Microbial Bioactives
Microbial Bioactives | Online ISSN 2209-2161
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Marine Microbial Metabolites as Bioactive Reservoirs: A Systematic Synthesis of Biosynthetic Diversity and Functional Potential
Faruk Hossain 1*
Microbial Bioactives 9 (1) 1-8 https://doi.org/10.25163/microbbioacts.9110634
Submitted: 11 March 2026 Revised: 03 May 2026 Accepted: 12 May 2026 Published: 14 May 2026
Abstract
Marine microorganisms—quietly inhabiting chemically complex and often extreme environments—have, perhaps more than we fully anticipated, emerged as prolific producers of bioactive secondary metabolites. Yet, the extent to which their biosynthetic potential translates into consistent biological efficacy remains unevenly understood. In this systematic review and meta-analysis, we attempted to bring some structure to this complexity by synthesizing evidence across bacterial, fungal, and cyanobacterial systems. A comprehensive literature search spanning multiple databases identified studies reporting metabolite bioactivity, biosynthetic pathways, and analytical approaches. Quantitative synthesis, conducted using random-effects models, revealed a somewhat expected—but still striking—pattern: bacterial metabolites tend to exhibit relatively consistent and reproducible bioactivity, while fungal metabolites show pronounced variability, often shaped by environmental conditions and strain-specific regulation. Cyanobacterial metabolites occupy an intermediate space, displaying moderate but biologically meaningful activity. At the same time, the analysis makes it difficult to ignore underlying challenges. Considerable heterogeneity, methodological inconsistencies, and signs of publication bias complicate direct comparisons. Still, despite these limitations, the findings point—quite convincingly—to marine microbiomes as a rich, if still underexplored, reservoir of structurally diverse and functionally significant compounds. Future progress, it seems, will depend not only on discovery but also on standardization, integration of multi-omics approaches, and a more deliberate exploration of currently overlooked microbial taxa.
Keywords: Microbial metabolites; Bacteria; Fungi; Cyanobacteria; Bioactivity
References
Alves, V., Zamith-Miranda, D., Frases, S., & Nosanchuk, J. D. (2025). Fungal metabolomics: A comprehensive approach to understanding pathogenesis in humans and identifying potential therapeutics. Journal of Fungi, 11(2), 93. https://doi.org/10.3390/jof11020093
Amoutzias, G. D., Chaliotis, A., & Mossialos, D. (2016). Discovery strategies of bioactive compounds synthesized by nonribosomal peptide synthetases and type-I polyketide synthases derived from marine microbiomes. Marine Drugs, 14(4), 80. https://doi.org/10.3390/md14040080
Andryukov, B., Mikhailov, V., & Besednova, N. (2019). The biotechnological potential of secondary metabolites from marine bacteria. Journal of Marine Science and Engineering, 7(7), 176. https://doi.org/10.3390/jmse7060176
Arnison, P. G., Bibb, M. J., Bierbaum, G., Bowers, A. A., Bugni, T. S., Bulaj, G., … van der Donk, W. A. (2013). Ribosomally synthesized and post-translationally modified peptide natural products: Overview and recommendations for a universal nomenclature. Natural Product Reports, 30(1), 108–160. https://doi.org/10.1039/C2NP20085F
Blin, K., Shaw, S., Augustijn, H. E., Reitz, Z. L., Biermann, F., Alanjary, M., ... & Weber, T. (2023). antiSMASH 7.0: New and improved predictions for detection, regulation, chemical structures and visualisation. Nucleic Acids Research, 51(W1), W46–W50. https://doi.org/10.1093/nar/gkad344
Choi, S. Y., & Woo, H. M. (2020). CRISPRi-dCas12a: A dCas12a-mediated CRISPR interference for repression of multiple genes and metabolic engineering in cyanobacteria. ACS Synthetic Biology, 9(9), 2351–2361.
