Publications

By conducting research on natural microbiomes, CIRCLES aimed to understand the relationship between microbiomes and sustainable food, and how this can be used for the future of our food systems.

Have a look at our scientific publications.

2024

  • Mekonnen YT, Savini F, Indio V, et al. Systematic review on microbiome-related nutritional interventions interfering with the colonization of foodborne pathogens in broiler gut to prevent contamination of poultry meat. PMC. 2024.
  • Scicchitano D, Leuzzi D, Babbi G, et al. Dispersion of antimicrobial resistant bacteria in pig farms and in the surrounding environment. Anim Microbiome. 2024;6(1):305. doi:10.1186/s42523-024-00305-8.
  • Scicchitano D, Babbi G, Palladino G, et al. Routes of dispersion of antibiotic resistance genes from the poultry farm system. Sci Total Environ. 2024; 914:171161. doi:10.1016/j.scitotenv.2023.171161.
  • Trapella G, Scicchitano D, Foresto L, et al. Signature of the anthropogenic impacts on the epipelagic microbiome of the North-Western Adriatic Sea (Mediterranean Sea). Front Mar Sci. 2024;11:1340088. doi:10.3389/fmars.2024.1340088.
  • George TS, Bulgarelli D, Carminati A, et al. Bottom-up perspective – The role of roots and rhizosphere in climate change adaptation and mitigation in agroecosystems. Plant Soil. 2024. doi:10.1007/s11104-024-06678-4.
  • Basili M, Sabatini L, Pellini G, et al. Age and environment are the main drivers shaping the wild common sole (Solea solea) microbiota. BMC Ecol Evol. 2024. doi:10.1186/s12862-024-02223-6.

2023

  • Trapella G, Cinti N, Parma L, et al. Microbiome variation at the clam-sediment interface may explain changes in local productivity of Chamelea gallina in the North Adriatic Sea. BMC Microbiol. 2023;23:3146. doi:10.1186/s12866-023-03146-8.
  • Peltoniemi K, Velmala S, Fritze H, et al. Impacts of coniferous bark-derived organic soil amendments on microbial communities in arable soil – a microcosm study. FEMS Microbiol Ecol. 2023;99(3):fiad012. doi:10.1093/femsec/fiad012.
  • Palladino G, Rampelli S, Scicchitano D, et al. Seasonal dynamics of the microbiome-host response to pharmaceuticals and pesticides in Mytilus galloprovincialis farmed in the Northwestern Adriatic Sea. Sci Total Environ. 2023;900:165698. doi:10.1016/j.scitotenv.2023.165698.
  • Escudero-Martinez C, Bulgarelli D. Engineering the crop microbiota through host genetics. Annu Rev Phytopathol. 2023;61:91-110. doi:10.1146/annurev-phyto-021621-121447.
  • Nanetti E, Palladino G, Scicchitano D, et al. Composition and biodiversity of soil and root-associated microbiome in Vitis vinifera cultivar Lambrusco distinguish the microbial terroir of the Lambrusco DOC protected designation of origin area on a local scale. Appl Environ Microbiol. 2023;89(7):e00534-23. doi:10.1128/aem.00534-23.
  • Interino N, Comito R, Simoni P, et al. Extraction method for the multiresidue analysis of legacy and emerging pollutants in marine mussels from the Adriatic Sea. Sci Total Environ. 2023;867:161337. doi:10.1016/j.scitotenv.2023.161337.
  • Correa F, Luise D, Palladino G, et al. Influence of body lesion severity on oxidative status and gut microbiota of weaned pigs. Sci Total Environ. 2023;855:158738. doi:10.1016/j.scitotenv.2022.158738.

