR and Webb S and Lattanzi G and Morton NM and Schirmer EC},

url = {https://www.nature.com/articles/s41467-021-27869-2},

doi = {10.1038/s41467-021-27869-2},

year  = {2022},

date = {2022-02-25},

urldate = {2022-02-25},

journal = {Nature communications},

volume = {13},

number = {321},

issue = {1},

abstract = {Little is known about how the observed fat-specific pattern of 3D-spatial genome organisation is established. Here we report that adipocyte-specific knockout of the gene encoding nuclear envelope transmembrane protein Tmem120a disrupts fat genome organisation, thus causing a lipodystrophy syndrome. Tmem120a deficiency broadly suppresses lipid metabolism pathway gene expression and induces myogenic gene expression by repositioning genes, enhancers and miRNA-encoding loci between the nuclear periphery and interior. Tmem120a-/- mice, particularly females, exhibit a lipodystrophy syndrome similar to human familial partial lipodystrophy FPLD2, with profound insulin resistance and metabolic defects that manifest upon exposure to an obesogenic diet. Interestingly, similar genome organisation defects occurred in cells from FPLD2 patients that harbour nuclear envelope protein encoding LMNA mutations. Our data indicate TMEM120A genome organisation functions affect many adipose functions and its loss may yield adiposity spectrum disorders, including a miRNA-based mechanism that could explain muscle hypertrophy in human lipodystrophy.},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{%a1.%Ybc,

title = {The Bright Side of the Tiger: Autofluorescence Patterns in Aedes albopictus (Diptera, Culicidae) Male and Female Mosquitoes. },

author = {Croce AC and Scolari F},

url = {https://www.mdpi.com/1420-3049/27/3/713},

doi = {10.3390/molecules27030713},

year  = {2022},

date = {2022-02-25},

journal = {Molecules},

volume = {27},

issue = {3},

pages = {713},

abstract = {Light-based events in insects deserve increasing attention for various reasons. Besides their roles in inter- and intra-specific visual communication, with biological, ecological and taxonomical implications, optical properties are also promising tools for the monitoring of insect pests and disease vectors. Among these is the Asian tiger mosquito, Aedes albopictus, a global arbovirus vector. Here we have focused on the autofluorescence characterization of Ae. albopictus adults using a combined imaging and spectrofluorometric approach. Imaging has evidenced that autofluorescence rises from specific body compartments, such as the head appendages, and the abdominal and leg scales. Spectrofluorometry has demonstrated that emission consists of a main band in the 410-600 nm region. The changes in the maximum peak position, between 430 nm and 500 nm, and in the spectral width, dependent on the target structure, indicate the presence, at variable degrees, of different fluorophores, likely resilin, chitin and melanins. The aim of this work has been to provide initial evidence on the so far largely unexplored autofluorescence of Ae. albopictus, to furnish new perspectives for the set-up of species- and sex-specific investigation of biological functions as well as of strategies for in-flight direct detection and surveillance of mosquito vectors.},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{%a1.%Ybb,

title = {BRCA1 deficiency specific base substitution mutagenesis is dependent on translesion synthesis and regulated by 53BP1},

author = {Chen D and Gervai JZ and Poti A and Nemeth E and Szeltner Z and Szikriszt B and Gyure Z and Zamborszky J and Ceccon M and {d'Adda di Fagagna F} and Szallasi Z and Richardson AL and Szuts D},

url = {https://www.nature.com/articles/s41467-021-27872-7},

doi = {10.1038/s41467-021-27872-7},

year  = {2022},

date = {2022-02-25},

journal = {Nature communications},

volume = {13},

issue = {1},

pages = {226},

abstract = {Defects in BRCA1, BRCA2 and other genes of the homology-dependent DNA repair (HR) pathway cause an elevated rate of mutagenesis, eliciting specific mutation patterns including COSMIC signature SBS3. Using genome sequencing of knock-out cell lines we show that Y family translesion synthesis (TLS) polymerases contribute to the spontaneous generation of base substitution and short insertion/deletion mutations in BRCA1 deficient cells, and that TLS on DNA adducts is increased in BRCA1 and BRCA2 mutants. The inactivation of 53BP1 in BRCA1 mutant cells markedly reduces TLS-specific mutagenesis, and rescues the deficiency of template switch-mediated gene conversions in the immunoglobulin V locus of BRCA1 mutant chicken DT40 cells. 53BP1 also promotes TLS in human cellular extracts in vitro. Our results show that HR deficiency-specific mutagenesis is largely caused by TLS, and suggest a function for 53BP1 in regulating the choice between TLS and error-free template switching in replicative DNA damage bypass.},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{%a1.%Yb,

title = {Validation of a Cleanroom Compliant Sonication-Based Decellularization Technique: A New Concept in Nerve Allograft Production},

author = {Bolognesi F and Fazio N and Boriani F and Fabbri VP and Gravina D and Pedrini FA and Zini N and Greco M and Paolucci M and Re MC and Asioli S and Foschini MP and D'Errico A and Baldini N and Marchetti C},

