Corso di Laurea in Viticoltura ed enologia - VE

Prodotti della ricerca selezionati

Daffonchio co-authored more than 300 publications. Some representative publications in the last 20 years are listed here

1. Alamoudi R., Barozzi A., Michoud G., Van Goethem M.W., Odobel C., Chen Y., Marasco R., Daffonchio D. Metabolic redundancy and specialisation of novel sulfide-oxidizing Sulfurimonas and Sulfurovum along the brine-seawater interface of the Kebrit Deep. Environmental Microbiome, 20:19.
2. Ezzat L., Peter H., Bourquin M., Busi S.B., Michoud G., Fodelianakis S., Kohler T.J., Lamy T., Geers A., Pramateftaki P., Baier F., Marasco R., Daffonchio D., Deluigi N., Wilmes P., Styllas M., Schön M., Tolosano M., De Staercke V., Battin T.J. 2025. Diversity and biogeography of the bacterial microbiome in glacier-fed streams. Nature, 637:622-630.
3. Escobar-Prieto J.D., Van Goethem M.W., Vernooij B., Antony C.P., Cheng L., Mishra H., Marasco R., Daffonchio D. Microbial diversity and functional potential of the Halobates melleus (Heteroptera: Gerridae) microbiome from the Red Sea coastline. Environmental Microbiome, 20:103.
4. Alam I., Marasco R., Momin A.A., Aalismail N., Laiolo E., Martin C., Sanz-Sáez I., Baltá Foix B., Sá E.L., Kamau A., Guzmán-Vega F.J., Jamil T., Acinas S.G., Gasol J.M., Gojobori T., Agusti S., Daffonchio D., Arold S.T., Duarte C.M. 2025. Widespread distribution of bacteria containing PETases with a functional motif across global oceans. The ISME Journal, 19:wraf121.
5. Trevathan-Tackett S.M., Kepfer-Rojas S., Malerba M., Macreadie P.I., Djukic I., Zhao J., Young E.B., York P.H., Yeh S.-C., Xiong Y., Winters G., Whitlock D., Weaver C.A., Watson A., Visby I., Tylkowski J., Trethowan A., Tiegs S., Taylor B., Szpikowski J., Szpikowska G., Strickland V.L., Stivrins N., Sousa A.I., Sinutok S., Scheffel W.A., Santos R., Sanderman J., Sánchez-Carrillo S., Sanchez-Cabeza J.-A., Rymer K.G., Ruiz-Fernandez A.C., Robroek B.J.M., Roberts T., Ricart A.M., Reynolds L.K., Rachlewicz G., Prathep A., Pinsonneault A.J., Pendall E., Payne R., Ozola I., Onufrock C., Ola A., Oberbauer S.F., Numbere A.O., Novak A.B., Norkko J., Norkko A., Mozdzer T.J., Morgan P., Montemayor D.I., Martin C.W., Malone S.L., Major M., Majewski M., Lundquist C.J., Lovelock C.E., Liu S., Lin H.-J., Lillebo A., Li J., Kominoski J.S., Khuroo A.A., Kelleway J.J., Jinks K.I., Jerónimo D., Janousek C., Jackson E.L., Iribarne O., Hanley T., Hamid M., Gupta A., Guariento R.D., Grudzinska I., da Rocha Gripp A., González Sagrario M.A., Garrison L.M., Gagnon K., Gacia E., Fusi M., Farrington L., Farmer J., de Assis Esteves F., Escapa M., Domanśka M., Dias A.T.C., de los Santos C.B., Daffonchio D., Czyryca P.M., Connolly R.M., Cobb A., Chudzinśka M., Christiaen B., Chifflard P., Castelar S., CarneiroL.S., Cardoso-Mohedano J.G., Camden M., Caliman A., Bulmer R.H., Bowen J., Boström C., Bernal S., Berges J.A., Benavides J.C., Barry S.C., Alatalo J.M., Al-Haj A.N., Adame M.F. 2024. Climate effects on belowground tea litter decomposition depend on ecosystem and organic matter types in global wetlands. Environmental Science & Technology, 58:21589-21603. IF 2023: 10.9.
6. Soldan R., Fusi M., Cardinale M., Homma F., Santos L.G., Wenzl P., Bach-Pages M., Bitocchi E., Chacon Sanchez M.I., Daffonchio D., Preston G.M. 2024. Consistent effects of independent domestication events on the plant microbiota. Current Biology, 34:577-567.
