Publications
Jump at the bottom of the page to see a full list of publications, our Preprints, Book chapters and Patents. A complete list is also available in my Google Scholar) profile.
Highlights
We show that the subsurface ecosystem in the convergent margin of Costa Rica is composed by a diverse community of chemolithoautotrophs responding coesively to changes in the geometry and geology of the subduction zone. We further show that the community feeds of CO2 released from the subducting slab and it is able to sequester a large amount of CO2 preventing it from reaching the atmosphere.
Fullerton KM, Schrenk MO, Yücel M, Manini E, Basili M, Rogers TJ, Fattorini D, Di Carlo M, d’Errico G, Regoli F, Nakagawa M, Vetriani C, Smedile F, Ramírez C, Miller H, Morrison SM, Buongiorno J, Jessen GL, Martínez M, de Moor JM, Barry PH, Giovannelli D, Lloyd KG.. 2021. Plate tectonics drive deep biosphere microbial community structure. Nature Geoscience. 10.1038/s41561-021-00725-0
We have demonstrated that a previously uinrecognized microbial sink is trapping substantial amounts of deep carbon in the forearc instead of escaping through volcanoes or sinking into Earth’s interior
Barry PH, JM de Moor, D Giovannelli, M Schrenk, D Hummer, T Lopez, CA Pratt, Y Alpízar Segura, A Battaglia, P Beaudry, G Bini, M Cascante, G d’Errico, M di Carlo, D Fattorini, K Fullerton, E Gazel, G González, SA Halldórsson, K Iacovino, JT Kulongoski, E Manini, M Martínez, H Miller, M Nakagawa, S Ono, S Patwardhan, CJ Ramírez, F Regoli, F Smedile, S Turner, C Vetriani, M Yücel, CJ Ballentine, TP Fischer, DR Hilton & KG Lloyd. 2019. Forearc carbon sink reduces long-term volatile recycling into the mantle. Nature,. 10.1038/s41586-019-1131-5
We compiled the current knowledge on the limit of life and tried to place it in planetary context, looking at what we might learn from Earth based life while searching for life on other planetary bodies.
Merino N, Aronson HS, Bojanova D, Feyhl-Buska J, Wong ML, Zhang S, Giovannelli D. 2019. Living at the Extremes: Extremophiles and the Limits of Life in a Planetary Context. Frontiers in Microbiology, 10:780. 10.3389/fmicb.2019.00780
A discussion of the relationship between metal utilization in metabolism and the evolution of different metabolic pathways through time. We also attempt to reconstruct the wiring diagram of Earth’s geobiochemical cycles at different timepoint during our planet evolutionary history.
Moore E, Jelen B, Giovannelli D, Raanan H and Falkowski P. 2017. Metal Availability and the Expanding Redox Network of Microbial Metabolism in the Archean Eon. Nature Geoscience, 10: 629–636. 10.1038/ngeo3006
In this brif perspective I discuss together with Costa Vetriani the link between extremophiles, especially the Epsilonproteobacteria, and human pathogens, and how we can used comparative evolutionary genomic to study the evolutionary transition from free-living to obbligate pathogen.
Giovannelli D and Vetriani C. 2017. From extreme environments to human pathogens: an evolutionary journey. The Biochemist, vol. 39:6. 10.1042/BIO03906004
We reviewed our current knowledge regarding the geochemistry and the microbiology of shallow-water hydrothermal vents, highliting knowledge gaps and opportunities.