url = {https://www.mdpi.com/1422-0067/23/3/1530},

doi = {10.3390/ijms23031530},

year  = {2022},

date = {2022-02-25},

urldate = {2022-02-25},

journal = {International journal of molecular sciences},

volume = {23},

issue = {2},

pages = {1530},

abstract = {Defects of the peripheral nervous system are extremely frequent in trauma and surgeries and have high socioeconomic costs. If the direct suture of a lesion is not possible, i.e., nerve gap > 2 cm, it is necessary to use grafts. While the gold standard is the autograft, it has disadvantages related to its harvesting, with an inevitable functional deficit and further morbidity. An alternative to autografting is represented by the acellular nerve allograft (ANA), which avoids disadvantages of autograft harvesting and fresh allograft rejection. In this research, the authors intend to transfer to human nerves a novel technique, previously implemented in animal models, to decellularize nerves. The new method is based on soaking the nerve tissues in decellularizing solutions while associating ultrasounds and freeze-thaw cycles. It is performed without interrupting the sterility chain, so that the new graft may not require post-production γ-ray irradiation, which is suspected to affect the structural and functional quality of tissues. The new method is rapid, safe, and inexpensive if compared with available commercial ANAs. Histology and immunohistochemistry have been adopted to evaluate the new decellularized nerves. The study shows that the new method can be applied to human nerve samples, obtaining similar, and, sometimes better, results compared with the chosen control method, the Hudson technique.},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{%a1:%Yb_62,

title = {DNA damage response at telomeres boosts the transcription of SARS-CoV-2 receptor ACE2 during aging.},

author = {Sepe S and Rossiello F and Cancila V and Iannelli F and Matti V and Cicio G and Cabrini M and Marinelli E and Alabi BR and di Lillo A and Di Napoli A and Shay JW and Tripodo C and {d'Adda di Fagagna F}},

url = {https://www.embopress.org/doi/full/10.15252/embr.202153658},

doi = {10.15252/embr.202153658},

year  = {2022},

date = {2022-02-04},

urldate = {2021-12-06},

journal = {EMBO Reports},

abstract = {The severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) causes the coronavirus disease 2019 (COVID-19), known to be more common in the elderly, who also show more severe symptoms and are at higher risk of hospitalization and death. Here, we show that the expression of the angiotensin converting enzyme 2 (ACE2), the SARS-CoV-2 cell receptor, increases during aging in mouse and human lungs. ACE2 expression increases upon telomere shortening or dysfunction in both cultured mammalian cells and in vivo in mice. This increase is controlled at the transcriptional level, and Ace2 promoter activity is DNA damage response (DDR)-dependent. Both pharmacological global DDR inhibition of ATM kinase activity and selective telomeric DDR inhibition by the use of antisense oligonucleotides prevent Ace2 upregulation following telomere damage in cultured cells and in mice. We propose that during aging telomere dysfunction due to telomeric shortening or damage triggers DDR activation and this causes the upregulation of ACE2, the SARS-CoV-2 cell receptor, thus contributing to make the elderly more susceptible to the infection.},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{%a1:%Yb_71,

title = {Retrotransposons Down- and Up-Regulation in Aging Somatic Tissue},

author = {Giordani G and Cavaliere V and Gargiulo G and Lattanzi G and Andrenacci D},

url = {https://www.mdpi.com/2073-4409/11/1/79},

doi = {10.3390/cells11010079},

year  = {2021},

date = {2021-12-30},

journal = {Cells},

volume = {11},

number = {1},

pages = {79},

abstract = {The transposon theory of aging hypothesizes the activation of transposable elements (TEs) in somatic tissues with age, leading to a shortening of the lifespan. It is thought that TE activation in aging produces an increase in DNA double-strand breaks, contributing to genome instability and promoting the activation of inflammatory responses. To investigate how TE regulation changes in somatic tissues during aging, we analyzed the expression of some TEs, as well as a source of small RNAs that specifically silence the analyzed TEs; the Drosophila cluster named flamenco. We found significant variations in the expression levels of all the analyzed TEs during aging, with a trend toward reduction in middle-aged adults and reactivation in older individuals that suggests dynamic regulation during the lifespan.},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{%a1:%Yb_70,

title = {Elongating RNA polymerase II and RNA:DNA hybrids hinder fork progression and gene expression at sites of head-on replication-transcription collisions},

author = {Zardoni L and Nardini E and Brambati A and Lucca C and Choudhary R and Loperfido F and Sabbioneda S and Liberi G},

url = {https://academic.oup.com/nar/advance-article/doi/10.1093/nar/gkab1146/6456226},

doi = {10.1093/nar/gkab1146},

year  = {2021},

date = {2021-12-14},

urldate = {2021-12-14},

journal = {Nucleic acids research},

volume = {49},

number = {22},

pages = {12769-12784},

abstract = {Uncoordinated clashes between replication forks and transcription cause replication stress and genome instability, which are hallmarks of cancer and neurodegeneration. Here, we investigate the outcomes of head-on replication-transcription collisions, using as a model system budding yeast mutants for the helicase Sen1, the ortholog of human Senataxin. We found that RNA Polymerase II accumulates together with RNA:DNA hybrids at sites of head-on collisions. The replication fork and RNA Polymerase II are both arrested during the clash, leading to DNA damage and, in the long run, the inhibition of gene expression. The inactivation of RNA Polymerase II elongation factors, such as the HMG-like protein Spt2 and the DISF and PAF complexes, but not alterations in chromatin structure, allows replication fork progression through transcribed regions. Attenuation of RNA Polymerase II elongation rescues RNA:DNA hybrid accumulation and DNA damage sensitivity caused by the absence of Sen1, but not of RNase H proteins, suggesting that such enzymes counteract toxic RNA:DNA hybrids at different stages of the cell cycle with Sen1 mainly acting in replication. We suggest that the main obstacle to replication fork progression is the elongating RNA Polymerase II engaged in an R-loop, rather than RNA:DNA hybrids per se or hybrid-associated chromatin modifications.},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{%a1:%Yb_69,