7. Hong P.-Y., Mishra H., Daffonchio D., McCabe M.F. 2023. Greening initiatives in the Middle East can leverage urban infrastructure to enhance sustainable water use. Nature Water 1:996-999.
8. Vahrenkamp V., Chandra V., Garuglieri E., Marasco R., Hachmann K., Khanna P., Daffonchio D., Petrovic A. 2024. The discovery of modern living stromatolites on Sheybarah Island, Red Sea, Saudi Arabia. Geology, 52:347-351.
9. Marasco R., Fusi M., Coscolín C., Barozzi A., Almendral D., Bargiela R., Gohlke neé Nutschel C., Pfleger C., Dittrich J., Gohlke H., Matesanz R., Sanchez-Carrillo S., Mapelli F., Chernikova T.N., Golyshin P.N., Ferrer M., Daffonchio D. Enzyme adaptation to habitat thermal legacy shapes the thermal plasticity of marine microbiomes. Nature Communications, 14:1045.
10. Fusi M., Ngugi D.K., Marasco R., Booth J.M., Cardinale M., Sacchi L., Clementi E., Yang X., Garuglieri E., Fodelianakis S., Michoud G., Daffonchio D. (2023) Gill-associated bacteria are homogeneously selected in amphibious mangrove crabs to sustain host intertidal adaptation. Microbiome, 11:189.
11. Giomi F., Barausse A., Steckbauer A., Daffonchio D., Duarte C.M., Fusi M. (2023) Oxygen dynamics in marine productive ecosystems at ecologically relevant scales. Nature Geoscience, 16:560-566.
12. Al-Gashgari B., Mantilla-Calderon D., Wang T., de los Angeles Gomez M., Baasher F., Daffonchio D., Laleg-Kirati T.-M., Hong P.-Y. (2023) Impact of chemicals and physical stressors on horizontal gene transfer via natural transformation. Nature Water 1:635.
13. Marasco R., Fusi M., Ramond J.-B., Van Goethem M.W., Seferji K., Maggs-Kölling G., Cowan D.A., Daffonchio D. The plant rhizosheath–root niche is an edaphic “mini-oasis” in hyperarid deserts with enhanced microbial competition. ISME Communications, 2:47.
14. Busi S.S., Bourquin M., Fodelianakis S., Michoud G., Kohler T.J., Peter H., Pramateftaki P., Styllas M., Tolosano M., De Staercke V., Schön M., de Nies L., Marasco R., Daffonchio D., Ezzat L., Wilmes P., Battin T.J. 2022. Genomic and metabolic adaptations of biofilms to ecological windows of opportunity in glacier-fed streams. Nature Communications, 13:2168.
15. Peixoto R.S., Voolstra C.R., Sweet M., Duarte C.M., Carvalho S., Villela H., Lunshof J.E., Gram L., Woodhams D.C., Walter J., Roik A., Hentschel U., Vega Thurber R., Daisley B., Ushijima B., Daffonchio D., Costa R., Keller-Costa T., Bowman J.S., Rosado A.S., Reid G., Mason C.E., Walke J.B., Thomas T., Berg G. 2022. Harnessing the microbiome to prevent global biodiversity loss. Nature Microbiology 7:1726-1735.
16. Michoud G., Ngugi D.K., Barozzi A., Calleja M.L., Delgado-Huertas A., Moran X.A.G., Daffonchio D. Fine-scale metabolic discontinuity in a stratified prokaryote microbiome of a Red Sea deep halocline. The ISME Journal, 15:2351–2365.
17. Callegari M., Crotti E., Fusi M., Marasco R., Gonella E., De Noni I., Romano D., Borin S., Tsiamis G., Cherif A., Alma A., Daffonchio D. Compartmentalization of bacterial and fungal microbiomes in the gut of adult honeybees. Biofilms and Microbiomes, 7:42.
18. Fodelianakis S., Valenzuela-Cuevas A., Barozzi A., Daffonchio D. Direct quantification of ecological drift at the population level in synthetic bacterial communities. The ISME Journal, 15:55–66.
