Publications and Talks

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Figure. Our work was selected for the cover of the “Conceptual challenges in microbial community ecology” in Phil. Trans. R. Soc. B:  link

Davide Ciccarese, Omar Tantawi, Irene Zhang, Desiree Plata, Andrew R Babbin (2022). Sinking diatom aggregates provide carbon to drive microscale denitrification in a bulk oxygenated ocean. BiorXiv, [html] [pdf]

Davide Ciccarese, Omar Tantawi, Irene Zhang, View Desiree Plata, Andrew R Babbin (2022). Macro-scale ocean biogeochemistry driven by micro-scale oxygen gradients and succession of denitrification genes in a sinking algal-bacterial aggregate. ISME – talk.

Emilie J. Skoog, Kelsey R. Moore, Jian Gong, Davide Ciccarese, Lily Momper, Elise M. Cutts & Tanja Bosak. (2022). Metagenomic, (bio)chemical, and microscopic analyses reveal the potential for the cycling of sulfated EPS in Shark Bay pustular mats. The ISME Journal, 2, 43. [html] [pdf]

Davide Ciccarese, Gabriele Micali, Benedict Borer, Chujin Ruan, Dani Or, David R Johnson. (2022) Rare and localized events stabilize microbial community composition and patterns of spatial self-organization in a fluctuating environment. The ISME Journal, 1, 11. [html] [pdf]

Davide Ciccarese. (2022) When the world around you keeps changing, positive interactions help you persist. ISME blog post. [html]

Irene H. Zhang, Susan Mullen, Davide Ciccarese, Diana Dumit, Donald E. Martocello, Masanori Toyofuku, Nobuhiko Nomura, Steven Smriga, and Andrew Russell Babbin. (2021) Ratio of electron donor to acceptor influences metabolic specialization and denitrification dynamics in Pseudomonas aeruginosa in a mixed carbon medium. Frontiers in Microbiology, 12, 2512. [html] [pdf].

Steven Smriga*, Davide Ciccarese*, Andrew R. Babbin, (2021) Denitrifying bacteria respond to and shapemicroscale gradients within particulate matrices. Communications Biology, 4, 570. [html] [pdf]. *These authors contributed equally.

Benedict Borer, Davide Ciccarese, David R. Johnson, Dani Or, (2020) Spatial organization in microbial range expansion emerges from trophic dependencies and successful lineages. Communications biology,3 (1), 1-10. [html][pdf].

Davide Ciccarese, Zuidema Anita, Merlo Valeria, David R. Johnson, (2020) Interaction-dependent effects of surface structure on the spatial self-organization of microbial communities. Philosophical Transactions of the Royal Society B, 375: 20190246 [html] [pdf].

Davide Ciccarese, Gabriele Micali, Benedict Borer, Dani Or, David Johnson, (2019) Jackpot events prevent ecosystem collapse in the face of environmental fulcutations; Swiss Society for Microbiology Meeting – Talk [pdf]

Davide Ciccarese, David R.Johnson, (2019) Book chapter in Comprhensive Biotecnology, 3rd Edition; 6.04 – Functional Microbial Landscapes, [html]

Robin Tecon, Sara Mitri, Davide Ciccarese, Dani Or, Jan Roelof van der Meer and David R. Johnson. (2019) Bridging the Holistic-Reductionist Divide in Microbial Ecology. mBio 4:e00265-18. [html] [pdf]

Davide Ciccarese, Gabriele Micali, Benedict Borer, David Johnson. Jackpot events prevent ecosystem collapse in the face of environmental fluctuation; (2019) congress, ETH – Talk [pdf]

Davide Ciccarese, Gabriele Micali, Benedict Borer, David Johnson. Effect of Fluctuating Environmental Conditions on Spatial Self-organization and Community Stability (2019) 7th Swiss Microbial Ecology Meeting, SME 2019 – Talk [pdf]

Davide Ciccarese, Gabriele Micali, Benedict Borer, David Johnson. Effect of Fluctuating Environmental Conditions on Spatial Self-organization and Community Stability (2018) ISME 17 – Poster Pitch [html]

Davide Ciccarese, Gabriele Micali, David Johnson. Effect of fluctuating environmental conditions on the spatial self-organization and emergent properties of a synthetic microbial (2018) biofilm 8 – Talk [pdf]