Advances in non-ribosomal peptides discovery, biosynthesis and modes of action against drug resistant bacteria
Anuj Ranjan , Abhishek Chauhan , Divakar Sharma , Evgeniya V. Prazdnova , Tanu Jindal
Systems Microbiology and Biomanufacturing ›› 2026, Vol. 6 ›› Issue (6) : 161
The growing concern of antimicrobial-resistant (AMR) bacteria has created an urgent need for new antimicrobial agents with novel mechanisms of action. Non-ribosomal peptides (NRPs) have gained significant attention because they target essential and highly conserved bacterial structures through diverse mechanisms of action against many multidrug-resistant (MDR) pathogens. NRPs have distinct and diverse modes of action that reduce the likelihood of rapid AMR among bacteria. Advances in multi-omics approaches have greatly improved the discovery of novel NRPs In addition, synthetic biology, NRPS and domain engineering, and heterologous expression systems have expanded the possibilities for producing new peptide analogs with improved biological properties. This review discusses the major microbial sources of NRPs, their biosynthesis, recent approaches in NRP discovery and engineering, and their mechanisms of action against MDR pathogens along with challenges associated with NRP development, including silent biosynthetic gene clusters, low production yield, complex biosynthetic pathways, toxicity, and large-scale production with future prospects for developing NRP-based therapeutics to combat antimicrobial resistance.
Multi-drug resistance / Bacterial metabolites / Non-ribosomal peptides
| [1] |
|
| [2] |
|
| [3] |
|
| [4] |
|
| [5] |
|
| [6] |
|
| [7] |
|
| [8] |
|
| [9] |
|
| [10] |
|
| [11] |
|
| [12] |
|
| [13] |
|
| [14] |
|
| [15] |
|
| [16] |
|
| [17] |
|
| [18] |
|
| [19] |
|
| [20] |
|
| [21] |
|
| [22] |
|
| [23] |
|
| [24] |
|
| [25] |
|
| [26] |
|
| [27] |
|
| [28] |
|
| [29] |
Division AR. WHO Bacterial Priority Pathogens List, 2024: Bacterial Pathogens of Public Health Importance to guide research, development and strategies to prevent and control antimicrobial resistance. Retrieved April 15, 2026, from https://www.who.int/publications/i/item/9789240093461 |
| [30] |
|
| [31] |
|
| [32] |
|
| [33] |
|
| [34] |
|
| [35] |
|
| [36] |
|
| [37] |
|
| [38] |
|
| [39] |
|
| [40] |
|
| [41] |
|
| [42] |
|
| [43] |
|
| [44] |
|
| [45] |
|
| [46] |
|
| [47] |
|
| [48] |
|
| [49] |
|
| [50] |
|
| [51] |
|
| [52] |
|
| [53] |
|
| [54] |
|
| [55] |
|
| [56] |
|
| [57] |
|
| [58] |
|
| [59] |
|
| [60] |
|
| [61] |
|
| [62] |
|
| [63] |
|
| [64] |
|
| [65] |
|
| [66] |
|
| [67] |
|
| [68] |
|
| [69] |
|
| [70] |
|
| [71] |
|
| [72] |
|
| [73] |
|
| [74] |
|
| [75] |
|
| [76] |
|
| [77] |
|
| [78] |
|
| [79] |
|
| [80] |
|
| [81] |
|
| [82] |
|
| [83] |
|
| [84] |
|
| [85] |
|
| [86] |
|
| [87] |
|
| [88] |
|
| [89] |
|
| [90] |
|
| [91] |
|
| [92] |
|
| [93] |
|
| [94] |
|
| [95] |
|
| [96] |
|
| [97] |
|
| [98] |
|
| [99] |
|
| [100] |
|
| [101] |
|
| [102] |
|
| [103] |
|
| [104] |
|
| [105] |
|
| [106] |
|
| [107] |
|
| [108] |
|
| [109] |
|
| [110] |
|
| [111] |
|
| [112] |
|
| [113] |
|
| [114] |
|
| [115] |
|
| [116] |
|
| [117] |
|
| [118] |
|
| [119] |
|
| [120] |
|
| [121] |
|
| [122] |
|
| [123] |
|
| [124] |
|
| [125] |
|
| [126] |
|
| [127] |
|
| [128] |
|
| [129] |