19. Giomi F., Barausse A., Duarte C.M., Booth J.M., Agusti S., Saderne V., Anton A., Daffonchio D., Fusi M. 2019. Oxygen supersaturation protects coastal marine fauna from ocean warming. Science Advances, 5:eaax1814.
20. Trevathan-Tackett S.M., Sherman C., Huggett M.J., Campbell A.H., Laverock B., Hurtado-McCormick V., Seymour J., Firl A., Messer L., Ainsworth T., Negandhi K.L., Daffonchio D., Egan S., Engelen A.H., Fusi M., Thomas T., Vann L., Hernandez-Agreda A., Gan H.M., Marzinelli E.M., Steinberg P.D., Hardtke L., Macreadie P.I. 2019. A horizon scan of priorities for coastal marine microbiome research. Nature Ecology & Evolution, 3:1509-1520.
21. Mantilla-Calderon D., Plewa M., Michoud G., Fodelianakis S., Daffonchio D., Hong P. 2019. Water disinfection byproducts increase natural transformation rates of environmental DNA in Acinetobacter baylyi Environmental Science & Technology, 53:6520-6528.
22. Fodelianakis S., Lorz A., Valenzuela-Cuevas A., Barozzi A., Booth J.M., Daffonchio D. Dispersal homogenizes communities via immigration even at low rates in a simplified synthetic bacterial metacommunity. Nature Communications, 10:1314.
23. Amann R.I., Baichoo S., Blencowe B.J., Bork P., Borodovsky M., Brooksbank C., Chain P.S.G., Colwell R.R., Daffonchio D.G., Danchin A., de Lorenzo V., Dorrestein P.C., Finn R.D., Fraser C.M., Gilbert J.A., Hallam S.J., Hugenholtz P., Ioannidis J.P.A., Jansson J.K., Kim J.F., Klenk H.-P., Klotz M.G., Knight R., Konstantinidis K.T., Kyrpides N.C., Mason C.E., McHardy A.C., Meyer F., Ouzounis C.A., Patrinos A.A.N., Podar M., Pollard K.S., Ravel J., Muñoz A.R., Roberts R.J., Rosselló-Móra R., Sansone S.-A., Schloss P.D., Schriml L.M., Setubal J.C., Sorek R., Stevens R.L., Tiedje J.M., Turjanski A., Tyson G.W., Ussery D.W., Weinstock G.M., White O., Whitman W.B., Xenarios I. 2019. Toward unrestricted use of public genomic data. Science 363:350-352.
24. Marasco R., Mosqueira M.J., Fusi M., Ramond J.-B., Merlino G., Booth J.M., Maggs-Kölling G, Cowan D.A., Daffonchio D. Rhizosheath microbial community assembly of sympatric desert speargrasses is independent of the plant host. Microbiome 6:215.
25. Mapelli F., Marasco R., Fusi M., Scaglia B., Tsiamis G., Rolli E., Fodelianakis S., Bourtzis K., Ventura S., Tambone F., Adani F., Borin S., Daffonchio D. The stage of soil development modulates rhizosphere effect along a High Arctic desert chronosequence. The ISME Journal, 12:1188-1198.
26. Marasco R., Mosqueira M.J., Fusi M., Ramond J.-B., Merlino G., Booth J.M., Maggs-Kölling G, Cowan D.A., Daffonchio D. Rhizosheath microbial community assembly of sympatric desert speargrasses is independent of the plant host. Microbiome 6:215.
27. Marasco R., Rolli E., Fusi M., Michoud G., Daffonchio D. Grapevine rootstocks shape underground bacterial microbiome and networking but not potential functionality. Microbiome, 6:3.
28. Scoma A., Yakimov M., Daffonchio D., Boon N. 2017. Self-healing capacity of deep-sea ecosystems affected by petroleum hydrocarbons. EMBO Reports, 18:868-872.
29. Mapelli F., Scoma A., Michoud G., Aulenta F., Boon N., Borin S., Kalogerakis N., Daffonchio D. Biotechnologies for marine oil spill cleanup: indissoluble ties with microorganisms. Trends in Biotechnology, 35:860-870.
