Address

DNA Sequencing Service
Department of Life Sciences
University of Trieste
Building Q, via Licio Giorgieri 5
34127 Trieste

Scientific Direction

Prof. Alberto Pallavicini       
e-mail:  pallavic@units.it
tel. +39 040 558 8736 

Dr. Fiorella Florian        
e-mail: florian@units.it 
tel. +39 558 8738

  Available Instrumentation

The sequencing service utilizes an ION TORRENT  ION PGM platform, including the automated system for positive Ion Sphere™ Particles (ISPs) formation (ligands and filaments to be sequenced)  built by the instruments Ion OneTouch™ 2 and Ion OneTouch™ ES (for positive sphere enrichment).

The sequencing will be subsequently executed on a Personal Genome Machine (PGM™), which’s core is formed by the chip containing more than 1 million wells accommodating one single DNA sequence each. It enables to detect variation in pH resultant of the incorporation of nucleotides in every single well and allows massive parallel sequencing.

  Offered Services

The sequencing service staff provides expertise in managing a sequencing project starting with the primer design, followed by DNA extraction, sequencing and data analysis, both as a service and  as scientific collaboration.

Our staff comprises great technical know-how in the field of metagenomics of 16S, 18S, COI and in designing libraries for community studies regarding e.g. microbial and fungal communities in marine environments, in terrestrial deposits and in human microbiots.

The long-term experience in the analysis of STR fragments for individual identification and the characterization of cell lines has an account of numerous decades.

Our service supports also the bioinformatic analysis of the data.

  Operators

Ion Torrent DNA Sequencing Service

Dr. Fabrizia Gionechetti    
e-mail: fgionechetti@units.it 
tel. +39 558 8626

Customer charges

Customer charges for DNA Sequencing Service

References

1. Auguste, M.; Lasa, A.; Balbi, T.; Pallavicini, A.; Vezzulli, L.; Canesi, L. Impact of Nanoplastics on Hemolymph Immune Parameters and Microbiota Composition in Mytilus Galloprovincialis. Marine Environmental Research 2020, 159, 105017, doi:10.1016/j.marenvres.2020.105017.

2. Auguste, M.; Lasa, A.; Pallavicini, A.; Gualdi, S.; Vezzulli, L.; Canesi, L. Exposure to TiO2 Nanoparticles Induces Shifts in the Microbiota Composition of Mytilus Galloprovincialis Hemolymph. Science of The Total Environment 2019, 670, 129–137, doi:10.1016/j.scitotenv.2019.03.133.

3. Balbi, T.; Vezzulli, L.; Lasa, A.; Pallavicini, A.; Canesi, L. Insight into the Microbial Communities Associated with First Larval Stages of Mytilus Galloprovincialis: Possible Interference by Estrogenic Compounds. Comparative Biochemistry and Physiology Part C: Toxicology & Pharmacology 2020, 237, 108833, doi:10.1016/j.cbpc.2020.108833.

4. Banchi, E.; Ametrano, C.G.; Tordoni, E.; Stanković, D.; Ongaro, S.; Tretiach, M.; Pallavicini, A.; Muggia, L.; Verardo, P.; Tassan, F.; et al. Environmental DNA Assessment of Airborne Plant and Fungal Seasonal Diversity. Science of The Total Environment 2020, 738, 140249, doi:10.1016/j.scitotenv.2020.140249.

5. Banchi, E.; Ametrano, C.G.; Stanković, D.; Verardo, P.; Moretti, O.; Gabrielli, F.; Lazzarin, S.; Borney, M.F.; Tassan, F.; Tretiach, M.; et al. DNA Metabarcoding Uncovers Fungal Diversity of Mixed Airborne Samples in Italy. PLOS ONE 2018, 13, e0194489, doi:10.1371/journal.pone.0194489.

6. Banchi, E.; Stankovic, D.; Fernández-Mendoza, F.; Gionechetti, F.; Pallavicini, A.; Muggia, L. ITS2 Metabarcoding Analysis Complements Lichen Mycobiome Diversity Data. Mycol Progress 2018, 17, 1049–1066, doi:10.1007/s11557-018-1415-4.

7. Celussi, M.; Quero, G.M.; Zoccarato, L.; Franzo, A.; Corinaldesi, C.; Rastelli, E.; Lo Martire, M.; Galand, P.E.; Ghiglione, J.-F.; Chiggiato, J.; et al. Planktonic Prokaryote and Protist Communities in a Submarine Canyon System in the Ligurian Sea (NW Mediterranean). Progress in Oceanography 2018, 168, 210–221, doi:10.1016/j.pocean.2018.10.002.

8. Fornasaro, S.; Esposito, A.; Florian, F.; Pallavicini, A.; De Leo, L.; Not, T.; Lagatolla, C.; Mezzarobba, M.; Di Silvestre, A.; Sergo, V.; et al. Spectroscopic Investigation of Faeces with Surface-Enhanced Raman Scattering: A Case Study with Coeliac Patients on Gluten-Free Diet. Anal Bioanal Chem 2022, 414, 3517–3527, doi:10.1007/s00216-022-03975-y.

