Submitted:
06 August 2024
Posted:
06 August 2024
You are already at the latest version
Abstract
Keywords:
1. Introduction
2. Diverse Bacteriocins from Marine Bacteria
2.1. Leaderless Bacteriocins
2.1.1. Piscicocin
2.1.2. Mundticin KS
2.1.3. Divercin V41
2.1.4. Divergicin M35
2.1.5. BaCf3
2.1.6. Sonorensin
2.1.7. CAMT6
2.2. Lanthipeptides
2.2.1. Nisin Z
2.2.2. Subtilomycin
2.2.3. Viridisin
2.2.4. Thalassomonasin
2.2.5. Formicin
2.2.6. Mathermycin
2.2.7. Prochlorosins

4. Challenges and Future Directions
5. Conclusions
Author Contributions
Funding
Data Availability Statement
Acknowledgments
Conflicts of Interest
References
- Walsh, T.R.; Gales, A.C.; Laxminarayan, R.; Dodd, P.C. Antimicrobial Resistance: Addressing a Global Threat to Humanity. PLoS Med. 2023, 20. [CrossRef]
- Traxler, M.F.; Kolter, R. Natural products in soil microbe interactions and evolution. Nat. Prod. Rep. 2015, 32, 956–970. [CrossRef]
- Baindara, P.; Chaudhry, V.; Mittal, G.; Liao, L.M.; Matos, C.O.; Khatri, N.; Franco, O.L.; Patil, P.B.; Korpole, S. Characterization of the antimicrobial peptide penisin, a class Ia novel lantibiotic from Paenibacillus sp. strain A3. Antimicrob. Agents Chemother. 2016. [CrossRef]
- Donia, M.S.; Cimermancic, P.; Schulze, C.J.; Wieland Brown, L.C.; Martin, J.; Mitreva, M.; Clardy, J.; Linington, R.G.; Fischbach, M.A. A systematic analysis of biosynthetic gene clusters in the human microbiome reveals a common family of antibiotics. Cell 2014, 158, 1402–1414. [CrossRef]
- Ziemert, N.; Lechner, A.; Wietz, M.; Millań-Aguiñaga, N.; Chavarria, K.L.; Jensen, P.R. Diversity and evolution of secondary metabolism in the marine actinomycete genus Salinispora. Proc. Natl. Acad. Sci. U. S. A. 2014, 111. [CrossRef]
- Cotter, P.D.; Ross, R.P.; Hill, C. Bacteriocins-a viable alternative to antibiotics? Nat. Rev. Microbiol. 2013.
- Ghosh, C.; Sarkar, P.; Issa, R.; Haldar, J. Alternatives to Conventional Antibiotics in the Era of Antimicrobial Resistance. Trends Microbiol. 2019, 27, 323–338. [CrossRef]
- Zimina, M.; Babich, O.; Prosekov, A.; Sukhikh, S.; Ivanova, S.; Shevchenko, M.; Noskova, S. Overview of global trends in classification, methods of preparation and application of bacteriocins. Antibiotics 2020, 9, 1–21. [CrossRef]
- Arnison, P.G.; Bibb, M.J.; Bierbaum, G.; Bowers, A.A.; Bugni, T.S.; Bulaj, G.; Camarero, J.A.; Campopiano, D.J.; Challis, G.L.; Clardy, J.; et al. Ribosomally synthesized and post-translationally modified peptide natural products: Overview and recommendations for a universal nomenclature. Nat. Prod. Rep. 2013, 30, 108–160. [CrossRef]
- Willey, J.M.; van der Donk, W. a Lantibiotics: peptides of diverse structure and function. Annu. Rev. Microbiol. 2007, 61, 477–501. [CrossRef]
- Hoshino, T.; Doi, H.; Uramoto, G.I.; Wörmer, L.; Adhikari, R.R.; Xiao, N.; Morono, Y.; D’Hondt, S.; Hinrichs, K.U.; Inagaki, F. Global diversity of microbial communities in marine sediment. Proc. Natl. Acad. Sci. U. S. A. 2020, 117, 27587–27597. [CrossRef]