30. Kinnunen M., Dechesne A., Proctor C., Hammes F., Johnson D., Quintela-Balujac M., Graham D., Daffonchio D., Fodelianakis S., Hahn N., Boon N, Smets B.F. 2016. A conceptual framework for invasion in microbial communities. The ISME Journal, 10:2773-2779.
31. Cocolin L., Gobbetti M., Neviani E., Daffonchio D. Ensuring safety in artisanal food microbiology. Nature Microbiology, 1:16171.
32. Sghaier H., Hezbri K., Ghodhbane-Gtari F., Pujic P., Sen A., Daffonchio D., Boudabous A., Tisa L.S., Klenk H.-P., Armengaud J., Normand P., Gtari M. 2015. Stone-dwelling actinobacteria Blastococcus saxobsidens, Modestobacter marinus and Geodermatophilus obscurus The ISME Journal, 10:21-29.
33. De Roy K., Marzorati M., Negroni A., Thas O., Balloi A., Fava F., Verstraete W., Daffonchio D., Boon N. 2013. Environmental conditions and community evenness determine the outcome of biological invasion. Nature Communications 4:1383.
34. Borin S., Ventura S., Tambone F., Mapelli F., Schubotz F., Brusetti L., Scaglia B., D’Acqui L.P., Solheim B., Turicchia S., Marasco R., Hinrichs K.-U., Baldi F., Adani F., Daffonchio D. Rock weathering creates oases of life in a High Arctic desert. Environmental Microbiology 12:293-303.
35. Damiani C., Ricci I., Crotti E., Rossi P., Rizzi A., Scuppa P., Esposito F., Bandi C., Daffonchio D., Favia G. 2008. Paternal transmission of symbiotic bacteria in malaria vectors. Current Biology 18:R1087-R1088.
36. Favia G., Ricci I., Damiani C., Raddadi N., Crotti E., Marzorati M., Rizzi A., Urso R., Brusetti L., Borin S., Mora D., Scuppa P., Pasqualini L., Clementi E., Genchi M., Corona S., Negri I., Grandi G., Alma A., Kramer L., Esposito F., Bandi C., Sacchi L., Daffonchio D. Bacteria of the genus Asaia stably associate with Anopheles stephensi, an Asian malarial mosquito vector. Proceedings of National Academy of Science of USA, 104:9047-9051.
37. Borin S., Brusetti L., Mapelli F., D'Auria G., Brusa T., Marzorati M., Rizzi A., Yakimov M., Marty D., De Lange G.J., Van der Wielen P., Bolhuis H., McGenity T.J., Polymenakou P.N., Malinverno E., Giuliano L., Corselli C., Daffonchio D. Sulfur cycling and methanogenesis primarily drive microbial colonization of the highly sulfidic Urania deep hypersaline basin. Proceedings of National Academy of Science of USA, 106:9151-9156.
38. Wittebolle L., Marzorati M., Clement L., Balloi A., Daffonchio D., Heylen K., De Vos P., Verstraete W., Boon N. 2009. Initial community evenness favours functionality under selective stress. Nature 458:623-626.
39. Daffonchio D., Borin S., Brusa T., Brusetti L., Van der Wielen P.W.J.J., Bolhuis H., Yakimov M.M., D’Auria G., Giuliano L., Marty D., Tamburini C., McGenity T.J., Hallsworth J.E, Sass A.M., Timmis K.N., Tselepides A., de Lange G.J., Huebner A., Thomson J., Varnavas S.P., Gasparoni F., Gerber H. W., Malinverno E., Corselli C., BioDeep Scientific Party. 2006. Stratified prokaryote network in the oxic-anoxic transition of a deep sea halocline. Nature, 440:203-207.
40. Van der Wielen P.W.J.J., Bolhuis H., Borin S., Daffonchio D., Corselli C., Giuliano L., D’Auria G., de Lange G.J., Huebner A., Varnavas S.P., Thomson J., Tamburini C., Marty D., McGenity T.J., Timmis K.N., BioDeep Scientific Party. 2005. The enigma of prokaryotic life in deep hypersaline anoxic basins. Science, 307:121-123.

