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2017 Aldo Fasolo Prize
On December 17, 2017, a scholarship of 1.000€ has been awarded to Dr Domenico D'Alelio for the publication “Clonal expansion behind a marine diatom bloom" The ISME Journal (2017), 1–10
2016 Aldo Fasolo Prize
Prof. Tim Hunt, Nobel Laureate in Medicine, has awarded a scholarship of 1.000€, on December 13 2016, to Dott.ssa Alessandra Gallo for the publication “Spermiotoxicity of nickel nanoparticles in the marine invertebrate Ciona intestinalis (ascidians)” (Nanotoxicology, 2016; 10(8): 1096–1104).
NGS
Name |
Next Generation Sequencing service |
Description |
NGS data production |
| Services provided |
In progressThe Next Generation Sequencing technologies (NGS) is revolutionizing the molecular biology field of application. Recently the Molecular Biology Service was implemented by such technologies and is developing this facility based on an ION Proton sequencer. The Next Generation Sequencing facility is based on the ION Proton technology: mainly transriptomics, gene expression analysis, targeted resequencing, metagenomics. At present No bioinformatic analysis provided. |
| Equipments |
Life Technologies ION Proton semiconductor sequencer Life Technologies ION Chef |
| Contacts |
Dr. Elio Biffali Tel.: +39 081 5833298 e-mail: elio.biffali(at)szn.it |
Automation
| Description |
The Service is equipped with a robotic system able to realize high productivity projects for the research activities that needs, in brief times, the analysis of a high number of samples. |
| Services provided |
The Service is able to accomplish to different demands: - PCR and qPCR setup. - PCR cleanup. - Samples quantitation and normalization. - Replica plates, cherry picking and gridding, library replica and re-gridding etc. - Plasmidic DNA minipreparations. - Sequencing reactions setup. - Sequencing reactions cleanup. - Microsatellites plates setup. - AFLP plates setup. - SNiPs plates setup. - Library management and cherry picking. - gDNA extraction, conventional samples (blood, mouse tail, etc.). - gDNA extraction, NON conventional samples (Ciona; Posidonia oceanica; Caretta caretta; Cymodocea nodosa; Caulerpa racemosa; Octopus vulgaris). - Automated ICH-ISH in whole mount on larger embryos. (in progress). |
Equipemnts |
TECAN HTS platform FREEDOM EVO 200 |
| Contact |
Dr. Elio Biffali Tel.: 081 5833298 e-mail: elio.biffali(at)szn.it |
Genotyping
| Description |
-Microsatellites by fragment analysis (single-locus). -SNiPs, analysis of polymorphism in single base (single-locus). -AFLP, amplified fragment lenght polymorphism (multi-locus). |
| Services Provided |
About 6,000 samples analysed per year, mainly for genetic population studies on marine plants (seagrass). Genotyping is the process that allows identifying the genotype of an organism by biological testing (genotype testing). There are several techniques that can be used for genotyping mainly with a multi-locus or single-locus approach. The service offers three different analytical approaches: -Microsatellites (single-locus). Fragments analysis is achieved by capillary electrophoresis and applied to population genetics studies, primarily on aquatic plants (seagrasses) and algae. We analyze an average of 6000 samples per year. -SNiPs, analysis of polymorphism in single base (single-locus). SNiPs analysis is realized at the SBM using the Snapshot technology that allows the analysis, through capillary electrophoresis, of any samples with the use of only one specific oligonucleotide. -AFLP, amplified fragment lenght polymorphism (multi-locus). The detection is realized at SBM through capillary electrophoresis. |
Equipments |
Applied Biosystems (Life Technologies) 3730 DNA Analyzer 48 capillaries |
| Contacts |
Dr. Elio Biffali Tel.: +39 081 5833298 e-mail: elio.biffali(at)szn.it |
DNA Sequencing (Sanger)
Digital PCR
| Description |
(in progress) The “Droplet Digital PCR" (ddPCR) allows to: Detect small amounts of target DNA molecules with unparalleled sensitivity. Determine the change in the number of genomic copies (copy number variation) with extreme accuracy. Measure gene expression levels with extraordinary precision. Quantify NGS libraries. |
| Services provided | The Service supports the Institute's laboratories in experiments design, samples running and, if required, initial data analysis. |
| Equipment |
Biorad system "QX200 Droplet Digital PCR" Agilent Bioanalyzer 2100 |
| Contacts |
Dr. Elio Biffali Tel.: 081 5833298 e-mail: elio.biffali(at)szn.it |
Real Time qPCR
| Description | The Real Time PCR service is equipped with a high productivity instrument which, using 384-well plates, not only allows to analyze a large number of samples in the same experiment, but also, by reducing the reaction volumes, to obtain a reduced cost for the single reaction. |
| Services provided | The Service supports the Institute's laboratories in experiments design, samples running and, if required, initial data analysis. |
| Equipment |
Life Technologies ViiA7 384 well-block Agilent Bioanalyzer 2100 |
| Contacts |
Dr. Elio Biffali Molecular Biology and Bioinformatics Tel. +39 081 5833298 e-mail: elio.biffali(at)szn.it |
Qualitative Control of Nucleic Acids
| Description | Qualitative and quantitative analysis of nucleic acids by Agilent 2100 Bioanalyzer using a microfluidic chip, representing the gold standard for the QC of RNA samples to be used in sensitive applications such as qPCR, microarray, in situ hybridization, next generation sequencing, libraries preparation, etc. |
| Services provided |
Analysis of cDNA, total RNA, mRNA, RNA less than 200 nucleotides long (microRNA, siRNA, scRNA, snoRNAs, piRNA, 5S RNA, 5.8S rRNA). Qualitative and quantitative characterization by the use of: - NANO chip (available from Service) - PICO chip (provided by users) - "Small RNA chips" (provided by the user). |
| Equipment | Agilent Bioanalyzer 2100 |
| Contacts |
Dr. Elio Biffali Tel.: 081 5833298 e-mail: elio.biffali(at)szn.it |
Publications
2016
Santella L, Limatola N, Chun JT. (2016). The fertilization process: a new way to look at an old phenomenon. Atlas of Science: Another view on Science. Feb. 4.
