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Non-coding RNAs and RNA-based Therapeutics

Non-coding RNAs and RNA-based Therapeutics

Neurogenomics is presently at a very exciting crossroad since recent discoveries have challenged the classic model of gene organization and information flow providing potential new regulatory layers of neuronal cell function.

Activities

Activities

Our laboratory is developing two research lines:

  • SINEUPS: A new functional class of natural and synthetic lncRNAs that activate translation in a gene-dependent fashion. We are studying the regulatory role of natural SINEUPs in brain function and the use of synthetic SINEUPs as RNA therapeutics of neurodegenerative diseases.
  • TEs: We are currently investigating the role of the expression and mobilization of TEs in brain function and neurodegenerative diseases. To this purpose we are developing technologies for the identification of structural variations in neurons.

Laboratories

Laboratories

Results from ENCODE and the FANTOM projects have shown that the majority of the mammalian genome is transcribed. This generates a vast repertoire of transcripts that includes long non-coding RNA (lncRNA) and Transposable Elements (TE), such as SINEs (short interspersed nuclear elements) and LINEs (long interspersed nuclear elements). TEs can form independent transcriptional units or be embedded in mRNA or lncRNAs. Surprisingly, the large majority of genes share their genomic region with another gene on the opposite filament forming Sense/Antisense pairs. Furthermore, transcription and retrotransposition of LINEs and SINEs occur during neurogenesis creating somatic differences in genomic DNA sequences of neuronal cells.

Projects

Projects

Progetto 5000genomi@VdA, supported by Programma Investimenti per la crescita e l’occupazione 2014/20 (FESR) and Programma Investimenti in favore della crescita e dell’occupazione 2014/20 (FSE) Per maggiori dettagli si veda il sito del Progetto www.5000genomivda.it

IIT Publications List

Publications
2018
Podbevsek P., Fasolo F., Bon C., Cimatti L., Reisser S., Carninci P., Bussi G., Zucchelli S., Plavec J., Gustincich S.
Structural determinants of the SINE B2 element embedded in the long non-coding RNA activator of translation AS Uchl1
Scientific Reports, vol. 8, (no. 1)
2017
Codrich M., Bertuzzi M., Russo R., Francescatto M., Espinoza S., Zentilin L., Giacca M., Cesselli D., Beltrami A.P., Ascenzi P., Zucchelli S., Persichetti F., Leanza G., Gustincich S.
Neuronal hemoglobin affects dopaminergic cells' response to stress
Cell Death and Disease, vol. 8, (no. 1)
2016
Marcuzzi F., Zucchelli S., Bertuzzi M., Santoro C., Tell G., Carninci P., Gustincich S.
Isoforms of the Erythropoietin receptor in dopaminergic neurons of the Substantia Nigra
Journal of Neurochemistry, vol. 139, (no. 4), pp. 596-609
2014
Andersson R., Gebhard C., Miguel-Escalada I., Hoof I., Bornholdt J., Boyd M., Chen Y., Zhao X., Schmidl C., Suzuki T., Ntini E., Arner E., Valen E., Li K., Schwarzfischer L., Glatz D., Raithel J., Lilje B., Rapin N., Bagger F.O., Jorgensen M., Andersen P.R., Bertin N., Rackham O., Burroughs A.M., Baillie J.K., Ishizu Y., Shimizu Y., Furuhata E., Maeda S., Negishi Y., Mungall C.J., Meehan T.F., Lassmann T., Itoh M., Kawaji H., Kondo N., Kawai J., Lennartsson A., Daub C.O., Heutink P., Hume D.A., Jensen T.H., Suzuki H., Hayashizaki Y., Muller F., Forrest A.R.R., Carninci P., Rehli M., Sandelin A., The Fantom C.
An atlas of active enhancers across human cell types and tissues
Nature, vol. 507, (no. 7493), pp. 455-461
2014
Pascarella G., Lazarevic D., Plessy C., Bertin N., Akalin A., Vlachouli C., Simone R., Faulkner G.J., Zucchelli S., Kawai J., Daub C.O., Hayashizaki Y., Lenhard B., Carninci P., Gustincich S.
NanoCAGE analysis of the mouse olfactory epithelium identifies the expression of vomeronasal receptors and of proximal LINE elements
Frontiers in Cellular Neuroscience, vol. 8, (no. FEB)

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