Curriculum Vitae et Studiorum

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1 Curriculum Vitae et Studiorum Personal information Name and Surname: Marco Fondi Born in Pistoia, Italy, September 9 th 1980 Home Address: Via de Vanni 9a, Florence (FI) Home tel.: Office Address: Dep. Of Evolutionary Biology, University of Florence, Via Romana 17/19, Florence, Italy Present Position: PhD student Office tel.: Office fax.: Mobile: [email protected] Education and Background: 2007-present: PhD student in Genetic Sciences in the Lab. of Molecular and Microbial Evolution (Head Prof. Renato Fani), Dep. Of Animal Biology and Genetics, University of Florence. 2006: Fellowship grant at the Dep. Of Animal Biology and Genetics, University of Florence. 2005: Master Degree in Biological Science, University of Florence. 1999: High School Degree Liceo Scientifico Amedeo di Savoia Duca D Aosta

2 Teaching: 2008: Lab. of Bioinformatics course, Biotechnology Scientific activity: Peer reviewed papers: 1. Fondi M, Brilli M, Fani R (2006). On the origin and evolution of biosynthetic pathways: integrating microarray data with structure and organization of the Common Pathway genes. BMC bioinformatics, 2007 Mar 8(Suppl 1):S Fondi M, Brilli M, Emiliani G, Paffetti D and Fani R: The primordial metabolism: an ancestral interconnection between leucine, arginine, and lesine bioaynthesis. BMC Evolutionary Biology 2007, 7(Suppl 2):S3. 3. Fani R, Brilli M, Fondi M, Liò P: The role of gene fusions in the evolution of metabolic pathways: the histidine biosynthesis case. BMC Evolutionary Biology 2007, 7(Suppl 2):S4. Submitted for pubblication: 1. Renato Fani and Marco Fondi, The origin and evolution of metabolic pathways, Physics of Life Reviews. 2. Matteo Brilli, Alessio Mengoni, Marco Fondi, Marco Bazzicalupo, Pietro Liò and Renato Fani, Blast2Network, a new bioinformatic tool for the analysis of plasmid genes, BMC Bioinformatics. 3. Giovanni Emiliani, Marco Fondi, Renato Fani, Simonetta Gribaldo, A horizontal gene transfer at the origin of land plants, Trends in Genetics

3 Contributes to national and international meetings: 1- Brilli M, Scappini S, Frandi A, Fondi M, Fani R (2005). Structure and evolution of the histidine biosynthetic pathway. 1 Congresso dei Biologi Evoluzionisti Italiani, Ferrara: Acta book pg Brilli M, Fondi M, Scappini S, Fani R (2005). On the evolution of metabolic pathways. 1 Congresso dei Biologi Evoluzionisti Italiani, Ferrara: Acta book pg Fondi M, Brilli M, Fani R (2005). The Common Pathway and the evolution of metabolic routes. 7 Congresso FISV, Riva del Garda: Acta book pg. D Brilli M, Scappini S, Frandi A, Fondi M, Fani R (2005). Structure and evolution of the histidine biosynthetic pathway. 7 Congresso FISV, Riva del Garda: Acta book pg D Fondi M, Brilli M, Fani R. (2006). On the origin and evolution of biosynthetic pathways: integrating microarray data with gene structure and organization. BITS 2006, Convegno Annuale della Società di Bioinformatica. Conference Proceedings Abstract Brilli M, Fondi M, Fani R. (2006). Analysis of operon genes using a compendium of expression data. BITS 2006, Convegno Annuale della Società di Bioinformatica. Conference Proceedings Abstract 20 (copia in allegato). 7- Brilli M, Liò P, Fondi M and Fani R. Histidine biosynthesis a paradigm for the study of the origin and evolution of metabolic pathways. BITS 2007, Naples, Italy 26-28/04/ Brilli M, Liò P, Fondi M, Ricci S, Mengoni A, Bazzicalupo M, Fani R, BlastGraph: a bioinformatics tool to study plasmid homology and evolution, Congresso Nazionale SIB (Società Italiana di Biometria), Pisa, Giugno Brilli M, Fondi M, Ricci S, Mengoni A, Bazziclupo M, Fani R. BlastGraph: a bioinformatic tool to study plasmids homology and evolution. Congresso Società Italiana Biometria, Pisa, Italy, 20 22/06/ Papaleo MC, Brilli M, Fondi M, Frandi A, Liò P, Fani R. On the origin and evolution of operons: the piecewise assembly of histidine biosynthetic genes in proteobacteria. BAGECO 9 Bacterial Genetics and Ecology, Werningerode, Germany 23-27/06/ Fioravanti A, Brilli M, Fondi M, Frandi A, Papaleo MC, Fani R. Structure and organization of histidine biosynthetic genes in Firmicutes. FISV 2007, Riva del Garda, Italy 26-29/09/2007.