2022

  • Palladino G, Caroselli E, Tavella T, et al. Metagenomic shifts in mucus, tissue and skeleton of the coral Balanophyllia europaea living along a natural CO2 gradient. ISME J. 2022;16(12):3148-3161. doi:10.1038/s43705-022-00152-1.
  • Palladino G., Galià-Camps C., Rampelli S. et al. Plasticity of the Anemonia viridis microbiota in response to different levels of combined anthropogenic and environmental stresses. Front. Mar. Sci. , 23 September 2022, Sec. Marine Pollution. doi: 10.3389/fmars.2022.956899
  • Robertson-Albertyn S., Abbott J.C., Concas F. et al. Genome-Annotated Bacterial Collection of the Barley Rhizosphere Microbiota. ASM Journals Microbiology Resource Announcements Vol. 11, No. 2 (2022). doi: 10.1128/mra.01064-21
  • Terrazas RA, Robertson-Albertyn S, Corral AM, et al. Defining composition and function of the rhizosphere microbiota of barley genotypes exposed to growth-limiting nitrogen supplies. mSystems. 2022;7(6):e00934-22. doi:10.1128/msystems.00934-22.
  • Fabbrini M, Candela M, Turroni S, Brigidi P, Rampelli S. Exploring clade differentiation of the Faecalibacterium prausnitzii complex. Microbiome. 2022;10(1):209. doi:10.1186/s40168-022-01354-9.

2021

  • Palladino G., Biagi E., Rampelli S. et al. Seasonal Changes in Microbial Communities Associated With the Jewel Anemone Corynactis viridis. Front. Mar. Sci. Sec. Microbial Symbioses. 2021. doi: 10.3389/fmars.2021.627585
  • Lobo J., Henriques R., Madeira S, G-Tric: generating three-way synthetic datasets with triclustering solutions. BMC Bioinformatics volume 22, Article number: 16 (2021) doi: 10.1186/s12859-020-03925-4
  • Palladino G., Rampelli S., Scicchitano D, et al. Impact of Marine Aquaculture on the Microbiome Associated with Nearby Holobionts: The Case of Patella caerulea Living in Proximity of Sea Bream Aquaculture Cages. Microorganisms 2021, 9(2), 455; doi:10.3390/microorganisms9020455
  • Biagi E., Musella M., Palladino G., et al. Impact of Plastic Debris on the Gut Microbiota of Caretta caretta From Northwestern Adriatic Sea. Front. Mar. Sci. , 19 February 2021, Sec. Marine Pollution. doi: 10.3389/fmars.2021.637030
  • Trevisi P, Luise D., Correa F. et al. Timely Control of Gastrointestinal Eubiosis: A Strategic Pillar of Pig Health. Microorganisms. 2021; 9 (2):90201313. doi: 10.3390/microorganisms9020313

2020

  • Schelkle B, Galand PE, CIRCLES Consortium. Microbiome research: Open communication today, microbiome applications in the future. Microorganisms. 2020;8(12):1960. doi:10.3390/microorganisms8121960.
  • Rasa K., Pennanen T, Peltoniemi K, et al. Pulp and paper mill sludges decrease soil erodibility. Journal of environmental quality (2020) doi: 10.1002/jeq2.20170
  • Musella M, Wathsala RHGR, Tavella T, et al. Tissue-scale microbiota of the Mediterranean mussel (Mytilus galloprovincialis) and its relationship with the environment. Sci Total Environ. 2020;735:139457. doi:10.1016/j.scitotenv.2020.139457.
  • Terrazas RA, Balbirnie-Cumming K., Morris J, et al. A footprint of plant eco-geographic adaptation on the composition of the barley rhizosphere bacterial microbiota. Scientific Reports, Vol 10, Iss 1, Pp 1-13 (2020). doi: 10.1038/s41598-020-69672-x

2019

  • Schelkle B. The role of microbes in producing our food. TKS TeknoScience. 2019;6:70-72.
  • Caradonia F, et al. Nitrogen fertilizers shape the composition and predicted functions of the microbiota of field-grown tomato plants. PBIOMES. 2019;6(19):0028-R.
  • Nikouli E, Meziti A, Antonopoulou E, Mente E, Kormas KA. Host-associated bacterial succession during the early embryonic stages and first feeding in farmed gilthead sea bream (Sparus aurata). Aquaculture. 2019;500:712-719. doi:10.1016/j.aquaculture.2018.10.031.