[1] WENP C, VANEGAS J M, REMPE S B, et al.Probing key elements of teixobactin-lipid Ⅱ interactions in membranes[J].Chemical Science, 2018, 9(34):6997-7008.
[2] DE KRAKER M E A, STEWARDSON A J, HARBARTH S.Will 10 million people die a year due to antimicrobial resistance by 2050?[J].PLoS Medicine, 2016, 13(11):e1002184.
[3] YEWALE V N.Antimicrobial resistance:A ticking bomb![J].Indian Pediatrics, 2014, 51(3):171-172.
[4] ABDELRAOUF K, BRAGGS K H, YIN T J, et al.Characterization of polymyxin B-induced nephrotoxicity:Implications for dosing regimen design[J].Antimicrobial Agents and Chemotherapy, 2012, 56(9):4625-4629.
[5] BROGDEN K A.Antimicrobial peptides:Pore formers or metabolic inhibitors in bacteria?[J].Nature Reviews.Microbiology, 2005, 3(3):238-250.
[6] BOULANGER N, BULET P, LOWENBERGER C.Antimicrobial peptides in the interactions between insects and flagellate parasites[J].Trends in Parasitology, 2006, 22(6):262-268.
[7] BROWNE K, CHAKRABORTY S, CHEN R X, et al.A new era of antibiotics:The clinical potential of antimicrobial peptides[J].International Journal of Molecular Sciences, 2020, 21(19):7047.
[8] LI Y M, XIANG Q, ZHANG Q H, et al.Overview on the recent study of antimicrobial peptides:Origins, functions, relative mechanisms and application[J].Peptides, 2012, 37(2):207-215.
[9] AHMAD A, AHMAD E, RABBANI G, et al.Identification and design of antimicrobial peptides for therapeutic applications[J].Current Protein & Peptide Science, 2012, 13(3):211-223.
[10] GREBERK E, DAWGUL M.Antimicrobial peptides under clinical trials[J].Current Topics in Medicinal Chemistry, 2017, 17(5):620-628.
[11] SIERRA J M, FUSTÉ E, RABANAL F, et al.An overview of antimicrobial peptides and the latest advances in their development[J].Expert Opinion on Biological Therapy, 2017, 17(6):663-676.
[12] TANG R, TAN H, DAI Y, et al.Application of antimicrobial peptides in plant protection:Making use of the overlooked merits[J].Frontiers in Plant Science, 2023, 14:1139539.
[13] 贺松, 龚芳红, 张德纯, 等.乳酸链球菌素对乳酸菌抑菌作用的研究[J].食品科学, 2009, 30(23):352-355.
HE S, GONG F H, ZHANG D C, et al.Antimicrobial activity of nisin against lactic acid bacteria[J].Food Science, 2009, 30(23):352-355.
[14] YANG Z Y, WEI Y X, WU W P, et al.Characterization of simplified nonapeptides with broad-spectrum antimicrobial activities as potential food preservatives, and their antibacterial mechanism[J].Food & Function, 2023, 14(7):3139-3154.
[15] ZASLOFF M.Antimicrobial peptides of multicellular organisms[J].Nature, 2002, 415(6870):389-395.
[16] OBA M, NAKAJIMA S, MISAO K, et al.Effect of helicity and hydrophobicity on cell-penetrating ability of arginine-rich peptides[J].Bioorganic & Medicinal Chemistry, 2023, 91:117409.
[17] DASHPER S G, LIU S W, REYNOLDS E C.Antimicrobial peptides and their potential as oral therapeutic agents[J].International Journal of Peptide Research and Therapeutics, 2007, 13(4):505-516.
[18] LU J G, XU H J, XIA J H, et al.D- and unnatural amino acid substituted antimicrobial peptides with improved proteolytic resistance and their proteolytic degradation characteristics[J].Frontiers in Microbiology, 2020, 11:563030.
[19] WANG J J, SONG J, YANG Z Y, et al.Antimicrobial peptides with high proteolytic resistance for combating gram-negative bacteria[J].Journal of Medicinal Chemistry, 2019, 62(5):2286-2304.