4 12- Papaleo MC, Russo E, Perrin E, Brilli M, Fondi M, Frandi A, Fani R. Identification of Burkholderia cepacia complex species by LAMP or SNuPE analysis of his genes. FISV 2007, Riva del Garda, Italy 26-29/09/ D imperio L, Frandi A, Brilli M, Fondi M, Bazzicalupo M, Biondi EG, Mengoni A, Fani R. Identification of Burkholderia cepacia complex species by LAMP or SNuPE analysis of his genes. FISV 2007, Riva del Garda, Italy 26-29/09/ Matteo Brilli, Marco Fondi, Cristiana Papaleo, Antonio Frandi, Renato Fani. On the origin and evolution of metabolic pathways: the histidine biosynthesis paradigm. Biosphere Origin and Evolution, Loutraki Greece, 28/10 2/11/ Fondi M, Brilli M, Emiliani G, Paffetti D and Fani R. The primordial metabolism: an ancestral interconnection between leucine, arginine, and lesine bioaynthesis. Biosphere Origin and Evolution, Loutraki Greece, 28/10 2/11/ Marco Fondi, Giovanni Emiliani, Simonetta Gribaldo, Donatella Paffetti, Raffaello Giannini, Renato Fani, The origin of phenylpropanoid metabolism: the evolutionary puzzle of phenylalanine ammonia lyase, SMBE Barcelona 5-8 Giugno Maria Cristiana Papaleo, Marco Fondi, Renato Fani, Analisi di molecole plasmidiche di una comunità microbica coltivabile isolata dal suolo. Bertinoro Giovanni Emiliani, Marco Fondi, Simonetta Gribaldo, Renato Fani, Origin of land plants: a molecular insight, I convegno Società italiana di Astrobiologia, Cortona Maggio Marco Fondi, Maria Cristiana Papaleo, Luigi Michaud 1, Angelina Lo Giudice 1, Vivia Bruni 1 and Renato Fani, Genome adaptation to estreme environments, I convegno Società italiana di Astrobiologia, Cortona Maggio Marco Fondi, Giovanni Emiliani, Maria Cristiana Papaleo and Renato Fani, Origin and evolution of metabolic pathways, I convegno Società italiana di Astrobiologia, Cortona Maggio Maria Cristiana Papaleo, Marco Fondi, Elena Perrin, Isabel Maida, Barbara Tarabella, Renato Fani, Identification of Burkholderia cepacia complex species by SNUPE and LAMP analysis of histidine biosynthetic genes, International Burkholderia cepacia Working Group (IBCWG), Ca Tron di Roncade (Treviso), Italy 22- Fondi M, Brilli M, Bacci G, Emiliani G, Maida I, Papaleo MC, Fani R, Comparative plasmidomics: insights into microbial evolution, 7th ECCB conference (European Conference on Computational Biology) and 5th BITS meeting, Cagliari, Settembre 2008.

