Biofilm formation by the anaerobic pathogen Clostridium difficile

Clostridium difficile is an obligate anaerobic, Gram-positive, endospore-forming bacterium. Although an opportunistic pathogen, it is one of the important causes of healthcare-associated infections. While toxins TcdA and TcdB are the main virulence factors of C. difficile, the factors or processes involved in gut colonization during infection remain unclear. The biofilm-forming ability of bacterial pathogens has been associated with increased antibiotic resistance and chronic recurrent infections. Little is known about biofilm formation by anaerobic gut species. Biofilm formation by C. difficile could play a role in virulence and persistence of C. difficile, as seen for other intestinal pathogens. We demonstrate that C. difficile clinical strains, 630, and the strain isolated in the outbreak, R20291, form structured biofilms in vitro. Biofilm matrix is made of proteins, DNA and polysaccharide. Strain R20291 accumulates substantially more biofilm. Employing isogenic mutants, we show that virulence-associated proteins, Cwp84, flagella and a putative quorum sensing regulator, LuxS, Spo0A, are required for maximal biofilm formation by C. difficile. Moreover we demonstrate that bacteria in C. difficile biofilms are more resistant to high concentrations of vancomycin, a drug commonly used for treatment of CDI, and that inhibitory and sub-inhibitory concentrations of the same antibiotic induce biofilm formation. Surprisingly, clinical C. difficile strains from the same out-break, but from different origin, show differences in biofilm formation. Genome sequence analysis of these strains showed presence of a single nucleoide polymorphism (SNP) in the anti-σ factor RsbW, which regulates the stress-induced alternative sigma factor B (σB). We further demonstrate that RsbW, a negative regulator of alternative sigma factor B, has a role in biofilm formation and sporulation of C. difficile. Our data suggest that biofilm formation by C. difficile is a complex multifactorial process and may be a crucial mechanism for clostridial persistence in the host.

Yunus: ricerche e scavi nella necropoli dell'età del Ferro di Karkemish

La comprensione del contesto funerario rappresenta per l’archeologo uno degli aspetti più complessi da interpretare della società antica a causa dell’interazione tra numerosi, diversi fattori culturali. È quindi fondamentale condurre un’attenta e accurata analisi che tenga conto di tutti gli aspetti inerenti la sepoltura e il corredo. La riapertura nel 2011 degli scavi sul sito di Karkemish da parte della missione turco-italiana del Dipartimento di Storia Culture Civiltà dell’Alma Mater Studiorum - Università di Bologna, in collaborazione con le Università di Istanbul e Gaziantep, ha reso necessaria una rilettura dei dati di scavo emersi durante le precedenti missioni organizzate dal British Museum, condotte tra il 1913 e il 1914 nella necropoli di Yunus, per metterli in correlazione anche con i dati inediti ottenuti nelle nuove campagne di scavo all’interno del sito di Karkemish e Yunus. Lo scopo finale di questo progetto consiste in una nuova analisi dei contesti funerari databili all’Età del Ferro volta a definire, ove possibile, lo sviluppo sia della necropoli, sia della cultura materiale con l'intenzione di apportare un significativo contributo alla ricostruzione e alla comprensione di una delle più importanti necropoli dell’Età del Ferro

Unbalanced R-loops and micronuclei induced by DNA topoisomerase I poisons in cancer cells

Topoisomerase I (Top1) poisons are among the most clinically-effective drugs used for colon, ovary and lung cancers. Unpublished data from our lab have recently revealed that the structurally-unrelated Top1 poisons, Camptothecin (CPT) and Indimitecan (LMP776), induce the formation of micronuclei (MNi) in human cancer cells. In addition, MNi trigger an innate immune gene response by stimulating the cGAS/STING pathway. As the mechanisms of MNi formation are not fully determined, our aim is here to establish how MNi form after Top1 poisoning. Using immunofluorescence assays and EdU labelling of nascent DNAs, our results show that, after 24 hours of recovery, a short treatment with sub-cytotoxic doses of Top1 poisons induces the formation of MNi that do not contain newly synthetized (EdU+) DNA. We also saw that Top1 poisons delay replication machinery reducing EdU incorporation and produce significant levels of the damage markers γH2AX and p53BP1 in S-phase cells but not in G1 and G2/M cells. The results also show that MNi formation is dependent on R-loops, as RNaseH1 overexpression markedly reduces Top1 induced MNi. Genome-wide mapping of R-loops by DRIP-seq technique revealed that R-loop levels are both decreased and increased by CPT. In particular, increased R-loops are mainly found at active genes and always overlapped with Top1cc sites. We also found that increased R-loops overlap with lamina-associated chromatin domains while decreased R-loops correlate with replication origin sites. Overall, our data are consistent with the formation of MNi due to R-loop increase and under-replication at specific regions caused by Top1 poisons. These results will eventually help in developing new strategies for effective personalized interventions by using Top1-targeted compounds as immuno-modulators in cancer patients.