Zhou C, Vitiello V, Casals E, Puntes VF, Iamunno F, Pellegrin, D, Changwen W, Benvenuto G, Buttino I. (2016). Toxicity of nickel in the marine calanoid copepod Acartia Tonsa: Nickel chloride versus nanoparticles. Acquatic Toxicology, 170: 1-12.
Percopo I, Ruggiero MV, Balzano S, Gourvil P, Lundholm N, Siano R, Tammilehto A, Vaulot D, Sarno D. (2016). Pseudo-nitzschia arctica sp. nov., a new cold-water cryptic Pseudo-nitzschia species within the P. pseudodelicatissima complex. Journal Phycology, 52:184-199.
Gallo A, Boni R, Buttino I, Tosti E. (2016). Spermiotoxicity of nickel nanoparticles in the marine invertebrate Ciona intestinalis (ascidians). Nanotoxicology, 12:1-9.
Boni R, Gallo ., Montanino M, Macina A, Tosti E. (2016). Dynamic Changes in the Sperm Quality of Mytilus galloprovincialis under continuous thermal stress. Molecular Reproduction & Development, 83:162-173.
2015
Santella L, Puppo A, Chun JT, Gragnaniello G, Garante E. (2015). Intracellular calcium increase and sperm incorporation following fertilization of a starfish egg. Nikon Small World in Motion Competition - Honorable Mention.
Limatola N, Chun JT, Kyozuka K, Santella L. (2015). Novel Ca2+ increases in the maturing oocytes of starfish during the germinal vesicle breakdown. Cell Calcium. 58:500-10.
Santella L, Limatola N, Chun JT. (2015). Calcium and actin in the saga of awakening oocytes. Biochem Biophys Res Commun 460:104-13.
Yazaki I, Tsurugaya T, Santella L, Chun JT, Amore G, Kusunoki S, Asada A, Togo T, Akasaka K. (2015). Ca²⁺ influx-linked protein kinase C activity regulates the β-catenin localization, micromere induction signalling and the oral-aboral axis formation in early sea urchin embryos. Zygote. 23:426-46.
Bosak S, Gligora Udovic , Sarno D. (2015). Morphological study of Chaetoceros wighamii Brightwell (Chaetocerotaceae, Bacillariophyta) from Lake Vrana, Croatia. De Gruyter, Acta Bot. Croat. 74 (2), X – X.
Santamaria G, Esposito CL, Cerchia L, Benvenuto G, Nanjappa D, Sarno D, Zingone A, De Franciscis V, Ribera d’Alcalà M. (2015) Aptamers are an innovative and promising tool for phytoplankton taxonomy and biodiversity research. Chemistry and Ecology.1-12.
2014
Chun JT, Limatola N, Vasilev F, Santella L. (2014). Early events of fertilization in sea urchin eggs are sensitive to actin-binding organic molecules. Biochem Biophys Res Commun. 450:1166-74.
Santella, L, Limatola N, Chun JT. (2014). Actin Cytoskeleton and Fertilization in starfish Eggs. In: Sexual Reproduction in Animals and Plants. Sawada H et al, eds. p. 141-153, ISBN: 978-4-431-54588-0, doi: 10.1007/978-4-431-54589-7-13.
Bosnjak I, Borra M, Iamunno F, Benvenuto G, Ujevic I, Buselic I, Roje-Busatto R, Mladineo I. (2014). Effect of bisphenol A on P-glycoprotein-mediated efflux and ultrastructure of the sea urchin embryo. Acquatic Toxicology, 156:21-29.
Liberti A, Melillo D, Zucchetti I, Natale L, Dishaw LJ, Litman, GW, De Santis R, Pinto MR. (2014). Expression of Ciona intestinalis variable region-containing chitin-binding proteins during development of the gastrointestinal tract and their role in host-microbe interactions. PLoS ONE 9: e94984.
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Villa Comunale, 80121 Napoli - Tel.+39 081 5833111 - C.F./P.IVA : IT 04894530635 - PEC: ufficio.protocollo(at)cert.szn.it