5 23- Fondi M, Brilli M, Bacci G, Emiliani G, Maida I, Papaleo MC, Fani R: Plasmidome: a comparative and evolutionary analysis, Società Italiana di Bioinformatica (Bits) One-day meeting Roma, 4 Luglio Matteo Brilli, Marco Fondi, Pietro Liò and Renato Fani The origin and evolution of Nitrogen fixation genes, XII ISSOL (International Society for the Study of the Origin of Life) meeting, Florence August Marco Fondi, Giovanni Emiliani, Simonetta Gribaldo, Renato Fani, Origin of Phenylalanine Ammonia Lyase: a key event for land colonisation, XII ISSOL (International Society for the Study of the Origin of Life) meeting, Florence August Marco Fondi, Matteo Brilli, Maria Cristiana Papaleo, Renato Fani: The origin and evolution of bacterial metabolism regulation: the HisZ, HisGs and HisGl case-study. IUMS 2008, Meetongs of the three divisions of the International Union of Microbiological Societies 2008, 5-9 August, Instanbul. 27- Maria Cristiana Papaleo, Isabel Maida, Marco Fondi, Elena Perrin,, Barbara Tarabella, Edda Russo, Renato Fani, Identification of Burkholderia cepacia complex species by SNUPE and LAMP analysis of histidine biosynthetic genes, IUMS 2008, Meetongs of the three divisions of the International Union of Microbiological Societies 2008, 5-9 August, Instanbul. Communications to national and international meetings 1. Fondi M, Brilli M, Fani R (2005). The Common Pathway and the evolution of metabolic routes (7 Congresso FISV, Riva del Garda, Settembre 2005). 2. Fondi M, Brilli M, Fani R. On the origin and evolution of biosynthetic pathways: integrating microarray data with structure and organization of the Common Pathway genes, Cortona Procarioti 2005, 31 Marzo- 2 Aprile. 3. Fondi M e Brilli M, Il metabolismo primordiale: geni e genomi, ciclo di Seminari Itineranti, Dall origine della Terra alla Comparsa della Vita, Firenze, 17 Dicembre Fondi M, Il metabolismo primordiale: geni e genomi, ciclo di Seminari Itineranti, Dall origine della Terra alla Comparsa della Vita, Roma, 6 Marzo Fondi M, Brilli M, Papaleo MC, Maida I, Bacci G, Emiliani G, Fani R Mobilome: a comparative and evolutionary analysis, Cortona Procarioti 2008, 14-15/03/2008.

6 6. Fondi M, Il metabolismo primordiale: geni e genomi, ciclo di Seminari Itineranti, Dall origine della Terra alla Comparsa della Vita, Roma, 13 Maggio Marco Fondi, Maria Cristiana Papaleo, Luigi Michaud, Angelina Lo Giudice, Vivia Bruni and Renato Fani, Genome adaptation to Extreme Environments, I convegno della società italiana di Astrobiologia, Cortona maggio Attendance to national and international meetings: 1- L evoluzione molecolare a Firenze (Firenze 1/12/2004) 2- Cortona Procarioti 2005 (Cortona 31/03-2/04/2005) 3-1 Congresso dei Biologi Evoluzionisti Italiani (Ferrara 24-26/08/2005) 4-7 Congresso FISV (Federazione Italiana Scienza della Vita) (Riva del Garda 22-25/09/2005) 5-2 EUCheMS SCHOOL ON PROTEIN CHEMISTRY (Alba di Canazei /01/2006) 6- BITS 2006, Convegno Annuale della Società di Bioinformatica (Bologna 28, 29/04/2006) 7- SIBE 2006, I cogresso della Società Italiana di Biologia Evoluzionistica II congresso dei Biologi Evoluzionisti Italiani. (Firenze 4-7/09/2006). 8- Cortona Procarioti 2007, Cortona 2 4 /04/ Bits 2007, congresso Società Italiana di Bioinformatica, Napoli 26-28/04/ Scuola estiva di Genomica SIBE (Società Italiana Biologia Evoluzionistica), Monte Bondone, 19-22/06/ Biosphere Origin and Evolution International Meeting (B.O.E.), Loutraki (Greece), 28/10 02/11/ Cortona Procarioti 2008, Cortona 14-15/03/ I convegno della società italiana di Astrobiologia, Cortona 29-30/05/2008

7 14- Annual Meeting of the Society of Molecular Biology and Evolution (SMBE), Barcellona, 5-8/06/ XII ISSOL (International Society for the Study of the Origin of Life) meeting, Florence 24-29/08/ ECCB 2008 (European Conference on Computational Biology), Cagliari 21-26/09/2008 Florence, 02/10/2008