Molecular Mechanisms of Auxiliary Metabolic Genes in Marine Viruses
محورهای موضوعی : Biotechnological Journal of Environmental Microorganisms
Shariar Tagheipour Kouhbane
1
,
Mirsasan Mirpour
2
,
Alireza Namazi
3
,
Piruz Shadbash
4
1 - Young Researchers and Elite Club, Lahijan Branch, Islamic Azad University, Lahijan, Iran
2 - Department of Microbiology, La.C, Islamic Azad University, Lahijan, Iran
3 - Department of Cell and Molecular Biology, School of Biology, College of Science, University of Tehran, Tehran, Iran
4 - Basic and Molecular Epidemiology of Gastrointestinal Disorders Research Center, Research Institute for Gastroenterology and Liver Diseases, Shahid Beheshti University of Medical Sciences, Tehran, Iran
کلید واژه: Marine viruses, Auxiliary metabolic genes, Biogeochemical cycles, Nitrogen metabolism, Sulfur metabolism, Metagenomics, Host-virus interactions,
چکیده مقاله :
Marine viruses possess auxiliary metabolic genes (AMGs) acquired through horizontal gene transfer from their hosts, enabling them to reprogram host metabolic pathways during infection. These genes significantly influence processes such as photosynthesis, nitrogen, sulfur, and carbon metabolism, lipid biosynthesis, and transport systems, thereby impacting host physiology and global biogeochemical cycles. Recent large-scale metagenomic surveys, like the Tara Oceans project, have identified thousands of AMGs across various metabolic pathways. Functional studies are beginning to reveal how AMGs modulate enzyme activity, host energy flux, and nutrient cycling in illuminated and dark oceans, sediments, oxygen minimum zones (OMZs), and under nutrient-limited conditions. However, key gaps remain in linking AMG expression to protein function and ecological impact. Future research integrating single-cell and single-virion omics, structural biology, synthetic biology, and ecological modeling is likely to illuminate both the molecular mechanisms involved and their broader ecological consequences. This understanding is crucial for comprehending the role of marine viruses in ecosystem dynamics and global nutrient cycles.
Marine viruses possess auxiliary metabolic genes (AMGs) acquired through horizontal gene transfer from their hosts, enabling them to reprogram host metabolic pathways during infection. These genes significantly influence processes such as photosynthesis, nitrogen, sulfur, and carbon metabolism, lipid biosynthesis, and transport systems, thereby impacting host physiology and global biogeochemical cycles. Recent large-scale metagenomic surveys, like the Tara Oceans project, have identified thousands of AMGs across various metabolic pathways. Functional studies are beginning to reveal how AMGs modulate enzyme activity, host energy flux, and nutrient cycling in illuminated and dark oceans, sediments, oxygen minimum zones (OMZs), and under nutrient-limited conditions. However, key gaps remain in linking AMG expression to protein function and ecological impact. Future research integrating single-cell and single-virion omics, structural biology, synthetic biology, and ecological modeling is likely to illuminate both the molecular mechanisms involved and their broader ecological consequences. This understanding is crucial for comprehending the role of marine viruses in ecosystem dynamics and global nutrient cycles.
Aplakidou, E., Vergoulidis, N., Chasapi, M., Venetsianou, N. K., Kokoli, M., Panagiotopoulou, E..et alGeorgakopoulos-Soares, I. (2024). Visualizing metagenomic and metatranscriptomic data: A comprehensive review. Computational and Structural Biotechnology Journal, 23, 2011.
Gios, E., Mosley, O. E., Hoggard, M., & Handley, K. M. (2024). High niche specificity and host genetic diversity of groundwater viruses. The ISME Journal, 18(1), wrae035.
Hurwitz, B. L., & U’Ren, J. M. (2016). Viral metabolic reprogramming in marine ecosystems. Current opinion in microbiology, 31, 161-168.
Kieft, K., Zhou, Z., Anderson, R. E., Buchan, A., Campbell, B. J., Hallam, S. J..et alRoux, S. (2021). Ecology of inorganic sulfur auxiliary metabolism in widespread bacteriophages. Nature communications, 12(1), 3503.
Kosmopoulos, J. C., & Anantharaman, K. (2025). Viral Dark Matter: Illuminating Protein Function, Ecology, and Biotechnological Promises. arXiv preprint arXiv:2506.11942.
Liang, X., Yang, S., Radosevich, M., Wang, Y., Duan, N., & Jia, Y. (2025). Bacteriophage-driven microbial phenotypic heterogeneity: ecological and biogeochemical importance. npj Biofilms and Microbiomes, 11(1), 82.
Luo, X.-Q., Wang, P., Li, J.-L., Ahmad, M., Duan, L., Yin, L.-Z..et alLi, W.-J. (2022). Viral community-wide auxiliary metabolic genes differ by lifestyles, habitats, and hosts. Microbiome, 10(1), 190.
Middelboe, M., & Brussaard, C. P. (2017). Marine viruses: key players in marine ecosystems. In (Vol. 9, pp. 302): MDPI.
Monier, A., Welsh, R. M., Gentemann, C., Weinstock, G., Sodergren, E., Armbrust, E. V..et alWorden, A. Z. (2012). Phosphate transporters in marine phytoplankton and their viruses: cross‐domain commonalities in viral‐host gene exchanges. Environmental Microbiology, 14(1), 162-176.
Puxty, R. J., Millard, A. D., Evans, D. J., & Scanlan, D. J. (2015). Shedding new light on viral photosynthesis. Photosynthesis Research, 126(1), 71-97.
Rajeev, R., Dwivedi, A. P., Sinha, A., Agarwaal, V., Dev, R. R., Kar, A..et alKhosla, S. (2021). Epigenetic interaction of microbes with their mammalian hosts. Journal of Biosciences, 46(4), 94.
Riaz, A., Deng, F., Chen, G., Jiang, W., Zheng, Q., Riaz, B..et alChen, Z.-H. (2022). Molecular regulation and evolution of redox homeostasis in photosynthetic machinery. Antioxidants, 11(11), 2085.
Suttle, C. A. (2007). Marine viruses—major players in the global ecosystem. Nature reviews microbiology, 5(10), 801-812.
Ufarté, L., Potocki-Veronese, G., & Laville, E. (2015). Discovery of new protein families and functions: new challenges in functional metagenomics for biotechnologies and microbial ecology. Frontiers in microbiology, 6, 563.
Wang, Y., Ferrinho, S., Connaris, H., & Goss, R. J. (2023). The impact of viral infection on the chemistries of the earth’s most abundant photosynthesizes: metabolically talented aquatic cyanobacteria. Biomolecules, 13(8), 1218.
Zhu, D., Liu, S.-Y., Sun, M.-M., Yi, X.-Y., Duan, G.-L., Ye, M..et alZhu, Y.-G. (2024). Adaptive expression of phage auxiliary metabolic genes in paddy soils and their contribution toward global carbon sequestration. Proceedings of the National Academy of Sciences, 121(49), e2419798121.
Zimmerman, A. E., Howard-Varona, C., Needham, D. M., John, S. G., Worden, A. Z., Sullivan, M. B..et alColeman, M. L. (2020). Metabolic and biogeochemical consequences of viral infection in aquatic ecosystems. Nature Reviews Microbiology, 18(1), 21-34.