https://doi.org/10.1021/acssynbio.0c00091
Davidson, S. K., Allen, S. W., Lim, G. E., Anderson, C. M., & Haygood, M. G. (2001). Evidence for the biosynthesis of bryostatins by the bacterial symbiont of a marine invertebrate. Applied and Environmental Microbiology, 67(10), 4531–4537. https://doi.org/10.1128/AEM.67.10.4531-4537.2001
Desjardine, K., Pereira, A., Wright, H., Matainaho, T., Kelly, M., & Andersen, R. J. (2007). Tauramamide, a lipopeptide antibiotic produced by Brevibacillus laterosporus. Journal of Natural Products, 70(12), 1850–1853. https://doi.org/10.1021/np070209r
Drake, E. J., Miller, B. R., Shi, C., Tarrasch, J. T., Sundlov, J. A., Leigh Allen, C., Skiniotis, G., Aldrich, C. C., & Gulick, A. M. (2016). Structures of two distinct conformations of holo-non-ribosomal peptide synthetases. Nature, 529(7585), 235–238. https://doi.org/10.1038/nature16163
Frisvad, J. C., Rank, C., Nielsen, K. F., & Larsen, T. O. (2009). Metabolomics of Aspergillus fumigatus. Medical Mycology, 47(Suppl. 1), S53–S71. https://doi.org/10.1080/13693780802307720
Gulick, A. M. (2017). Nonribosomal peptide synthetase biosynthetic clusters of ESKAPE pathogens. Natural Product Reports, 34(8), 981–1009. https://doi.org/10.1039/C7NP00029D
Helfrich, E. J., & Piel, J. (2016). Biosynthesis of polyketides by trans-AT polyketide synthases. Natural Product Reports, 33(2), 231–316. https://doi.org/10.1039/C5NP00125K
Helfrich, E. J., & Piel, J. (2016). Biosynthesis of polyketides by trans-AT polyketide synthases. Natural Product Reports, 33(2), 231–316. https://doi.org/10.1039/C5NP00125K
Hildebrand, M., Waggoner, L. E., Liu, H., Sudek, S., Allen, S., Anderson, C. M., Sherman, D. H., & Haygood, M. (2004). bryA: An unusual modular polyketide synthase gene from the uncultivated bacterial symbiont of the marine bryozoan Bugula neritina. Chemistry & Biology, 11(11), 1543–1552. https://doi.org/10.1016/j.chembiol.2004.08.018
Jeong, Y., Cho, S. H., Lee, H., Choi, H. K., Kim, D. M., Lee, C. G., Cho, S., & Cho, B. K. (2020). Current status and future strategies to increase secondary metabolite production from cyanobacteria. Microorganisms, 8(12), 1849. https://doi.org/10.3390/microorganisms8121849
Johnson, C. H., Ivanisevic, J., & Siuzdak, G. (2016). Metabolomics: Beyond biomarkers and towards mechanisms. Nature Reviews Molecular Cell Biology, 17(7), 451–459. https://doi.org/10.1038/nrm.2016.25
Kellmann, R., Mihali, T. K., & Neilan, B. A. (2008). Identification of a saxitoxin biosynthesis gene with a history of frequent horizontal gene transfers. Journal of Molecular Evolution, 67(5), 526–538. https://doi.org/10.1007/s00239-008-9169-2
Kitagaki, J., Shi, G., Miyauchi, S., Murakami, S., & Yang, Y. (2015). Cyclic depsipeptides as potential cancer therapeutics. Anti-Cancer Drugs, 26(3), 259–271. https://doi.org/10.1097/CAD.0000000000000183
Mansson, M., Gram, L., & Larsen, T. O. (2011). Marine peptides as potential therapeutic agents. Marine Drugs, 9(9), 1557–1603. https://doi.org/10.3390/md9091440
Mihali, T. K., Kellmann, R., & Neilan, B. A. (2009). Characterisation of the paralytic shellfish toxin biosynthesis gene clusters in Anabaena circinalis AWQC131C and Aphanizomenon sp. NH-5. BMC Biochemistry, 10(1), 8. https://doi.org/10.1186/1471-2091-10-8
Mocibob, M., Ivic, N., Bilokapic, S., Maier, T., Luic, M., Ban, N., & Weygand-Durasevic, I. (2010). Homologs of aminoacyl-tRNA synthetases acylate carrier proteins and provide a link between ribosomal and nonribosomal peptide synthesis. PNAS, 107(33), 14585–14590. https://doi.org/10.1073/pnas.1007470107
Musiol-Kroll, E. M., & Wohlleben, W. (2018). Acyltransferases as tools for polyketide synthase engineering. Antibiotics, 7(3), 62. https://doi.org/10.3390/antibiotics7030062
Nikolouli, K., & Mossialos, D. (2016). Bioactive compounds synthesized by non-ribosomal peptide synthetases and type-I polyketide synthases discovered through genome-mining and metagenomics. Marine Drugs, 14(4), 80. https://doi.org/10.3390/md14040080
Nougayrède, J. P., Homburg, S., Taieb, F., Boury, M., Brzuszkiewicz, E., Gottschalk, G., … & Oswald, E. (2006). Escherichia coli induces DNA double-strand breaks in eukaryotic cells. Science, 313(5788), 848–851. https://doi.org/10.1126/science.1127059