Insegnamenti

• Interazioni microbiche nel sistema vite-vino (SAF0497)
  Corso di Laurea in Viticoltura ed enologia - VE
• Microbiologia ambientale (SAF0389)
  Corso di Laurea in Scienze forestali e ambientali - SFA
• Microbiologia generale (AGR0045)
  Corso di Laurea in Viticoltura ed enologia - VE

Temi di ricerca

Daniele Daffonchio is Professor of Environmental Microbiology at the Department of Agriculture, Forestry and Food Sciences (DISAFA) of the University of Turin, since December 2024. He is also Adjunct Professor of Marine Microbiology at KAUST, King Abdullah University of Science and Technology, in Saudi Arabia. Between 2014 and 2024 Daffonchio has been Professor of Bioscience at KAUST. Before KAUST, Daffonchio was Professor of Microbial Systems Biotechnology at DeFENS University of Milan, Italy.

He got a PhD in Chemistry, Biochemistry and Ecology of Pesticides at the University of Milan in 1993.

Research interests are on the microbial ecology and biotechnology of tree crops and of conventional and extreme terrestrial, aquatic and symbiotic systems. The focus of the research of the Daffonchio’s labs has been on the microbial ecology of complex ecosystems in conventional and extreme terrestrial and aquatic habitats. Daffonchio’s research is spanning from basic aspects of microbial ecology through the application of synthetic ecology approaches, to applied aspects for the environmental protection, plant growth promotion and the sustainability of agriculture with a strong focus on the microbiology of orchards and tree cropping. Besides the research in conventional agricultural settings, Daffonchio developed research on the exploration and characterization of extreme terrestrial and marine environments, both pristine and polluted. The vison of such research has been the study and exploitation of conventional and extremophile microorganisms along the water stress continuity from hot and cold deserts and other extreme environments to the microbiomes of soil and the plant root system to combat biotic and abiotic stresses in orchards and vineyards. Among the studied extreme environments as source of biotechnologically relevant microorganisms for agriculture, Daffonchio explored hot and cold deserts in different continents, in the Arctic and the Himalayas, down to the depths of the hypersaline and anaerobic pools in the deep Mediterranean Sea and the Red Sea. The actual research efforts exploit a molecular microbial ecology platform for deciphering the factors that drive the microbial ecology dynamics and the microbial community assembly and stability in soils, sediments, freshwater and seawater. Such platform is coupled with a culturomics platform for exploiting rare and biotechnology relevant microorganisms from complex ecosystems.

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Organi

• Consiglio di Dipartimento

• Consiglio Integrato dei Corsi di Studio in Scienze Forestali e Ambientali

• Consiglio di Corso di Laurea in Viticoltura ed enologia