[20] ZHU Y J, SHAO C X, LI G Y, et al.Rational avoidance of protease cleavage sites and symmetrical end-tagging significantly enhances the stability and therapeutic potential of antimicrobial peptides[J].Journal of Medicinal Chemistry, 2020, 63(17):9421-9435.
[21] YU W K, WANG J J, WANG Z H, et al.PEGylation of the antimicrobial peptide PG-1:A link between propensity for nanostructuring and capacity of the antitrypsin hydrolytic ability[J].Journal of Medicinal Chemistry, 2021, 64(14):10469-10481.
[22] WANG C S, SHAO C X, FANG Y X, et al.Binding loop of sunflower trypsin inhibitor 1 serves as a design motif for proteolysis-resistant antimicrobial peptides[J].Acta Biomaterialia, 2021, 124:254-269.
[23] LAI Z H, TAN P, ZHU Y J, et al.Highly stabilized α-helical coiled coils kill gram-negative bacteria by multicomplementary mechanisms under acidic condition[J].ACS Applied Materials & Interfaces, 2019, 11(25):22113-22128.
[24] LAI Z H, YUAN X J, CHEN H Y, et al.Strategies employed in the design of antimicrobial peptides with enhanced proteolytic stability[J].Biotechnology Advances, 2022, 59:107962.
[25] YU W K, SUN Y, LI W Y, et al.Self-assembly of antimicrobial peptide-based micelles breaks the limitation of trypsin[J].ACS Applied Materials & Interfaces, 2023, 15(1):494-510.
[26] KLUBTHAWEE N, BOVONE G, MARCO-DUFORT B, et al.Biopolymer nano-network for antimicrobial peptide protection and local delivery[J].Advanced Healthcare Materials, 2022, 11(7):2101426.
[27] XU L, SHAO C X, LI G Y, et al.Conversion of broad-spectrum antimicrobial peptides into species-specific antimicrobials capable of precisely targeting pathogenic bacteria[J].Scientific Reports, 2020, 10(1):944.
[28] WANG T, TAN P, TANG Q, et al.Phage-displayed heptapeptide sequence conjugation significantly improves the specific targeting ability of antimicrobial peptides against Staphylococcus aureus[J].mLife, 2024, 3(2):251-268.
[29] YANG Y, WANG C X, GAO N, et al.A novel dual-targeted α-helical peptide with potent antifungal activity against fluconazole-resistant Candida albicans clinical isolates[J].Frontiers in Microbiology, 2020, 11:548620.
[30] SONG J, WANG J J, ZHAN N, et al.Therapeutic potential of trp-rich engineered amphiphiles by single hydrophobic amino acid end-tagging[J].ACS Applied Materials & Interfaces, 2019, 11(47):43820-43834.
[31] LIU Z G, BRADY A, YOUNG A, et al.Length effects in antimicrobial peptides of the (RW)n series[J].Antimicrobial Agents and Chemotherapy, 2007, 51(2):597-603.
[32] 查曼, 闵勇, 刘晓艳, 等.抗菌肽在毕赤酵母中表达的研究进展[J/OL].食品与发酵工业, 2024:1-9.(2024-11-29).https://link.cnki.net/doi/10.13995/j.cnki.11-1802/ts.041234.
ZHA M, MIN Y, LIU X Y, et al.Research progress on expression of antimicrobial peptides in Pichia pastoris[J/OL].Food and Fermentation Industries, 2024:1-9.(2024-11-29).https://link.cnki.net/doi/10.13995/j.cnki.11-1802/ts.041234.
[33] PANDI A, ADAM D, ZARE A, et al.Cell-free biosynthesis combined with deep learning accelerates de novo-development of antimicrobial peptides[J].Nature Communications, 2023, 14(1):7197.
[34] PAULSEN V S, BLENCKE H M, BENINCASA M, et al.Structure-activity relationships of the antimicrobial peptide arasin 1 - and mode of action studies of the N-terminal, proline-rich region[J].PLoS One, 2013, 8(1):e53326.