title = {Proliferation Pattern of Pediatric Tumor-Derived Mesenchymal Stromal Cells and Role in Cancer Dormancy: A Perspective of Study for Surgical Strategy},

author = {Pelizzo G and Riva F and Croce S and Avanzini MA and Acquafredda G and de Silvestri A and Mazzon E and Bramanti P and Zuccotti G and Mazzini G and Calcaterra V},

editor = {Pelizzo G and Riva F and Croce S and Avanzini MA and Acquafredda G and de Silvestri A and Mazzon E and Bramanti P and Zuccotti G and Mazzini G and Calcaterra V},

url = {https://www.frontiersin.org/articles/10.3389/fped.2021.766610/full},

doi = {10.3389/fped.2021.766610},

year  = {2021},

date = {2021-12-14},

urldate = {2021-12-14},

journal = {Frontiers in pediatrics},

volume = {9},

pages = {766610},

abstract = {The explanation for cancer recurrence still remains to be fully elucidated. Moreover, tumor dormancy, which is a process whereby cells enter reversible G0 cell cycle arrest, appears to be a critical step in this phenomenon. We evaluated the cell cycle proliferation pattern in pediatric tumor-derived mesenchymal stromal cells (MSCs), in order to provide a better understanding of the complex mechanisms underlying cancer dormancy. Specimens were obtained from 14 pediatric patients diagnosed with solid tumors and submitted to surgery. Morphology, phenotype, differentiation, immunological capacity, and proliferative growth of tumor MSCs were studied. Flow cytometric analysis was performed to evaluate the cell percentage of each cell cycle phase. Healthy donor bone marrow-derived mesenchymal stromal cells (BM-MSCs) were employed as controls. It was noted that the DNA profile of proliferating BM-MSC was different from that of tumor MSCs. All BM-MSCs expressed the typical DNA profile of proliferating cells, while in all tumor MSC samples, ≥70% of the cells were detected in the G0/G1 phase. In particular, seven tumor MSC samples displayed intermediate cell cycle behavior, and the other seven tumor MSC samples exhibited a slow cell cycle. The increased number of tumor MSCs in the G0-G1 phase compared with BM-MSCs supports a role for quiescent MSCs in tumor dormancy regulation. Understanding the mechanisms that promote dormant cell cycle arrest is essential in identifying predictive markers of recurrence and to promote a dedicated surgical planning.},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{%a1:%Yb_68,

title = {Epistasis, aneuploidy, and functional mutations underlie evolution of resistance to induced microtubule depolymerization},

author = {Pavani M and Bonaiuti P and Chiroli E and Gross F and Natali F and Macaluso F and Poti A and Pasqualato S and Farkas Z and Pompei S and Cosentino Lagomarsino M and Rancati G and Szüts D and Ciliberto A},

url = {https://www.embopress.org/doi/abs/10.15252/embj.2021108225},

doi = {10.15252/embj.2021108225},

year  = {2021},

date = {2021-12-14},

journal = {EMBO Journal},

volume = {40},

number = {22},

pages = {e108225},

abstract = {Cells with blocked microtubule polymerization are delayed in mitosis, but eventually manage to proliferate despite substantial chromosome missegregation. While several studies have analyzed the first cell division after microtubule depolymerization, we have asked how cells cope long-term with microtubule impairment. We allowed 24 clonal populations of yeast cells with beta-tubulin mutations preventing proper microtubule polymerization, to evolve for  about 150 generations. At the end of the laboratory evolution experiment, cells had regained the ability to form microtubules and were less sensitive to microtubule-depolymerizing drugs. Whole-genome sequencing identified recurrently mutated genes, in particular for tubulins and kinesins, as well as pervasive duplication of chromosome VIII. Recreating these mutations and chromosome VIII disomy prior to evolution confirmed that they allow cells to compensate for the original mutation in beta-tubulin. Most of the identified mutations did not abolish function, but rather restored microtubule functionality. Analysis of the temporal order of resistance development in independent populations repeatedly revealed the same series of events: disomy of chromosome VIII followed by a single additional adaptive mutation in either tubulins or kinesins. Since tubulins are highly conserved among eukaryotes, our results have implications for understanding resistance to microtubule-targeting drugs widely used in cancer therapy.},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{%a1:%Yb_67,

title = {The Combination of AHCC and ETAS Decreases Migration of Colorectal Cancer Cells, and Reduces the Expression of LGR5 and Notch1 Genes in Cancer Stem Cells: A Novel Potential Approach for Integrative Medicine},

author = {Paganelli F and Chiarini F and Palmieri A and Martinelli M and Sena P and Bertacchini J and Roncucci L and Cappellini A and Martelli AM and Bonucci M and Fiorentini C and Hammarberg Ferri I},