Price RE and Giovannelli D. 2017. A Review of the Geochemistry and Microbiology of Marine Shallow-water Hydrothermal Vents. Reference Module in Earth Systems and Environmental Sciences. 10.1016/B978-0-12-409548-9.09523-3
Microbes that live in deep-sea hydrothermal vents offer a window into how early organisms survived on a young Earth. We used phylometabolic approaches to reconstruct the ancestral and acquired metabolism in the Aquificae phylum
Giovannelli D, SM Sievert, M Hügler, S Markert, D Becher, T Schweder and C Vetriani. 2017. Insight into the evolution of microbial metabolism from the deep-branching bacterium, Thermovibrio ammonificans. eLife 6: e18990. 10.7554/eLife.18990
Full List
Bekaert DV, Gazel E, Turner S, Behn M, de Moor JM, Zahirovic S, Manea VC, Hoernle K, Fischer TP, Hammerstrom A, Seltzer AM, Kulongoski JT, Patel BS, Schrenk M, Halldórsson SA, Nakagawa M, Ramírez CR, Krantz JA, Yücel M, Ballentine CJ, Giovannelli D, Lloyd KG, Barry PH. 2021. High 3He/4He in central Panama reveals a distal connection to the Galápagos plume. PNAS. accepted
Petrillo C, Castaldi S, Lanzilli M, Selci M, Cordone A, Giovannelli D, Isticato R.. 2021. Genomic and physiological characterization of Bacilli isolated from salt-pans with Plant Growth Promoting features. Frontiers in Microbiology. accepted
Fullerton KM, Schrenk MO, Yücel M, Manini E, Basili M, Rogers TJ, Fattorini D, Di Carlo M, d’Errico G, Regoli F, Nakagawa M, Vetriani C, Smedile F, Ramírez C, Miller H, Morrison SM, Buongiorno J, Jessen GL, Martínez M, de Moor JM, Barry PH, Giovannelli D, Lloyd KG.. 2021. Plate tectonics drive deep biosphere microbial community structure. Nature Geoscience. 10.1038/s41561-021-00725-0
Patwardhan S, F Smedile, D Giovannelli, C Vetriani.. 2021. Metaproteogenomic profiling of chemosynthetic microbial biofilms reveals metabolic flexibility during colonization of a shallow-water gas vent. Frontiers in Microbiology. 10.3389/fmicb.2021.638300
Shaunna SM, Buongiorno J, Downs RT, Eleish A, Fox P, Giovannelli D, Golden JJ, Hummer DR, Hystad G, Kellogg LH, Kreylos O, Krivovichev S, Liu C, Merdith A, Prabhu A, Ralph J, Runyon S, Zahirovic S, Hazen RM.. 2020. Exploring carbon mineral systems: recent advances in C mineral evolution, mineral ecology, and network analysis. Frontiers in Earth Science, 8:208. 10.3389/feart.2020.00208
Vitale Brovarone A, Sverjensky DA, Piccoli F, Ressico F, Giovannelli D, and Daniel I.. 2020. Subduction hides high-pressure sources of energy that may feed the deep subsurface biosphere. Nature Communications, 11, 388. 10.1038/s41467-020-17342-x
Giovannelli D*, PH Barry, JM de Moor, KG Lloyd, and MO Schrenk.. 2020. Microbial influences on subduction zone carbon cycling. Eos, 101. 10.1029/2020EO140906
Basili M, Quero GM, Giovannelli D, Manini E, Vignaroli C, Avio CG, De Marco R, and Luna GM.. 2020. Major role of surrounding environment in shaping biofilm community composition on marine plastic debris. Frontiers in Marine Science, Sci. 7:262. 10.3389/fmars.2020.00262
Vitale-Brovarone A, Butch C, Ciappa A, Cleaves H, Elmaleh A, Faccenda M, Feineman M, Hermann J, Nestola F, Cordone A, and Giovannelli D.. 2020. Let there be water: how hydration/dehydration reactions control Earth and life key properties. American Mineralogist, 105 8:1152–1160. 10.2138/am-2020-7380
Sheik CS, Cleaves II HJ, Johnson-Finn K, Giovannelli D, Kieft TL, Papineau D, Schrenk MO, Tumiati S.. 2020. Abiotic and biotic processes that drive carboxylation and decarboxylation reactions. American Mineralogist, 105 5:609–615. 10.2138/am-2020-7166CCBYNCND
Giovannelli D, PH Barry, JM de Moor, KG Lloyd, and MO Schrenk.. 2020. Microbial influences on subduction zone carbon cycling. Eos, 101. 10.1029/2020EO140906