|
| [130] |
|
| [131] |
|
| [132] |
|
| [133] |
|
| [134] |
|
| [135] |
|
| [136] |
|
| [137] |
|
| [138] |
|
| [139] |
|
| [140] |
|
| [141] |
|
| [142] |
|
| [143] |
|
| [144] |
|
| [145] |
|
| [146] |
|
| [147] |
|
| [148] |
|
| [149] |
|
| [150] |
Yeak KYC, Perko M, Staring G, Fernandez-Ciruelos BM, Wells JM, Abee T, Wells-Bennik MHJ, NIZO, Food Microbiology, Wageningen University & Research, & Host-Microbe Interactomics, Wageningen University & Research. Lichenysin Production by Bacillus licheniformis Food Isolates and Toxicity to Human Cells. In Frontiers in Microbiology. 2022;13:831033. https://doi.org/10.3389/fmicb.2022.831033 |
| [151] |
|
| [152] |
|
| [153] |
|
| [154] |
|
| [155] |
|
| [156] |
|
| [157] |
|
| [158] |
|
| [159] |
|
| [160] |
|
| [161] |
|
| [162] |
|
| [163] |
|
| [164] |
Murray, C. J. L., Ikuta, K. S., Sharara, F., et al. (2022). Global burden of bacterial antimicrobial resistance in 2019: a systematic analysis. The Lancet, 399(10325), 629–655. https://doi.org/10.1016/S0140-6736(21)02724-0 |
| [165] |
Smyth, C., Leigh, R. J., Delaney, S., Murphy, R. A., & Walsh, F. (2022). Shooting hoops: globetrotting plasmids spreading more than just antimicrobial resistance genes across One Health. Microbial Genomics, 8(8), 000858 https://doi.org/10.1099/mgen.0.000858 |
| [166] |
World Health Organization (2024) WHO bacterial priority pathogens list, 2024: bacterial pathogens of public health importance to guide research, development and strategies to prevent and control antimicrobial resistance. World Health Organization, Geneva. https://www.who.int/publications/i/item/9789240093461 |
| [167] |
Reimer, J. M., Eivaskhani, M., Harb, I., Guarné, A., Weigt, M., & Martin Schmeing, T. (2019). Structures of a dimodular nonribosomal peptide synthetase reveal conformational flexibility. Science, 366(6466), eaaw4388. https://doi.org/10.1126/science.aaw4388 |
| [168] |
Ansari MZ, Yadav G, Gokhale RS, Mohanty D (2004) NRPS-PKS: a knowledge-based resource for analysis of NRPS/PKS megasynthases. Nucleic Acids Research 32(suppl_2):W405–W413. https://doi.org/10.1093/nar/gkh359 |
| [169] |
Huang, Y.-S., Wang, J.-T., Chuang, Y.-C., Sheng, W.-H., & Chang, S.-C. (2026). Comparative analysis of colistin and polymyxin B minimal inhibitory concentrations in Enterobacterales, Acinetobacter baumannii, and Pseudomonas aeruginosa. Journal of Infection and Public Health, 19(2), 103091. https://doi.org/10.1016/j.jiph.2025.103091 |
| [170] |
Ontong, J. C., Nwabor, O. F., Voravuthikunchai, S. P., & Chusri, S. (2021). Synergistic antibacterial effects of colistin in combination with aminoglycoside, carbapenems, cephalosporins, fluoroquinolones, tetracyclines, fosfomycin, and piperacillin on multidrug resistant Klebsiella pneumoniae isolates. PLoS ONE, 16(1), e0244673. https://doi.org/10.1371/journal.pone.0244673 |
| [171] |
Peng, H., Schmiederer, J., Chen, X., et al. (2024). Controlling substrate- and stereospecificity of condensation domains in nonribosomal peptide synthetases. ACS Chemical Biology, 19(3), 636–647. https://doi.org/10.1021/acschembio.3c00678 |
| [172] |
Della Sala, G., Mangoni, A., Costantino, V., & Teta, R. (2020). Identification of the biosynthetic gene cluster of thermoactinoamides and discovery of new congeners by integrated genome mining and MS-based molecular networking. Frontiers in Chemistry, 8, 397. https://doi.org/10.3389/fchem.2020.00397 |