[35] WU W P, SONG J, LI T, et al.Unlocking antibacterial potential:Key-site-based regulation of antibacterial spectrum of peptides[J].Journal of Medicinal Chemistry, 2024, 67(5):4131-4149.
[36] LECUN Y, BENGIO Y, HINTON G.Deep learning[J].Nature, 2015, 521(7553):436-444.
[37] RUMELHART D E, HINTON G E, WILLIAMS R J.Learning representations by back-propagating errors[J].Nature, 1986, 323(6088):533-536.
[38] RAINA R, MADHAVAN A, NG A Y.Large-scale deep unsupervised learning using graphics processors[C].Proceedings of the 26th Annual International Conference on Machine Learning.ACM, 2009:873-880.
[39] SRIVASTAVA N, HINTON G, KRIZHEVSKY A, et al.Dropout:a simple way to prevent neural networks from overfitting[J].Journal of Machine Learning Research, 2014, 15:1929-1958.
[40] LECUN Y, BOTTOU L, BENGIO Y, et al.Gradient-based learning applied to document recognition[J].Proceedings of the IEEE, 1998, 86(11):2278-2324.
[41] ELMAN J.Finding structure in time[J].Cognitive Science, 1990, 14(2):179-211.
[42] HOCHREITER S, SCHMIDHUBER J.Long short-term memory[J].Neural Computation, 1997, 9(8):1735-1780.
[43] GOODFELLOW I J, POUGET-ABADIE J, MIRZA M, et al.Generative adversarial nets [C].Proceedings of the 28th International Conference on Neural Information Processing Systems - Volume 2.Montreal:MIT Press, 2014:2672-2680.
[44] VASWANI A, SHAZEER N, PARMAR N, et al.Attention is all you need [C].Proceedings of the 31 st International Conference on Neural Information Processing Systems.Long Beach:Curran Associates Inc, 2017:6000-6010.
[45] ZHAO M, ZHANG Y, WANG M L, et al.dsAMP and dsAMPGAN:Deep learning networks for antimicrobial peptides recognition and generation[J].Antibiotics, 2024, 13(10):948.
[46] GUO M H, LI Z P, DENG X J, et al.ConoDL:A deep learning framework for rapid generation and prediction of conotoxins[J].Journal of Computer-Aided Molecular Design, 2024, 39(1):4.
[47] SANTOS-JÚNIOR C D, PAN S J, ZHAO X M, et al.Macrel:Antimicrobial peptide screening in genomes and metagenomes[J].PeerJ, 2020, 8:e10555.
[48] SANTOS-JÚNIOR C D, TORRES M D T, DUAN Y Q, et al.Discovery of antimicrobial peptides in the global microbiome with machine learning[J].Cell, 2024, 187(14):3761-3778.
[49] SHEN H, LI Y R, PI Q J, et al.Unveiling novel antimicrobial peptides from the ruminant gastrointestinal microbiomes:A deep learning-driven approach yields an anti-MRSA candidate[J].Journal of Advanced Research, 2025.DOI:10.1016/j.jare.2025.01.005.
[50] SALEM M, KESHAVARZI ARSHADI A, YUAN J S.AMPDeep:Hemolytic activity prediction of antimicrobial peptides using transfer learning[J].BMC Bioinformatics, 2022, 23(1):389.
[51] YU H Q, WANG R H, QIAO J B, et al.Multi-CGAN:Deep generative model-based multiproperty antimicrobial peptide design[J].Journal of Chemical Information and Modeling, 2024, 64(1):316-326.
[52] CAPECCHI A, CAI X G, PERSONNE H, et al.Machine learning designs non-hemolytic antimicrobial peptides[J].Chemical Science, 2021, 12(26):9221-9232.
[53] DAS P, SERCU T, WADHAWAN K, et al.Accelerated antimicrobial discovery via deep generative models and molecular dynamics simulations[J].Nature Biomedical Engineering, 2021, 5(6):613-623.
[54] SZYMCZAK P, MOZ·EJKO M, GRZEGORZEK T, et al.Discovering highly potent antimicrobial peptides with deep generative model HydrAMP[J].Nature Communications, 2023, 14(1):1453.