Barry PH, Nakagawa M, Giovannelli D, de Moor JM, Schrenk M, Seltzer AM, Manini E, Fattorini D, di Carlo M, Regoli F, Fullerton K, Lloyd KG. 2019. Helium, inorganic and organic carbon isotopes of fluids and gases across the Costa Rica convergent margin. Scientific Data, 6, 1–8. 10.1038/s41597-019-0302-4
Mariscal C, N Aubert-Kato, A Umur Aydinoglu, A Barahona, S Bartlett, ML Cárdenas, K Chandru, HJ Cleaves II, C Cleland, BT Cocanougher, N Comfort, A Cornish-Bowden, T Deacon, T Froese, D Giovannelli, J Hernlund, N Merino, A Moreno, M Nakagawa, J Pereto, N Virgo, O Witkowski, J Kimura. 2019. Hidden Concepts in the History and Philosophy of Origins-of-Life Studies: A Workshop Report. Origins of Life and Evolution of Biospheres,. 10.1007/s11084-019-09580-x
Barry PH, JM de Moor, D Giovannelli, M Schrenk, D Hummer, T Lopez, CA Pratt, Y Alpízar Segura, A Battaglia, P Beaudry, G Bini, M Cascante, G d’Errico, M di Carlo, D Fattorini, K Fullerton, E Gazel, G González, SA Halldórsson, K Iacovino, JT Kulongoski, E Manini, M Martínez, H Miller, M Nakagawa, S Ono, S Patwardhan, CJ Ramírez, F Regoli, F Smedile, S Turner, C Vetriani, M Yücel, CJ Ballentine, TP Fischer, DR Hilton & KG Lloyd. 2019. Forearc carbon sink reduces long-term volatile recycling into the mantle. Nature,. 10.1038/s41586-019-1131-5
Merino N, Aronson HS, Bojanova D, Feyhl-Buska J, Wong ML, Zhang S, Giovannelli D. 2019. Living at the Extremes: Extremophiles and the Limits of Life in a Planetary Context. Frontiers in Microbiology, 10:780. 10.3389/fmicb.2019.00780
Li J, Redfern SAT, Giovannelli D. 2019. Deep carbon cycle through five reactions. American Mineralogist, 104: 465–467. 10.2138/am-2019-6833
Patwardhan S, Foustoukos DI, Giovannelli D, Yucel M, Vetriani C. 2018. Ecological succession of sulfur-oxidizing Epsilon- and Gammaproteobacteria during colonization of a shallow-vent. Frontiers in Microbiology. 10.3389/fmicb.2018.02970
Giovannelli D and Price RE. 2018. Marine Shallow-Water Hydrothermal Vents: Microbiology. Reference Module in Earth Systems and Environmental Sciences. 10.1016/B978-0-12-409548-9.11250-3
Price RE, and Giovannelli D. 2018. Marine Shallow-Water Hydrothermal Vents: Geochemistry. Reference Module in Earth Systems and Environmental Sciences. 10.1016/B978-0-12-409548-9.11015-2
Jelen B, Giovannelli D, Falkowski PG, and Vetriani C. 2018. Combined comparative transcriptomic and proteomic analysis reveals the mechanism and pathway of elemental sulfur reduction in Thermovibrio ammonificans, a deep-sea vent thermophile. Environmental Microbiology, 20(6): 2301-2316. 10.1111/1462-2920.14280
Giovannelli D, Black BA, Cox AD and Sheik CS. 2017. Editorial: Deep Carbon in Earth: Early Career Scientist Contributions to the Deep Carbon Observatory. Frontiers in Earth Science, 5:89. 10.3389/feart.2017.00089
Di Carlo M, Giovannelli D, D Fattorini, N Le Bris, C Vetriani, F Regoli. 2017. Trace elements and arsenic speciation in tissues of tube dwelling polychaetes from hydrothermal vents ecosystem: a possible role as antipredatory strategy?. Marine Environmental Research, 132: 1-13. 10.1016/j.marenvres.2017.10.003
Moore E, Jelen B, Giovannelli D, Raanan H and Falkowski P. 2017. Metal Availability and the Expanding Redox Network of Microbial Metabolism in the Archean Eon. Nature Geoscience, 10: 629–636. 10.1038/ngeo3006
Baldrighi E, Manini E, Giovannelli D, D’Errico G and Lavaleye M. 2017. Exploring the relationship between macrofaunal biodiversity and ecosystem functioning in the deep sea. Frontiers in Marine Sciences, 4. 10.3389/fmars.2017.00198
Giovannelli D and Vetriani C. 2017. From extreme environments to human pathogens: an evolutionary journey. The Biochemist, vol. 39:6. 10.1042/BIO03906004
Price RE and Giovannelli D. 2017. A Review of the Geochemistry and Microbiology of Marine Shallow-water Hydrothermal Vents. Reference Module in Earth Systems and Environmental Sciences. 10.1016/B978-0-12-409548-9.09523-3