- Pilet, M.F.; Xavier, D.; Rachel, B.; Georges, N.; Michel, D.; Piard, J.C. Evidence for two bacteriocins produced by carnobacterium piscicola and carnobacterium divergens isolated from fish and active against Listeria monocytogenes. J. Food Prot. 1995, 58, 256–262. [CrossRef]
- Bhugaloo-Vial, P.; Dousset, X.; Metivier, A.; Sorokine, O.; Anglade, P.; Boyaval, P.; Marion, D. Purification and amino acid sequences of piscicocins V1a and V1b, two class IIa bacteriocins secreted by Carnobacterium piscicola VI that display significantly different levels of specific inhibitory activity. Appl. Environ. Microbiol. 1996, 62, 4410–4416. [CrossRef]
- Yamazaki, K.; Suzuki, M.; Kawai, Y.; Inoue, N.; Montville, T.J. Purification and characterization of a novel class IIa bacteriocin, piscicocin CS526, from surimi-associated Carnobacterium piscicola CS526. Appl. Environ. Microbiol. 2005, 71, 554–557. [CrossRef]
- Kawamoto, S.; Shima, J.; Sato, R.; Eguchi, T.; Ohmomo, S.; Shibato, J.; Horikoshi, N.; Takeshita, K.; Sameshima, T. Biochemical and genetic characterization of mundticin KS, an antilisterial peptide produced by Enterococcus mundtii NFRI 7393. Appl. Environ. Microbiol. 2002, 68, 3830–3840. [CrossRef]
- Schelegueda, L.I.; Vallejo, M.; Gliemmo, M.F.; Marguet, E.R.; Campos, C.A. Synergistic antimicrobial action and potential application for fish preservation of a bacteriocin produced by Enterococcus mundtii isolated from Odontesthes platensis. LWT 2015, 64, 794–801. [CrossRef]
- Tahiri, I.; Desbiens, M.; Benech, R.; Kheadr, E.; Lacroix, C.; Thibault, S.; Ouellet, D.; Fliss, I. Purification, characterization and amino acid sequencing of divergicin M35: A novel class IIa bacteriocin produced by Carnobacterium divergens M35. Int. J. Food Microbiol. 2004, 97, 123–136. [CrossRef]
- Dinata, R.; Baindara, P. Laterosporulin25: A probiotically produced, novel defensin-like bacteriocin and its immunogenic properties. Int. Immunopharmacol. 2023, 121, 110500. [CrossRef]
- Baindara, P.; Gautam, A.; Raghava, G.P.S.; Korpole, S. Anticancer properties of a defensin like class IId bacteriocin Laterosporulin10. Sci. Rep. 2017. [CrossRef]
- Bindiya, E.S.; Tina, K.J.; Sasidharan, R.S.; Bhat, S.G. BaCf3: highly thermostable bacteriocin from Bacillus amyloliquefaciens BTSS3 antagonistic on food-borne pathogens. 3 Biotech 2019, 9. [CrossRef]
- Chopra, L.; Singh, G.; Choudhary, V.; Sahoo, D.K. Sonorensin: An antimicrobial peptide, belonging to the heterocycloanthracin subfamily of bacteriocins, from a new marine isolate, Bacillus sonorensis MT93. Appl. Environ. Microbiol. 2014, 80, 2981–2990. [CrossRef]
- Li, Q.; Chen, Q.; Wu, Y.; Chen, Z.; Liu, Y.; Fang, Z.; Deng, Q. Purification, characterization and structural identification of a novel bacteriocin produced by marine original Enterococcus durans YQ-6, and its inhibition of Listeria monocytogenes. LWT 2023, 173. [CrossRef]