doi = {10.3390/ph14121325},

year  = {2021},

date = {2021-12-14},

journal = {Pharmaceuticals},

volume = {14},

number = {12},

pages = {1325},

abstract = {The AHCC standardized extract of cultured Lentinula edodes mycelia, and the standardized extract of Asparagus officinalis stem, trademarked as ETAS, are well known supplements with immunomodulatory and anticancer potential. Several reports have described their therapeutic effects, including antioxidant and anticancer activity and improvement of immune response. In this study we aimed at investigating the effects of a combination of AHCC and ETAS on colorectal cancer cells and biopsies from healthy donors to assess the possible use in patients with colorectal cancer. Our results showed that the combination of AHCC and ETAS was synergistic in inducing a significant decrease in cancer cell growth, compared with single agents. Moreover, the combined treatment induced a significant increase in apoptosis, sparing colonocytes from healthy donors, and was able to induce a strong reduction in migration potential, accompanied by a significant modulation of proteins involved in invasiveness. Finally, combined treatment was able to significantly downregulate LGR5 and Notch1 in SW620 cancer stem cell (CSC) colonospheres. Overall, these findings support the potential therapeutic benefits of the AHCC and ETAS combinatorial treatment for patients with colorectal cancer.},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{%a1:%Yb_66,

title = {The prolyl-isomerase PIN1 is essential for nuclear Lamin-B structure and function and protects heterochromatin under mechanical stress},

author = {Napoletano F and Ferrari Bravo G and Voto IAP and Santin A and Celora L and Campaner E and Dezi C and Bertossi A and Valentino E and Santorsola M and Rustighi A and Fajner V and Maspero E and Ansaloni F and Cancila V and Valenti CF and Santo M and Artimagnella OB and Finaurini S and Gioia U and Polo S and Sanges R and Tripodo C and Mallamaci A and Gustincich S and {d'Adda di Fagagna F} and Mantovani F and Specchia V and Del Sal G},

url = {https://www.cell.com/cell-reports/fulltext/S2211-1247(21)01141-4?_returnURL=https%3A%2F%2Flinkinghub.elsevier.com%2Fretrieve%2Fpii%2FS2211124721011414%3Fshowall%3Dtrue#%20},

doi = {10.1016/j.celrep.2021.109694},

year  = {2021},

date = {2021-12-14},

journal = {Cell reports},

volume = {36},

number = {11},

pages = {109694},

abstract = {Chromatin organization plays a crucial role in tissue homeostasis. Heterochromatin relaxation and consequent unscheduled mobilization of transposable elements (TEs) are emerging as key contributors of aging and aging-related pathologies, including Alzheimer's disease (AD) and cancer. However, the mechanisms governing heterochromatin maintenance or its relaxation in pathological conditions remain poorly understood. Here we show that PIN1, the only phosphorylation-specific cis/trans prolyl isomerase, whose loss is associated with premature aging and AD, is essential to preserve heterochromatin. We demonstrate that this PIN1 function is conserved from Drosophila to humans and prevents TE mobilization-dependent neurodegeneration and cognitive defects. Mechanistically, PIN1 maintains nuclear type-B Lamin structure and anchoring function for heterochromatin protein 1α (HP1α). This mechanism prevents nuclear envelope alterations and heterochromatin relaxation under mechanical stress, which is a key contributor to aging-related pathologies.},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{%a1:%Yb_65,

title = {Computed structures of core eukaryotic protein complexes.},

author = {Humphreys IR and Pei J and Baek M and Krishnakumar A and Anishchenko I and Ovchinnikov S and Zhang J and Ness TJ and Banjade S and Bagde SR and Stancheva VG and Li XH and Liu K and Zheng Z and Barrero DJ and Roy U and Kuper J and Fernández IS and Szakal B and Branzei D and Rizo J and Kisker C and Greene EC and Biggins S and Keeney S and Miller EA and Fromme JC and Hendrickson TL and Cong Q and Baker D},

url = {https://www.science.org/doi/10.1126/science.abm4805?url_ver=Z39.88-2003&rfr_id=ori:rid:crossref.org&rfr_dat=cr_pub%20%200pubmed},

doi = {10.1126/science.abm4805},

year  = {2021},

date = {2021-12-14},

journal = {Science},

volume = {374},

number = {6573},

abstract = {Protein-protein interactions play critical roles in biology, but the structures of many eukaryotic protein complexes are unknown, and there are likely many interactions not yet identified. We take advantage of advances in proteome-wide amino acid coevolution analysis and deep-learning–based structure modeling to systematically identify and build accurate models of core eukaryotic protein complexes within the Saccharomyces cerevisiae proteome. We use a combination of RoseTTAFold and AlphaFold to screen through paired multiple sequence alignments for 8.3 million pairs of yeast proteins, identify 1505 likely to interact, and build structure models for 106 previously unidentified assemblies and 806 that have not been structurally characterized. These complexes, which have as many as five subunits, play roles in almost all key processes in eukaryotic cells and provide broad insights into biological function.},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{%a1:%Yb_64,

title = {The power of genetic diversity in genome-wide association studies of lipids.},

author = {Graham SE and Clarke SL and Wu KH and Kanoni S and Zajac GJM ...... and Biino G and et al.},