Dove il DNA antico tace: studio della 'life history' individuale nelle popolazioni umane del passato tramite analisi istologica e biogeochimica ad alta risoluzione di tessuti dentali mineralizzati da contesti archeologici e paleontologici umani

Questa tesi mira a presentare una panoramica, anche sperimentale con dati editi ed inediti, della ricostruzione delle life histories umane mediante metodi istologici e biogeochimici applicati allo smalto dentale delle dentizioni decidue. La tesi si concentra sulle metodologie biogeochimiche ad alta risoluzione spaziale che consentono di ottenere livelli temporali di dettaglio senza precedenti (da stagionali fino a sub-settimanali), quando combinate con l'analisi istomorfometrica dei tessuti dentali mineralizzati. La presente ricerca si concentra sulla creazione di modelli consistenti di variazione delle concentrazioni di elementi in traccia (con particolare riferimento a stronzio e bario) lungo la giunzione smalto dentinale, ottenuti tramite LA-ICPMS (Laser Ablation Inductively Coupled Mass Spectrometry), in funzione dei cambiamenti nella dieta (allattamento, svezzamento) nel primo anno di età di individui a storia nutrizionale nota (utilizzando denti decidui naturalmente esfoliati). In una prospettiva bioarcheologica, i risultati delle indagini sulla dieta altamente risolte nel tempo e interpretate con modelli come quelli proposti si correlano direttamente alle life histories individuali e consentono una analisi più sfumata e completa del comportamento umano nel passato, fornendo informazioni essenziali per la comprensione degli adattamenti bioculturali e aprendo finestre conoscitive su aspetti quali il rapporto madre-progenie, la gravidanza, l’allattamento, lo stress infantile, la dieta sia della progenie che della madre, la mobilità ad alta risoluzione e molti altri aspetti della vita delle popolazioni del passato che lo studio del DNA antico e della morfologia scheletrica non possono fornire. Dove il DNA antico tace, lo studio avanzato delle life histories parla.

Celti e Reti tra V e I sec. a.C. Oggetti tipo LaTène all'interno della cerchia culturale Fritzens-Sanzeno (arco alpino centro-orientale)

The study of the objects LaTène type found in middle-eastern alpine region (Trentino Alto Adige-Südtirol, Engadina, North Tirol, Voralberg and Villach basin) is aimed to a better comprehension of the complex net of relationships established among the Celts, settled both in the central Europe territories and, since the IV century b.C., in the Po Plain, and the local populations. The ancient authors, who called the inhabitants of this area Raeti, propose for this territory the usual pattern according to which, the population of a region was formed consequently to a migration or was caused by the hunting of pre-existing peoples. The archaeologists, in the last thirty years, recognized a cultural facies typical of the middle-eastern alpine territory during the second Iron Age, and defined that as Fritzens-Sanzeno culture (from the sites of Fritzens, Inn valley, and Sanzeno, Non Valley). The so-called Fritzens-Sanzeno culture spread out without breaks from the material culture of the final Bronze Age and the first Iron Age. This local substratum, characterized by a ceramic repertoire strongly standardized, by peculiar architectural solutions and by a particular typology of rural sacred places (Brandopferplätze), accepted, above all during the second Iron Age, the strong influences coming from the Etruscan world and from the Celtic one (evident in the presence of objects of ornament, of glass artefacts, of elements of the weaponry and of coins). The objects LaTène type become, with different degrees of reliability, important markers of the relationships existing between the Celts and the Raeti, although the ways of interaction (cultural influence, people's movements, commercial exchanges, gifts among élites etc.) is not still clear. The revision of published data and the study of unpublished materials allows to define a rich and articulated picture both to chronological level and to territorial one.