Giovannelli D, SM Sievert, M Hügler, S Markert, D Becher, T Schweder and C Vetriani. 2017. Insight into the evolution of microbial metabolism from the deep-branching bacterium, Thermovibrio ammonificans. eLife 6: e18990. 10.7554/eLife.18990
Keppel E, Minicante SA, Bonomo S, Capotondi L, Ceregato A, Fontaneto D, Froglia C, Petrocelli A, Taviani M, Abbiati M, Amori G, Angeletti L, Alessandra A, Austoni M, Badalamenti F, Baldrighi E, Belmonte M, Bergami C, Bernardi Aubry F, Boggero A, Boero F, Bolognini L, Borsetti AM, Camatti E, Camedda A, Caroppo C, Cecere E, Chiari M, Colangelo P, Como S, Coppa S, Di Lorenzo T, de Lucia GA, Domenichetti F, Donnici S, Eckert EM, Luciana F, Finotto S, Ghigliotti L, Giacobbe MG, Giovannelli D, Grati F, Guarneri I, La Cono V, Loru L, Luna GM, Magni P, Manca M, Marchetto A, Martinez A, Massi D, Messana G, Mirto S, Panfili M, Pansera M, Pantaleoni RA, Pipitone C, Piscia R, Prato E, Punzo E, Riccardi N, Rubino F, Salvalaggio V, Santelli A, Serra G, Sigovini M, Spagnolo A, Strafella P, Tagliapietra D, Taiti S, Vasapollo C, Vacchi M, Verdinelli M, Volta P, Yakimov M. 2017. Taxonomy work at CNR. CNR technical report, pp. 1-103. 10.5281/zenodo.569874
Giovannelli D, d’Errico G, Fiorentino F, Fattorini D, Regoli F, Angeletti L, Bakran-Petricioli T, Vetriani C, Yucel M, Taviani M and Manini E. 2016. Diversity and distribution of prokaryotes within a shallow-water pockmark field. Frontiers in Microbiology, 7:941. 10.3389/fmicb.2016.00941
Giovannelli D, M Chung, J Staley, V Starovoytov and C Vetriani. 2016. Sulfurovum rifitae sp. nov., a mesophilic, nitrate-reducing, chemosynthetic, thiosulfate-oxidizing bacterium isolated from the tube of the vestimentiferan worm Riftia pachyptila. IJSEM, 66: 2697-2701. 10.1099/ijsem.0.001106
Jelen BI, Giovannelli D and PG Falkowski. 2016. The Role of Microbial Electron Transfer in the Coevolution of the Geosphere and Biosphere. Annual Review of Microbiology, 70 (1): 45-62. 10.1146/annurev-micro-102215-095521
O’Brien C, Giovannelli D, B Govenar, GW Luther, RA Lutz, TM Shank, C Vetriani. 2015. Microbial biofilms associated with fluid chemistry and megafaunal colonization at post-eruptive deep-sea hydrothermal vents.. Deep-Sea Research Part II, 121:31-40. 10.1016/j.dsr2.2015.07.020
Pasotti F, E Manini, Giovannelli D, AC Wölfl, D Monien, E Verleyen, U Braeckman, D Abele, A Vanreusel. 2014. Antarctic shallow water benthos under glacier retreat forcing. Marine Biology. 10.1111/maec.12179
Vetriani C, JW Voordeckers, M Crespo-Medina, CE O’Brien, Giovannelli D, RA Lutz.. 2014. Deep-Sea Hydrothermal Vent Epsilonproteobacteria Encode a Conserved and Widespread Nitrate Reduction Pathway (Nap). The ISME Journal. 10.1038/ismej.2013.246
Mustafa YM, SM Sievert, C Vetriani, DI Foustoukos, D Giovannelli, N Le Bris. 2013. Eco-Geochemical Dynamics of a Shallow-Water Hydrothermal Vent System at Milos Island, Aegean Sea (Eastern Mediterranean). Chemical Geology 356: 11–20. 10.1016/j.chemgeo.2013.07.020
Giovannelli D, M Molari, G d’ Errico, E Baldrighi, C Pala, E Manini.. . Large-Scale Distribution and Activity of Prokaryotes in Deep-Sea Surface Sediments of the Mediterranean Sea and the Adjacent Atlantic Ocean. PLoS ONE 8 (8): e72996. 10.1371/journal.pone.0072996
Giovannelli D, Ricci J, Pérez-Rodríguez I, Hügler M, O’Brien C, Keddis R, Grosche A, Goodwin L, Bruce D, Davenport KW, Detter C, Han J, Han S, Ivanova N, Land ML, Mikhailova N, Nolan M, Pitluck S, Tapia R, Tanja Woyke T and Vetriani C. 2012. Complete genome sequence of Thermovibrio ammonificans strain HB-1T, an Aquificae isolated from a deep-sea hydrothermal vent. Standard In Genomic Science, 7(1):82-90. 10.4056/sigs.2856770
d’Errico G, D Giovannelli, C Montano, V Milanovic, M Ciani, E Manini. 2012. In situ bioremediation of high organic load lagoon sediments: compost addition and priming effect. Chemosphere. 10.1016/j.chemosphere.2012.11.037