url = {https://www.nature.com/articles/s41586-021-04064-3},

doi = {10.1038/s41586-021-04064-3},

year  = {2021},

date = {2021-12-14},

urldate = {2021-12-14},

journal = {Nature},

volume = {600},

number = {7890},

pages = {675-679},

abstract = {Increased blood lipid levels are heritable risk factors of cardiovascular disease with varied prevalence worldwide owing to different dietary patterns and medication use1. Despite advances in prevention and treatment, in particular through reducing low-density lipoprotein cholesterol levels2, heart disease remains the leading cause of death worldwide3. Genome-wideassociation studies (GWAS) of blood lipid levels have led to important biological and clinical insights, as well as new drug targets, for cardiovascular disease. However, most previous GWAS4-23 have been conducted in European ancestry populations and may have missed genetic variants that contribute to lipid-level variation in other ancestry groups. These include differences in allele frequencies, effect sizes and linkage-disequilibrium patterns24. Here we conduct a multi-ancestry, genome-wide genetic discovery meta-analysis of lipid levels in approximately 1.65 million individuals, including 350,000 of non-European ancestries. We quantify the gain in studying non-European ancestries and provide evidence to support the expansion of recruitment of additional ancestries, even with relatively small sample sizes. We find that increasing diversity rather than studying additional individuals of European ancestry results in substantial improvements in fine-mapping functional variants and portability of polygenic prediction (evaluated in approximately 295,000 individuals from 7 ancestry groupings). Modest gains in the number of discovered loci and ancestry-specific variants were also achieved. As GWAS expand emphasis beyond the identification of genes and fundamental biology towards the use of genetic variants for preventive and precision medicine25, we anticipate that increased diversity of participants will lead to more accurate and equitable26 application of polygenic scores in clinical practice.},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{%a1:%Yb_63,

title = {Association of rs3027178 polymorphism in the circadian clock gene PER1 with susceptibility to Alzheimer's disease and longevity in an Italian population},

author = {Bacalini MG and Palombo F and Garagnani P and Giuliani C and Fiorini C and Caporali L and Stanzani Maserati M and Capellari S and Romagnoli M and De Fanti S and Benussi L and Binetti G and Ghidoni R and Galimberti D and Scarpini E and Arcaro M and Bonanni E and Siciliano G and Maestri M and Guarnieri B; Italian Multicentric Group on clock genes and actigraphy in AD and Martucci M and Monti D and Carelli V and Franceschi C and La Morgia C and Santoro A.},

url = {https://link.springer.com/article/10.1007%2Fs11357-021-00477-0},

doi = {10.1007/s11357-021-00477-0},

year  = {2021},

date = {2021-12-14},

journal = {Geroscience},

abstract = {Many physiological processes in the human body follow a 24-h circadian rhythm controlled by the circadian clock system. Light, sensed by retina, is the predominant "zeitgeber" able to synchronize the circadian rhythms to the light-dark cycles. Circadian rhythm dysfunction and sleep disorders have been associated with aging and neurodegenerative diseases including mild cognitive impairment (MCI) and Alzheimer's disease (AD). In the present study, we aimed at investigating the genetic variability of clock genes in AD patients compared to healthy controls from Italy. We also included a group of Italian centenarians, considered as super-controls in association studies given their extreme phenotype of successful aging. We analyzed the exon sequences of eighty-four genes related to circadian rhythms, and the most significant variants identified in this first discovery phase were further assessed in a larger independent cohort of AD patients by matrix assisted laser desorption/ionization-time of flight mass spectrometry. The results identified a significant association between the rs3027178 polymorphism in the PER1 circadian gene with AD, the G allele being protective for AD. Interestingly, rs3027178 showed similar genotypic frequencies among AD patients and centenarians. These results collectively underline the relevance of circadian dysfunction in the predisposition to AD and contribute to the discussion on the role of the relationship between the genetics of age-related diseases and of longevity.},

keywords = {},

pubstate = {forthcoming},

tppubtype = {article}

}

@article{%a1:%Yb_61,

title = {Revisiting the Role of GSK3, A Modulator of Innate Immunity, in Idiopathic Inclusion Body Myositis.},

author = {Piazzi M and Bavelloni A and Cenni V and Faenza I and Blalock WL},

url = {https://www.mdpi.com/2073-4409/10/11/3255},

doi = {10.3390/cells10113255},

year  = {2021},

date = {2021-12-06},

journal = {Cells},

volume = {10},

number = {11},

pages = {3255},

abstract = {Idiopathic or sporadic inclusion body myositis (IBM) is the leading age-related (onset >50 years of age) autoimmune muscular pathology, resulting in significant debilitation in affected individuals. Once viewed as primarily a degenerative disorder, it is now evident that much like several other neuro-muscular degenerative disorders, IBM has a major autoinflammatory component resulting in chronic inflammation-induced muscle destruction. Thus, IBM is now considered primarily an inflammatory pathology. To date, there is no effective treatment for sporadic inclusion body myositis, and little is understood about the pathology at the molecular level, which would offer the best hopes of at least slowing down the degenerative process. Among the previously examined potential molecular players in IBM is glycogen synthase kinase (GSK)-3, whose role in promoting TAU phosphorylation and inclusion bodies in Alzheimer's disease is well known. This review looks to re-examine the role of GSK3 in IBM, not strictly as a promoter of TAU and Abeta inclusions, but as a novel player in the innate immune system, discussing some of the recent roles discovered for this well-studied kinase in inflammatory-mediated pathology.},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{%a1:%Yb_60,

title = {Targeting DDX3X Helicase Activity with BA103 Shows Promising Therapeutic Effects in Preclinical Glioblastoma Models},

author = {Brai A and Riva V and Clementi L and Falsitta L and Zamperini C and Sinigiani V and Festuccia C and Sabetta S and Aiello D and Roselli C and Garbelli A and Trivisani CI and Maccari L and Bugli F and Sanguinetti M and Calandro P and Chiariello M and Quaranta P and Botta L and Angelucci A and Maga G and Botta M},