Nougayrède, J.-P., Homburg, S., Taieb, F., Boury, M., Brzuszkiewicz, E., Gottschalk, G., & Oswald, E. (2006). Escherichia coli induces DNA double-strand breaks in eukaryotic cells. Science, 313(5788), 848–851. https://doi.org/10.1126/science.1127059
Piel, J. (2002). A polyketide synthase-peptide synthetase gene cluster from an uncultured bacterial symbiont. PNAS, 99(22), 14002–14007. https://doi.org/10.1073/pnas.222481399
Piel, J., Hui, D., Fusetani, N., & Matsunaga, S. (2004). Targeting modular polyketide synthases with iteratively acting acyltransferases from metagenomes of uncultured bacterial consortia. Environmental Microbiology, 6(9), 921–927. https://doi.org/10.1111/j.1462-2920.2004.00531.x
Raffa, N., & Keller, N. P. (2019). A call to arms: Mustering secondary metabolites for success and survival of an opportunistic pathogen. PLOS Pathogens, 15(4), e1007606. https://doi.org/10.1371/journal.ppat.1007606
Rath, C. M., Janto, B., Earl, J., Ahmed, A., Hu, F. Z., Hiller, L., & Sherman, D. H. (2011). Meta-omic characterization of the marine invertebrate microbial consortium that produces the chemotherapeutic natural product ET-743. ACS Chemical Biology, 6(11), 1244–1256. https://doi.org/10.1021/cb200244t
Reen, F. J., Gutierrez-Barranquero, J. A., Dobson, A. D., Adams, C., & O'Gara, F. (2015). Marine microbial metabolomics and bioactive compounds. Marine Drugs, 13(2), 1140–1163. https://doi.org/10.3390/md13052924
Robbins, T., Liu, Y. C., Cane, D. E., & Khosla, C. (2016). Structure and mechanism of assembly line polyketide synthases. Current Opinion in Structural Biology, 41, 10–18. https://doi.org/10.1016/j.sbi.2016.05.009
Sadeghi, M., Mestivier, D., & Sobhani, I. (2024). Contribution of pks+ Escherichia coli (E. coli) to colon carcinogenesis. Microorganisms, 12(6), 1111. https://doi.org/10.3390/microorganisms12061111
Sayari, M., Dolatabadian, A., El-Shetehy, M., Rehal, P. K., & Daayf, F. (2022). Genome-based analysis of Verticillium polyketide synthase gene clusters. Biology, 11(9), 1252. https://doi.org/10.3390/biology11091252
Schofield, M. M., Jain, S., Porat, D., Dick, G. J., & Sherman, D. H. (2015). Identification and analysis of the bacterial endosymbiont specialized for production of the chemotherapeutic natural product ET-743. Environmental Microbiology, 17(10), 3964–3975. https://doi.org/10.1111/1462-2920.12908
Strieker, M., Tanovic, A., & Marahiel, M. A. (2010). Nonribosomal peptide synthetases: Structures and dynamics. Current Opinion in Structural Biology, 20(2), 234–240. https://doi.org/10.1016/j.sbi.2010.01.009
Tillett, D., Dittmann, E., Erhard, M., von Döhren, H., Börner, T., & Neilan, B. A. (2000). Structural organization of microcystin biosynthesis in Microcystis aeruginosa PCC 7806: An integrated peptide-polyketide synthetase system. Chemistry & Biology, 7(10), 753–764. https://doi.org/10.1016/S1074-5521(00)00021-1
Wilson, M. R., Jiang, Y., Villalta, P. W., Stornetta, A., Boudreau, P. D., & Crawford, J. M. (2019). The human gut bacterial genotoxin colibactin alkylates DNA. Science, 363(6428), eaar7785. https://doi.org/10.1126/science.aar7785
Xue, M., Kim, C. S., Healy, A. R., Wernke, K. M., Wang, Z., Frischling, M. C., ... & Crawford, J. M. (2019). Structure elucidation of colibactin and its DNA cross-links. Science, 365(6454), eaax2685. https://doi.org/10.1126/science.aax2685
Yamashita, T., Kuranaga, T., & Inoue, M. (2015). Solid-phase total synthesis of bogorol A: Stereocontrolled construction of thermodynamically unfavored (E)-2-amino-2-butenamide. Organic Letters, 17(9), 2170–2173. https://doi.org/10.1021/acs.orglett.5b00769
Yuzawa, S., Keasling, J. D., & Katz, L. (2016). Insights into polyketide biosynthesis gained from repurposing antibiotic-producing polyketide synthases to produce fuels and chemicals. The Journal of Antibiotics, 69(7), 494–499. https://doi.org/10.1038/ja.2016.64
Ziemert, N., Podell, S., Penn, K., Badger, J. H., Allen, E., & Jensen, P. R. (2012). The natural product domain seeker NaPDoS: A phylogeny-based bioinformatics tool to classify secondary metabolite gene diversity. PLoS ONE, 7(3), e34064. https://doi.org/10.1371/journal.pone.0034064
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