Giovannelli D, V Starovoytov, E Manini, M Yakimov, C Vetriani. 2012. Galenea microaerophila gen. nov., sp. nov., a mesophilic, microaerophilic, chemosynthetic, thiosulfate-oxidizing bacterium isolated from a shallow hydrothermal vent of Milos (Greece). IJSEM, 62(12):3060-3066. 10.1099/ijs.0.040808-0
Giovannelli D, S Ferriera, J Johnson, S Kravitz, I Pérez-Rodríguez, J Ricci, C O’Brien, JW Voordeckers, E Bini, C Vetriani. 2012. Draft genome sequence of Caminibacter mediatlanticus strain TB-2T, an Epsilonproteobacterium isolated from a deep-sea hydrothermal vent.. Standard In Genomic Science, 5(1):135-143. 10.4056/sigs.2094859
Molari M, D Giovannelli, G D’Errico, E Manini. 2012. Factors influencing prokaryotic community structure composition in sub-surface coastal sediments. Estuarine and Coastal Shelf Science, 97:141-148. 10.1016/j.ecss.2011.11.036
Bongiorni L, D Giovannelli, B Rinkevich, A Pusceddu, LK Chou, R Danovaro. 2011. First step in the restoration of a highly degraded coral reef (Singapore) by in situ coral intensive farming. Aquaculture, 322-323:181-200. 10.1016/j.aquaculture.2011.09.024
Danovaro R, L Bongiorni, C Corinaldesi, D Giovannelli, E Damiani, P Astolfi, L Greci, A Pusceddu. 2008. Sunscreens Cause Coral Bleaching by Promoting Viral Infections. Environmental Health Perspective, 116: 441-447. 10.1289/ehp.10966
Jervis L, LM Jervis, D Giovannelli. 2005. Aligning biochemistry to the interests of biology students using haloperoxidase to illustrate reactions of environmental and biomedical importance. Biochemistry and Molecular Biology Education, 33: 293-301. 10.1002/bmb.2005.49403304293
Preprints
Aptekmann AA, Buongiorno J, Giovannelli D, Glamoclija M, Ferreiro DU, Bromberg Y. 2021. mebipred: identifying metal-binding potential in protein sequence. BioRxiv. 10.1101/2021.08.12.456141
Petrillo C, Castaldi S, Lanzilli M, Selci M, Cordone A, Giovannelli D and Isticato R. 2021. Genomic Mining and Physiological Characterization of new Halophilic Plant Growth Promoting Bacilli. BioRxiv. 10.1101/2021.05.17.444429
Cordone A, d’Errico G, Magliulo M, Bolinesi F, Selci M, Basili M, de Marco R, Saggiomo M, Rivaro P, Giovannelli D and Mangoni O. 2021. Bacterioplankton Diversity and Distribution in Relation to Phytoplankton Community Structure in the Ross Sea surface waters. BioRxiv. 10.1101/2021.06.08.447544
Fullerton KM, Schrenk M, Yucel M, Manini E, Fattorini D, di Carlo M, RegoliF, Nakagawa M, Smedile F, Vetriani C, Miller H, Morrison S, Martinez M, de Moor JM, Barry PH, Giovannelli D, Lloyd K. 2019. Plate tectonics drive deep biosphere microbial community composition. EarthArxiv. 10.31223/osf.io/gyr7n
Merino N, Aronson HS, Bojanova D, Feyhl-Buska J, Wong ML, Zhang S, Giovannelli D. 2019. Living at the Extremes: Extremophiles and the Limits of Life in a Planetary Context. EarthArxiv. 10.31223/osf.io/8eay6
Baldrighi E, Giovannelli E, D’errico G, Lavaleye MSS and Manini E. 2018. Deep-Sea ecosystem: a world of positive species interactions?. Biogeoscience Discussion. 10.5194/bg-2016-26
Books and book chapters
Hazen RM, Bromberg, Y, Downs RT, Eleish A, Falkowski PG, Fox P, Giovannelli D, Hummer DR, Hystad G, Golden JJ, Knoll AH, Li C, Liu C, Moore EK, Morrison SM, Muscente AD, Prabhu A, Ralph J, Rucker MY, Runyon S, Warden LA, Zhong H.. 2018. Deep Carbon through Deep Time: Data-Driven Insights. in Whole Earth Carbon, Edited by Orcutt, Danielle, Dasgupta. Cambridge Press.
Patents
2017. Polymeric compositions loaded with carbon nanotubes, their production and use. inventors A Giovannelli, D Giovannelli, P Barcala Dominguez. PCT international patent request number PCT/IB2017/053795
2013. Equipment for the dispersion of nanoparticles into a fluid. The patent is deposited by Nano-Tech srl, of which D Giovannelli is co-founder, shareholder and senior advisor. Italian Patent request number MO2013A000303, CCIAA of deposit MODENA