url = {https://www.mdpi.com/2072-6694/13/21/5569},

doi = {10.3390/cancers13215569},

year  = {2021},

date = {2021-12-06},

journal = {Cancers (Basel)},

volume = {13},

number = {21},

pages = {5569},

abstract = {DDX3X is an ATP-dependent RNA helicase that has recently attracted interest for its involvement in viral replication and oncogenic progression. Starting from hit compounds previously identified by our group, we have designed and synthesized a new series of DDX3X inhibitors that effectively blocked its helicase activity. These new compounds were able to inhibit the proliferation of cell lines from different cancer types, also in DDX3X low-expressing cancer cell lines. According to the absorption, distribution, metabolism, elimination properties, and antitumoral activity, compound BA103 was chosen to be further investigated in glioblastoma models. BA103 determined a significant reduction in the proliferation and migration of U87 and U251 cells, downregulating the oncogenic protein β-catenin. An in vivo evaluation demonstrated that BA103 was able to reach the brain and reduce the tumor growth in xenograft and orthotopic models without evident side effects. This study represents the first demonstration that DDX3X-targeted small molecules are feasible and promising drugs also in glioblastoma.},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{%a1:%Yb_59,

title = {Release of Inflammatory Mediators from Acid-Stimulated Mesenchymal Stromal Cells Favours Tumour Invasiveness and Metastasis in Osteosarcoma.},

author = {Avnet S and Lemma S and Cortini M and Di Pompo G and Perut F and Lipreri MV and Roncuzzi L and Columbaro M and Errani C and Longhi A and Zini N and Heymann D and Dominici M and Grisendi G and Golinelli G and Consolino L and Longo DL and Nanni C and Righi A and Baldini N},

url = {https://www.mdpi.com/2072-6694/13/22/5855},

doi = {10.3390/cancers13225855},

year  = {2021},

date = {2021-12-06},

urldate = {2021-12-06},

journal = {Cancers (Basel)},

volume = {13},

number = {22},

pages = {5855},

abstract = {Osteosarcoma is the most frequent primary malignant bone tumour with an impressive tendency to metastasise. Highly proliferative tumour cells release a remarkable amount of protons into the extracellular space that activates the NF-kB inflammatory pathway in adjacent stromal cells. In this study, we further validated the correlation between tumour glycolysis/acidosis and its role in metastases. In patients, at diagnosis, we found high circulating levels of inflammatory mediators (IL6, IL8 and miR-136-5p-containing extracellular vesicles). IL6 serum levels significantly correlated with disease-free survival and 18F-FDG PET/CT uptake, an indirect measurement of tumour glycolysis and, hence, of acidosis. In vivo subcutaneous and orthotopic models, co-injected with mesenchymal stromal (MSC) and osteosarcoma cells, formed an acidic tumour microenvironment (mean pH 6.86, as assessed by in vivo MRI-CEST pH imaging). In these xenografts, we enlightened the expression of both IL6 and the NF-kB complex subunit in stromal cells infiltrating the tumour acidic area. The co-injection with MSC also significantly increased lung metastases. Finally, by using 3D microfluidic models, we directly showed the promotion of osteosarcoma invasiveness by acidosis via IL6 and MSC. In conclusion, osteosarcoma-associated MSC react to intratumoural acidosis by triggering an inflammatory response that, in turn, promotes tumour invasiveness at the primary site toward metastasis development.},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{%a1:%Yb_71,

title = {Oncolytic adenovirus and gene therapy with EphA2-BiTE for the treatment of pediatric high-grade gliomas},

author = {Arnone CM and Polito VA and Mastronuzzi A and Carai A and Diomedi FC and Antonucci L and Petrilli LL and Vinci M and Ferrari F and Salviato E and Scarsella M and De Stefanis C and Weber G and Quintarelli C and De Angelis B and Brenner MK and Gottschalk S and Hoyos V and Locatelli F and Caruana I and Del Bufalo F},

url = {https://jitc.bmj.com/content/9/5/e001930.long},

doi = {10.1136/jitc-2020-001930},

year  = {2021},

date = {2021-11-19},

urldate = {2021-11-19},

journal = {Journal for immunotherapy of cancer},

volume = {9},

issue = {5},

abstract = {Background: Pediatric high-grade gliomas (pHGGs) are among the most common and incurable malignant neoplasms of childhood. Despite aggressive, multimodal treatment, the outcome of children with high-grade gliomas has not significantly improved over the past decades, prompting the development of innovative approaches. Methods: To develop an effective treatment, we aimed at improving the suboptimal antitumor efficacy of oncolytic adenoviruses (OAs) by testing the combination with a gene-therapy approach using a bispecific T-cell engager (BiTE) directed towards the erythropoietin-producing human hepatocellular carcinoma A2 receptor (EphA2), conveyed by a replication-incompetent adenoviral vector (EphA2 adenovirus (EAd)). The combinatorial approach was tested in vitro, in vivo and thoroughly characterized at a molecular level. Results: After confirming the relevance of EphA2 as target in pHGGs, documenting a significant correlation with worse clinical outcome of the patients, we showed that the proposed strategy provides significant EphA2-BiTE amplification and enhanced tumor cell apoptosis, on coculture with T cells. Moreover, T-cell activation through an agonistic anti-CD28 antibody further increased the activation/proliferation profiles and functional response against infected tumor cells, inducing eradication of highly resistant, primary pHGG cells. The gene-expression analysis of tumor cells and T cells, after coculture, revealed the importance of both EphA2-BiTE and costimulation in the proposed system. These in vitro observations translated into significant tumor control in vivo, in both subcutaneous and a more challenging orthotopic model. Conclusions: The combination of OA and EphA2-BiTE gene therapy strongly enhances the antitumor activity of OA, inducing the eradication of highly resistant tumor cells, thus supporting the clinical translation of the approach.},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{%a1:%Ybvwg,