| [173] |
Röttig, M., Medema, M. H., Blin, K., Weber, T., Rausch, C., & Kohlbacher, O. (2011). NRPSpredictor2—a web server for predicting NRPS adenylation domain specificity. Nucleic Acids Research, 39(Suppl. 2), W362–W367. https://doi.org/10.1093/nar/gkr323 |
| [174] |
Miao, V., Coëffet-LeGal, M.-F., Brian, P., Brost, R., Penn, J., Whiting, A., Martin, S., Ford, R., Parr, I., Bouchard, M., Silva, C. J., Wrigley, S. K., & Baltz, R. H. (2005). Daptomycin biosynthesis in Streptomyces roseosporus: Cloning and analysis of the gene cluster and revision of peptide stereochemistry. Microbiology, 151(5), 1507–1523. https://doi.org/10.1099/mic.0.27757-0 |
| [175] |
Heidary, M., Khosravi, A. D., Khoshnood, S., Nasiri, M. J., Soleimani, S., & Goudarzi, M. (2018). Daptomycin. Journal of Antimicrobial Chemotherapy, 73(1), 1–11. https://doi.org/10.1093/jac/dkx349 |
| [176] |
Corpuz, J. C., Sanlley, J. O., & Burkart, M. D. (2022). Protein-protein interface analysis of the non-ribosomal peptide synthetase peptidyl carrier protein and enzymatic domains. Synthetic and Systems Biotechnology, 7(2), 677–688. https://doi.org/10.1016/j.synbio.2022.02.006 |
| [177] |
Linne, U., Doekel, S., & Marahiel, M. A. (2001). Portability of epimerization domain and role of peptidyl carrier protein on epimerization activity in nonribosomal peptide synthetases. Biochemistry, 40(51), 15824–15834. https://doi.org/10.1021/bi011595t |
| [178] |
Challis, G. L., & Naismith, J. H. (2004). Structural aspects of non-ribosomal peptide biosynthesis. Current Opinion in Structural Biology, 14(6), 748–756. https://doi.org/10.1016/j.sbi.2004.10.005 |
| [179] |
Tietze, A., Shi, Y.-N., Kronenwerth, M., & Bode, H. B. (2020). Nonribosomal peptides produced by minimal and engineered synthetases with terminal reductase domains. ChemBioChem, 21(19), 2750–2754. https://doi.org/10.1002/cbic.202000176 |
| [180] |
Chen, Q., Zhu, J., Li, X., & Wen, Y. (2022). Transcriptional regulator DasR represses daptomycin production through both direct and cascade mechanisms in Streptomyces roseosporus. Antibiotics, 11(8), 1065. https://doi.org/10.3390/antibiotics11081065 |
| [181] |
de la Cruz, M., González, I., Parish, C. A., Onishi, R., Tormo, J. R., Martín, J., Peláez, F., Zink, D., El Aouad, N., Reyes, F., Genilloud, O., & Vicente, F. (2017). Production of ramoplanin and ramoplanin analogs by actinomycetes. Frontiers in Microbiology, 8, 343. https://doi.org/10.3389/fmicb.2017.00343 |
| [182] |
Kisil, O. V., Efimenko, T. A., & Efremenkova, O. V. (2021). Looking back to Amycolatopsis: History of the antibiotic discovery and future prospects. Antibiotics, 10(10), 1254. https://doi.org/10.3390/antibiotics10101254 |
| [183] |
Vimberg, V. (2021). Teicoplanin—A new use for an old drug in the COVID-19 era? Pharmaceuticals, 14(12), 1227. https://doi.org/10.3390/ph14121227 |
| [184] |
Yin, X., Chen, Y., Zhang, L., Wang, Y., & Zabriskie, T. M. (2010). Enduracidin analogues with altered halogenation patterns produced by genetically engineered strains of Streptomyces fungicidicus. Journal of Natural Products, 73(4), 583–589. https://doi.org/10.1021/np900710q |
| [185] |