- MULDERS, J.W.M.; BOERRIGTER, I.J.; ROLLEMA, H.S.; SIEZEN, R.J.; de VOS, W.M. Identification and characterization of the lantibiotic nisin Z, a natural nisin variant. Eur. J. Biochem. 1991, 201, 581–584. [CrossRef]
- Sequeiros, C.; Garcés, M.E.; Vallejo, M.; Marguet, E.R.; Olivera, N.L. Potential aquaculture probiont Lactococcus lactis TW34 produces nisin Z and inhibits the fish pathogen Lactococcus garvieae. Arch. Microbiol. 2015, 197, 449–458. [CrossRef]
- Heo, W.S.; Kim, E.Y.; Kim, Y.R.; Hossain, M.T.; Kong, I.S. Salt effect of nisin Z isolated from a marine fish on the growth inhibition of Streptococcus iniae, a pathogen of streptococcosis. Biotechnol. Lett. 2012, 34, 315–320. [CrossRef]
- Phelan, R.W.; Barret, M.; Cotter, P.D.; Connor, P.M.O.; Chen, R.; Morrissey, J.P.; Dobson, A.D.W.; Gara, F.O.; Barbosa, T.M. Subtilomycin : A New Lantibiotic from Bacillus subtilis Strain MMA7 Isolated from the Marine Sponge Haliclona simulans. 2013, 1878–1898. [CrossRef]
- Thetsana, C.; Ijichi, S.; Kaweewan, I.; Nakagawa, H.; Kodani, S. Heterologous expression of a cryptic gene cluster from a marine proteobacterium Thalassomonas actiniarum affords new lanthipeptides thalassomonasins A and B. J. Appl. Microbiol. 2022, 132, 3629–3639. [CrossRef]
- Collins, F.W.J.; O’Connor, P.M.; O’Sullivan, O.; Rea, M.C.; Hill, C.; Ross, R.P. Formicin – a novel broad-spectrum twocomponent lantibiotic produced by Bacillus paralicheniformis APC 1576. Microbiol. (United Kingdom) 2016, 162, 1662–1671.
- Chen, E.; Chen, Q.; Chen, S.; Xu, B.; Ju, J.; Wang, H. Mathermycin, a lantibiotic from the marine actinomycete Marinactinospora thermotolerans SCSIO 00652. Appl. Environ. Microbiol. 2017, 83. [CrossRef]
- Cubillos-Ruiz, A.; Berta-Thompson, J.W.; Becker, J.W.; Van Der Donk, W.A.; Chisholm, S.W. Evolutionary radiation of lanthipeptides in marine cyanobacteria. Proc. Natl. Acad. Sci. U. S. A. 2017, 114, E5424–E5433. [CrossRef]
- Singh, P.K.; Solanki, V.; Sharma, S.; Thakur, K.G.; Krishnan, B.; Korpole, S. The intramolecular disulfide-stapled structure of laterosporulin, a class IId bacteriocin, conceals a human defensin-like structural module. FEBS J. 2015.
- Deming, J.W.; Baross, J.A. Survival, Dormancy, and Nonculturable Cells in Extreme Deep-Sea Environments. In Nonculturable Microorganisms in the Environment; 2000; pp. 147–197.
- Costello, M.J.; Chaudhary, C. Marine Biodiversity, Biogeography, Deep-Sea Gradients, and Conservation. Curr. Biol. 2017, 27, R511–R527.
- Zeng, X.; Alain, K.; Shao, Z. Microorganisms from deep-sea hydrothermal vents. Mar. Life Sci. Technol. 2021, 3, 204–230.
- Yadav, S.; Koenen, M.; Bale, N.J.; Reitsma, W.; Engelmann, J.C.; Stefanova, K.; Damsté, J.S.S.; Villanueva, L. Organic matter degradation in the deep, sulfidic waters of the Black Sea: insights into the ecophysiology of novel anaerobic bacteria. Microbiome 2024, 12, 98. [CrossRef]
- Srinivasan, R.; Kannappan, A.; Shi, C.; Lin, X. Marine bacterial secondary metabolites: A treasure house for structurally unique and effective antimicrobial compounds. Mar. Drugs 2021, 19.