title = {Urine-Derived Stem Cells Express 571 Neuromuscular Disorders Causing Genes, Making Them a Potential in vitro Model for Rare Genetic Diseases.},

author = {Falzarano MS and Rossi R and Grilli A and Fang M and Osman H and Sabatelli P and Antoniel M and Lu Z and Li W and Selvatici R and Al-Khalili C and Gualandi F and Bicciato S and Torelli S and Ferlini A},

url = {https://www.frontiersin.org/articles/10.3389/fphys.2021.716471/full},

doi = {10.3389/fphys.2021.716471},

year  = {2021},

date = {2021-11-15},

journal = {Frontiers in physiology},

volume = {12},

pages = {716471},

abstract = {Background: Neuromuscular disorders (NMDs) are a heterogeneous group of genetic diseases, caused by mutations in genes involved in spinal cord, peripheral nerve, neuromuscular junction, and muscle functions. To advance the knowledge of the pathological mechanisms underlying NMDs and to eventually identify new potential drugs paving the way for personalized medicine, limitations regarding the availability of neuromuscular disease-related biological samples, rarely accessible from patients, are a major challenge. Aim: We characterized urinary stem cells (USCs) by in-depth transcriptome and protein profiling to evaluate whether this easily accessible source of patient-derived cells is suitable to study neuromuscular genetic diseases, focusing especially on those currently involved in clinical trials. Methods: The global transcriptomics of either native or MyoD transformed USCs obtained from control individuals was performed by RNA-seq. The expression of 610 genes belonging to 16 groups of disorders (http://www.musclegenetable.fr/) whose mutations cause neuromuscular diseases, was investigated on the RNA-seq output. In addition, protein expression of 11 genes related to NMDs including COL6A, EMD, LMNA, SMN, UBA1, DYNC1H1, SOD1, C9orf72, DYSF, DAG1, and HTT was analyzed in native USCs by immunofluorescence and/or Western blot (WB). Results: RNA-seq profile of control USCs shows that 571 out of 610 genes known to be involved in NMDs, are expressed in USCs. Interestingly, the expression levels of the majority of NMD genes remain unmodified following USCs MyoD transformation. Most genes involved in the pathogenesis of all 16 groups of NMDs are well represented except for channelopathies and malignant hyperthermia related genes. All tested proteins showed high expression values, suggesting consistency between transcription and protein representation in USCs. Conclusion: Our data suggest that USCs are human cells, obtainable by non-invasive means, which might be used as a patient-specific cell model to study neuromuscular disease-causing genes and that they can be likely adopted for a variety of in vitro functional studies such as mutation characterization, pathway identification, and drug screening.},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{%a1:%Ybvwf,

title = {Beyond Sperm and Male Accessory Gland Proteins: Exploring Insect Reproductive Metabolomes},

author = {Scolari F and Khamis FM and Perez-Staples D},

url = {https://www.frontiersin.org/articles/10.3389/fphys.2021.729440/full},

doi = {10.3389/fphys.2021.729440},

year  = {2021},

date = {2021-11-08},

journal = {Frontiers in physiology},

volume = {12},

number = {1},

pages = {Frontiers in physiology},

abstract = {Insect seminal fluid, the non-sperm component of the ejaculate, comprises a variegated set of molecules, including, but not limited to, lipids, proteins, carbohydrates, salts, hormones, nucleic acids, and vitamins. The identity and functional role of seminal fluid proteins (SFPs) have been widely investigated, in multiple species. However, most of the other small molecules in insect ejaculates remain uncharacterized. Metabolomics is currently adopted to deepen our understanding of complex biological processes and in the last 15years has been applied to answer different physiological questions. Technological advances in high-throughput methods for metabolite identification such as mass spectrometry and nuclear magnetic resonance (NMR) are now coupled to an expanded bioinformatics toolbox for large-scale data analysis. These improvements allow for the processing of smaller-sized samples and for the identification of hundreds to thousands of metabolites, not only in Drosophila melanogaster but also in disease vectors, animal, and agricultural pests. In this review, we provide an overview of the studies that adopted metabolomics-based approaches in insects, with a particular focus on the reproductive tract (RT) of both sexes and the ejaculate. Progress in the field of metabolomics will contribute not only to achieve a deeper understanding of the composition of insect ejaculates and how they are affected by endogenous and exogenous factors, but also to provide increasingly powerful tools to decipher the identity and molecular interactions between males and females during and after mating.},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{%a1:%Ybvwe,

title = {Selective Binding and Redox-Activity on Parallel G-Quadruplexes by Pegylated Naphthalene Diimide-Copper Complexes},

author = {Pirota V and Lunghi E and Benassi A and Crespan E and Freccero M and Doria F},