Yushchuk, O., Zhukrovska, K., Binda, E., & Marinelli, F. (2024). Unraveling the biosynthetic logic behind the production of ramoplanin and related lipodepsipeptide antibiotics. Fermentation, 10(11), 544. https://doi.org/10.3390/fermentation10110544 |
| [186] |
Machushynets, N. V., Elsayed, S. S., Du, C., Siegler, M. A., de la Cruz, M., Genilloud, O., Hankemeier, T., & van Wezel, G. P. (2022). Discovery of actinomycin L, a new member of the actinomycin family of antibiotics. Scientific Reports, 12, 2813. https://doi.org/10.1038/s41598-022-06736-0 |
| [187] |
Malinga, N. A., Nzuza, N., Padayachee, T., Syed, P. R., Karpoormath, R., Gront, D., Nelson, D. R., & Syed, K. (2022). An unprecedented number of cytochrome P450s are involved in secondary metabolism in Salinispora species. Microorganisms, 10(5), 871. https://doi.org/10.3390/microorganisms10050871 |
| [188] |
Abdelaziz, R., Tartor, Y. H., Barakat, A. B., El-Didamony, G., Gado, M. M., Berbecea, A., & Radulov, H. I. (2023). Bioactive metabolites of Streptomyces misakiensis display broad-spectrum antimicrobial activity against multidrug-resistant bacteria and fungi. Frontiers in Cellular and Infection Microbiology, 13, 1162721. https://doi.org/10.3389/fcimb.2023.1162721 |
| [189] |
Zhao, J., Li, Q., Zeeshan, M., Zhang, G., Wang, C., Han, X., & Yang, D. (2024). Integrative genomics and bioactivity-guided isolation of novel antimicrobial compounds from Streptomyces sp. KN37 in agricultural applications. Molecules, 29(9), 2040. https://doi.org/10.3390/molecules29092040 |
| [190] |
Han, D., Ji, Y., Yang, S., Song, P., Shi, Y., Shao, D., Chen, X., Shang, L., Shi, J., & Jiang, C. (2024). Therapeutic effect of iturin A on Candida albicans oral infection and its pathogenic factors. Antimicrobial Agents and Chemotherapy, 68(1), e00948-23. https://doi.org/10.1128/aac.00948-23 |
| [191] |
Sharma, D., Singh, S. S., Baindara, P., Sharma, S., Khatri, N., Grover, V., Patil, P. B., & Korpole, S. (2020). Surfactin like broad spectrum antimicrobial lipopeptide co-produced with sublancin from Bacillus subtilis strain A52: Dual reservoir of bioactives. Frontiers in Microbiology, 11, 1167. https://doi.org/10.3389/fmicb.2020.01167 |
| [192] |
Patiño, A. D., Montoya-Giraldo, M., Quintero, M., López-Parra, L. L., Blandón, L. M., & Gómez-León, J. (2021). Dereplication of antimicrobial biosurfactants from marine bacteria using molecular networking. Scientific Reports, 11, 16286. https://doi.org/10.1038/s41598-021-95788-9 |
| [193] |
Das, P., Mukherjee, S., & Sen, R. (2008). Antimicrobial potential of a lipopeptide biosurfactant derived from a marine Bacillus circulans. Journal of Applied Microbiology, 104(6), 1675–1684. https://doi.org/10.1111/j.1365-2672.2007.03701.x |
| [194] |
Kubicki, S., Bollinger, A., Katzke, N., Jaeger, K.-E., Loeschcke, A., & Thies, S. (2019). Marine biosurfactants: Biosynthesis, structural diversity and biotechnological applications. Marine Drugs, 17(7), 408. https://doi.org/10.3390/md17070408 |
| [195] |
Murphy, M. M., Culligan, E. P., & Murphy, C. P. (2024). Investigating the antimicrobial and antibiofilm properties of marine halophilic Bacillus species against ESKAPE pathogens. Environmental Microbiology Reports, 16(5), e70027. https://doi.org/10.1111/1758-2229.70027 |
| [196] |
|
Jiangnan University
/
| 〈 |
|
〉 |