- Petersen, L.-E.; Kellermann, M.Y.; Schupp, P.J. Secondary Metabolites of Marine Microbes: From Natural Products Chemistry to Chemical Ecology. In YOUMARES 9 - The Oceans: Our Research, Our Future; 2020; pp. 159–180.
- Goto, Y.; Li, B.; Claesen, J.; Shi, Y.; Bibb, M.J.; Donk, W.A. Van Der Discovery of Unique Lanthionine Synthetases Reveals New Mechanistic and Evolutionary Insights. 2010, 8, 4–13. [CrossRef]
- Zhang, L.; Chen, F.X.; Zeng, Z.; Xu, M.; Sun, F.; Yang, L.; Bi, X.; Lin, Y.; Gao, Y.J.; Hao, H.X.; et al. Advances in Metagenomics and Its Application in Environmental Microorganisms. Front. Microbiol. 2021, 12. [CrossRef]
- Van Heel, A.J.; De Jong, A.; Song, C.; Viel, J.H.; Kok, J.; Kuipers, O.P. BAGEL4: A user-friendly web server to thoroughly mine RiPPs and bacteriocins. Nucleic Acids Res. 2018, 46, W278–W281. [CrossRef]
- Medema, M.H.; Blin, K.; Cimermancic, P.; De Jager, V.; Zakrzewski, P.; Fischbach, M. a.; Weber, T.; Takano, E.; Breitling, R. AntiSMASH: Rapid identification, annotation and analysis of secondary metabolite biosynthesis gene clusters in bacterial and fungal genome sequences. Nucleic Acids Res. 2011, 39, 339–346. [CrossRef]
- Tietz, J.I.; Schwalen, C.J.; Patel, P.S.; Maxson, T.; Blair, P.M.; Tai, H.C.; Zakai, U.I.; Mitchell, D.A. A new genome-mining tool redefines the lasso peptide biosynthetic landscape. Nat. Chem. Biol. 2017, 13, 470–478. [CrossRef]
- Merwin, N.J.; Mousa, W.K.; Dejong, C.A.; Skinnider, M.A.; Cannon, M.J.; Li, H.; Dial, K.; Gunabalasingam, M.; Johnston, C.; Magarvey, N.A. DeepRiPP integrates multiomics data to automate discovery of novel ribosomally synthesized natural products. Proc. Natl. Acad. Sci. U. S. A. 2020, 117, 371–380. [CrossRef]
- Zhong, Z.; He, B.; Li, J.; Li, Y.X. Challenges and advances in genome mining of ribosomally synthesized and post-translationally modified peptides (RiPPs). Synth. Syst. Biotechnol. 2020, 5, 155–172. [CrossRef]
- Russell, A.H.; Truman, A.W. Genome mining strategies for ribosomally synthesised and post-translationally modified peptides. Comput. Struct. Biotechnol. J. 2020, 18, 1838–1851. [CrossRef]
- Seyedsayamdost, M.R. High-Throughput platform for the discovery of elicitors of silent bacterial gene clusters. Proc. Natl. Acad. Sci. U. S. A. 2014, 111, 7266–7271. [CrossRef]
- Baindara, P.; Nayudu, N.; Korpole, S. Whole genome mining reveals a diverse repertoire of lanthionine synthetases and lanthipeptides among the genus Paenibacillus. J. Appl. Microbiol. 2020. [CrossRef]
- Jain, P.M.; Nellikka, A.; Kammara, R. Understanding bacteriocin heterologous expression: A review. Int. J. Biol. Macromol. 2024, 133916. [CrossRef]




Disclaimer/Publisher’s Note: The statements, opinions and data contained in all publications are solely those of the individual author(s) and contributor(s) and not of MDPI and/or the editor(s). MDPI and/or the editor(s) disclaim responsibility for any injury to people or property resulting from any ideas, methods, instructions or products referred to in the content. |
© 2024 by the authors. Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (http://creativecommons.org/licenses/by/4.0/).