url = {Molecules},

doi = {Molecules},

year  = {2021},

date = {2021-11-08},

journal = {Molecules},

volume = {26},

number = {16},

pages = {5025},

abstract = {G-quadruplexes (G4s) are higher-order supramolecular structures, biologically important in the regulation of many key processes. Among all, the recent discoveries relating to RNA-G4s, including their potential involvement as antiviral targets against COVID-19, have triggered the ever-increasing need to develop selective molecules able to interact with parallel G4s. Naphthalene diimides (NDIs) are widely exploited as G4 ligands, being able to induce and strongly stabilize these structures. Sometimes, a reversible NDI-G4 interaction is also associated with an irreversible one, due to the cleavage and/or modification of G4s by functional-NDIs. This is the case of NDI-Cu-DETA, a copper(II) complex able to cleave G4s in the closest proximity to the target binding site. Herein, we present two original Cu(II)-NDI complexes, inspired by NDI-Cu-DETA, differently functionalized with 2-(2-aminoethoxy)ethanol side-chains, to selectively drive redox-catalyzed activity towards parallel G4s. The selective interaction toward parallel G4 topology, controlled by the presence of 2-(2-aminoethoxy)ethanol side chains, was already firmly demonstrated by us using core-extended NDIs. In the present study, the presence of protonable moieties and the copper(II) cavity, increases the binding affinity and specificity of these two NDIs for a telomeric RNA-G4. Once defined the copper coordination relationship and binding constants by competition titrations, ability in G4 stabilization, and ROS-induced cleavage were analyzed. The propensity in the stabilization of parallel topology was highlighted for both of the new compounds HP2Cu and PE2Cu. The results obtained are particularly promising, paving the way for the development of new selective functional ligands for binding and destructuring parallel G4s.},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{%a1:%Ybvwd,

title = {Basal and IL-1beta enhanced chondrocyte chemotactic activity on monocytes are co-dependent on both IKKalpha and IKKbeta NF-kappaB activating kinases},

author = {Olivotto E and Minguzzi M and D'Adamo S and Astolfi A and Santi S and Uguccioni M and Marcu KB and Borzi' RM},

url = {https://www.nature.com/articles/s41598-021-01063-2},

doi = {10.1038/s41598-021-01063-2},

year  = {2021},

date = {2021-11-08},

urldate = {2021-11-08},

journal = {Scientific reports},

volume = {11},

number = {1},

pages = {21697},

abstract = {IKKalpha and IKKbeta are essential kinases for activating NF-kappaB transcription factors that regulate cellular differentiation and inflammation. By virtue of their small size, chemokines support the crosstalk between cartilage and other joint compartments and contribute to immune cell chemotaxis in osteoarthritis (OA). Here we employed shRNA retroviruses to stably and efficiently ablate the expression of each IKK in primary OA chondrocytes to determine their individual contributions for monocyte chemotaxis in response to chondrocyte conditioned media. Both IKKalpha and IKKbeta KDs blunted both the monocyte chemotactic potential and the protein levels of CCL2/MCP-1, the chemokine with the highest concentration and the strongest association with monocyte chemotaxis. These findings were mirrored by gene expression analysis indicating that the lowest levels of CCL2/MCP-1 and other monocyte-active chemokines were in IKKαKD cells under both basal and IL-1beta stimulated conditions. We find that in their response to IL-1beta stimulation IKKalphaKD primary OA chondrocytes have reduced levels of phosphorylated NFkappaB p65pSer536 and H3pSer10. Confocal microscopy analysis revealed co-localized p65 and H3pSer10 nuclear signals in agreement with our findings that IKKalphaKD effectively blunts their basal level and IL-1beta dependent increases. Our results suggest that IKKalpha could be a novel OA disease target.},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{%a1:%Ybvw,

title = {Vertebrate CTF18 and DDX11 essential function in cohesion is bypassed by preventing WAPL-mediated cohesin release},

author = {Kawasumi R and Abe T and Psakhye I and Miyata K and Hirota K and Branzei D},

url = {http://genesdev.cshlp.org/content/35/19-20/1368.long},

doi = {10.1101/gad.348581.121},

year  = {2021},

date = {2021-11-08},

urldate = {2021-11-08},

journal = {Genes & development},

volume = {35},

number = {19-20},

pages = {1368-1382},

abstract = {The alternative PCNA loader containing CTF18-DCC1-CTF8 facilitates sister chromatid cohesion (SCC) by poorly defined mechanisms. Here we found that in DT40 cells, CTF18 acts complementarily with the Warsaw breakage syndrome DDX11 helicase in mediating SCC and proliferation. We uncover that the lethality and cohesion defects of ctf18 ddx11 mutants are associated with reduced levels of chromatin-bound cohesin and rescued by depletion of WAPL, a cohesin-removal factor. On the contrary, high levels of ESCO1/2 acetyltransferases that acetylate cohesin to establish SCC do not rescue ctf18 ddx11 phenotypes. Notably, the tight proximity of sister centromeres and increased anaphase bridges characteristic of WAPL-depleted cells are abrogated by loss of both CTF18 and DDX11 The results reveal that vertebrate CTF18 and DDX11 collaborate to provide sufficient amounts of chromatin-loaded cohesin available for SCC generation in the presence of WAPL-mediated cohesin-unloading activity. This process modulates chromosome structure and is essential for cellular proliferation in vertebrates.},

keywords = {},

pubstate = {published},

tppubtype = {article}

}