Publications
2023
Sanchez, A. C., et al. (2023). Expansion of novel biosynthetic gene clusters from diverse environments using SanntiS. bioRxiv.
2024
El Hourany, R., Pierella Karlusich, J., Zinger, L., Loisel, H., Levy, M., & Bowler, C. (2024). Linking satellites to genes with machine learning to estimate phytoplankton community structure from space. Ocean Science, 20, 217–239.
Galgonek, J., & Vondrášek, J. (2024). The IDSM mass spectrometry extension: Searching mass spectra using SPARQL. Bioinformatics, 40(4), btae174.
Vermeulen, T. et al. (2024). Initial characterization of the Viridisins’ biological properties. ACS Omega, 9, 1–10.
Nef, C., Pierella Karlusich, J.J., & Bowler, C. (2024). From nets to networks: Tools for deciphering phytoplankton metabolic interactions within communities and their global significance. Philosophical Transactions of the Royal Society B, 379, 20230172.
Villar, E., Zweig, N., Vincens, P., Cruz de Carvalho, H., Duchene, C., Liu, S., Monteil, R., Dorrell, R. G., Fabris, M., Vandepoele, K., Bowler, C., & Falciatore, A. (2024). DiatOmicBase, a gene-centered platform to mine functional omics data across diatom genomes. BioRxiv.
Laude, J., Scarsini, M., Nef, C., & Bowler, C. (2024). Evolutionary conservation and metabolic significance of autophagy in algae. Philosophical Transactions of the Royal Society B, 379, 20230368.
Sett, S., Kress, W. J., Halewood, M., et al. (2024). Harmonize rules for digital sequence information benefit-sharing across UN frameworks. Nature Communications, 15, 8745.
Duchêne, C., Bouly, J.P., Pierella Karlusich, J.J., et al. (2024). Diatom phytochromes integrate the underwater light spectrum to sense depth. Nature.
Aleku, G. A., & Hollfelder, F. (2024). Expanding the repertoire of imine reductases by mining divergent biosynthetic pathways for promiscuous reactivity. Chem Catalysis.
2025
Martínez-Antequera, F. P., Gilannejad, N., Menanteau-Ledouble, S., et al. (2025). Testing the inhibitory effects of different algal extracts on fish intestinal metalloproteases using in vitro assays. Journal of Applied Phycology.
Humphries, J., et al. (2025). Decoding marine genetic resources governance under the BBNJ agreement. Sustainable Development Goal Series.
Penner, N., et al. (2025). Fluorogenic, subsingle-turnover monitoring of enzymatic reactions involving NAD(P)H provides a generalized platform for directed ultrahigh-throughput evolution of biocatalysts in microdroplets. Journal of the American Chemical Society, 147(13).
Pierella Karlusich, J.J., Cosnier, K., Zinger, L., et al. (2025). Patterns and drivers of diatom diversity and abundance in the global ocean. Nature Communications, 16, 3452.
Casolari, F., Westmoreland, A., Vanagt, T., & Jaspars, M. (2025). Unpacking policy developments in marine natural product research: A scientist’s guide to DSI and BBNJ. Natural Product Reports.
Abs, E., Keuschnig, C., Amato, P., Bowler, C., Capo, E., Chase, A., Chavez Rodriguez, L., Dabengwa, A., Dussarrat, T., Guzman, T., Honeker, L., Hultman, J., Küsel, K., Li, Z., Mankowski, A., Riley, W., Saleska, S., & Wingate, L. (2025). Ideas and perspectives: Using meta-omics to unravel biogeochemical changes from cell to planetary scales. EGUsphere [preprint]
Jiraskova, K., Ptacek, J., Vydra Bousova, K., & Vondrasek, J. (2025). Toward reproducible PETase research: A standardized workflow for reliable enzyme production and comparison. Protein Expression and Purification.
Matveishina, E. K., Bartmanski, B. J., Benito-Vaquerizo, S., & Zimmermann-Kogadeeva, M. (2025). GEMsembler: Consensus model assembly and structural comparison of genome-scale metabolic models across tools improve functional performance. mSystems.
Blom, C., Jaspars, M., Muminovic Rilak, J., et al. (2025). From frameworks to finance: How sharing benefits from the use of digital sequence information can evolve to contribute to biodiversity conservation. Nature Biotechnology.