9. Franzo, A.; Auriemma, R.; Nasi, F.; Vojvoda, J.; Pallavicini, A.; Cibic, T.; Del Negro, P. Benthic Ecosystem Functioning in the Severely Contaminated Mar Piccolo of Taranto (Ionian Sea, Italy): Focus on Heterotrophic Pathways. Environ Sci Pollut Res 2016, 23, 12645–12661, doi:10.1007/s11356-015-5339-0.

10. Gerdol, M.; Lucente, D.; Buonocore, F.; Poerio, E.; Scapigliati, G.; Mattiucci, S.; Pallavicini, A.; Cimmaruta, R. Molecular and Structural Characterization of MHC Class II β Genes Reveals High Diversity in the Cold-Adapted Icefish Chionodraco Hamatus. Sci Rep 2019, 9, 5523, doi:10.1038/s41598-019-42003-5.

11. Giglio, A.; Vommaro, M.L.; Gionechetti, F.; Pallavicini, A. Gut Microbial Community Response to Herbicide Exposure in a Ground Beetle. Journal of Applied Entomology 2021, 145, 986–1000, doi:10.1111/jen.12919.

12. Hattab, J.; Marruchella, G.; Pallavicini, A.; Gionechetti, F.; Mosca, F.; Trachtman, A.R.; Lanci, L.; Gabrielli, L.; Tiscar, P.G. Insights into the Oral Bacterial Microbiota of Sows. Microorganisms 2021, 9, 2314, doi:10.3390/microorganisms9112314.

13. Lasa, A.; di Cesare, A.; Tassistro, G.; Borello, A.; Gualdi, S.; Furones, D.; Carrasco, N.; Cheslett, D.; Brechon, A.; Paillard, C.; et al. Dynamics of the Pacific Oyster Pathobiota during Mortality Episodes in Europe Assessed by 16S RRNA Gene Profiling and a New Target Enrichment Next-Generation Sequencing Strategy. Environmental Microbiology 2019, 21, 4548–4562, doi:10.1111/1462-2920.14750.

14. Nicchia, E.; Greco, C.; De Rocco, D.; Pecile, V.; D’Eustacchio, A.; Cappelli, E.; Corti, P.; Marra, N.; Ramenghi, U.; Pillon, M.; et al. Identification of Point Mutations and Large Intragenic Deletions in Fanconi Anemia Using Next-Generation Sequencing Technology. Molecular Genetics & Genomic Medicine 2015, 3, 500–512, doi:10.1002/mgg3.160.

15. Rončević, T.; Gerdol, M.; Spazzali, F.; Florian, F.; Mekinić, S.; Tossi, A.; Pallavicini, A. Parallel Identification of Novel Antimicrobial Peptide Sequences from Multiple Anuran Species by Targeted DNA Sequencing. BMC Genomics 2018, 19, 827, doi:10.1186/s12864-018-5225-5.

16. Schroeder, A.; Pallavicini, A.; Edomi, P.; Pansera, M.; Camatti, E. Suitability of a Dual COI Marker for Marine Zooplankton DNA Metabarcoding. Marine Environmental Research 2021, 170, 105444, doi:10.1016/j.marenvres.2021.105444.

17. Stefanni, S.; Stanković, D.; Borme, D.; de Olazabal, A.; Juretić, T.; Pallavicini, A.; Tirelli, V. Multi-Marker Metabarcoding Approach to Study Mesozooplankton at Basin Scale. Sci Rep 2018, 8, 12085, doi:10.1038/s41598-018-30157-7.

18. Tordoni, E.; Ametrano, C.G.; Banchi, E.; Ongaro, S.; Pallavicini, A.; Bacaro, G.; Muggia, L. Integrated EDNA Metabarcoding and Morphological Analyses Assess Spatio-Temporal Patterns of Airborne Fungal Spores. Ecological Indicators 2021, 121, 107032, doi:10.1016/j.ecolind.2020.107032.

19. Zoccarato, L.; Celussi, M.; Pallavicini, A.; Fonda Umani, S. Aurelia Aurita Ephyrae Reshape a Coastal Microbial Community. Frontiers in Microbiology 2016, 7.

20. Zoccarato, L.; Pallavicini, A.; Cerino, F.; Fonda Umani, S.; Celussi, M. Water Mass Dynamics Shape Ross Sea Protist Communities in Mesopelagic and Bathypelagic Layers. Progress in Oceanography 2016, 149, 16–26, doi:10.1016/j.pocean.2016.10.003.

21. Giuseppina Campisciano, Fiorella Florian, Angela D'Eustacchio, David Stanković, Giuseppe Ricci and Manola Comar. 2017. Subclinical Alteration of the Cervical-Vaginal Microbiome in Women with Idiopathic Infertility. Journal of Cellular Physiology. Accepted manuscript online: 18 JAN 2017, DOI: 10.1002/jcp.25806

Giuseppina Campisciano, Fiorella Florian, Angela D'Eustacchio, David Stanković, Giuseppe Ricci and Manola Comar. 2017. Subclinical Alteration of the Cervical-Vaginal Microbiome in Women with Idiopathic Infertility. Journal of Cellular Physiology. Accepted manuscript online: 18 JAN 2017, DOI: 10.1002/jcp.25806