Acknowledgement
This work was supported by the National Institute of Biological Resources (NIBR), funded by the Ministry of Environment (MOE) of the South Korea (NIBR202019103, and NIBR202123102), and the National Research Foundation of Korea (NRF) grants funded by the South Korea government (MSIT) (No. NRF2021R1C1C1004734).
References
- Ventola CL. 2015. The antibiotic resistance crisis: part 1: causes and threats. Pharm. Ther. 40: 277.
- Munita JM, Arias CA. 2016. Mechanisms of antibiotic resistance. Microbiology spectrum. 4. doi.org/10.1128/microbiolspec.VMBF-0016-2015.
- Chevrette MG, Carlson CM, Ortega HE, Thomas C, Ananiev GE, Barns KJ, et al. 2019. The antimicrobial potential of Streptomyces from insect microbiomes. Nat. Commun. 10: 516.
- Solomon SL, Oliver KB. 2014. Antibiotic resistance threats in the United States: stepping back from the brink. Am. Family Phys. 89: 938-941.
- Shrivastava SR, Shrivastava PS, Ramasamy J. 2018. World health organization releases global priority list of antibiotic-resistant bacteria to guide research, discovery, and development of new antibiotics. J. Med. Soc. 32: 76-77. https://doi.org/10.4103/jms.jms_25_17
- Furfaro LL, Payne MS, Chang BJ. 2018. Bacteriophage therapy: clinical trials and regulatory hurdles. Front. Cell. Infect. Microbiol. 8: 376.
- Bhalodi AA, van Engelen TSR, Virk HS, Wiersinga WJ. 2019. Impact of antimicrobial therapy on the gut microbiome. J. Antimicrob. Chemother. 74: i6-i15. https://doi.org/10.1093/jac/dky530
- Roux D, Pier GB, Skurnik D. 2012. Magic bullets for the 21st century: the reemergence of immunotherapy for multi- and pan-resistant microbes. J. Antimicrob. Chemother. 67: 2785-2787. https://doi.org/10.1093/jac/dks335
- Piddock LJV. 2015. Teixobactin, the first of a new class of antibiotics discovered by iChip technology? J. Antimicrob. Chemother. 70: 2679-2680. https://doi.org/10.1093/jac/dkv175
- Li LG, Yin X, Zhang T. 2018. Tracking antibiotic resistance gene pollution from different sources using machine-learning classification. Microbiome 6: 93.
- Beesoo R, Bhagooli R, Neergheen-Bhujun VS, Li WW, Kagansky A, Bahorun T. 2017. Antibacterial and antibiotic potentiating activities of tropical marine sponge extracts. Comp. Biochem. Physiol. C Toxicol. Pharmacol. 196: 81-90. https://doi.org/10.1016/j.cbpc.2017.04.001
- Jun JY, Jung MJ, Jeong IH, Yamazaki K, Kawai Y, Kim BM. 2018. Antimicrobial and antibiofilm activities of sulfated polysaccharides from marine algae against dental plaque bacteria. Mar. Drugs. 16: 301.
- Rooks MG, Garrett WS. 2016. Gut microbiota, metabolites and host immunity. Nat. Rev. Immunol. 16: 341-352. https://doi.org/10.1038/nri.2016.42
- Braig HR, Perotti MA. 2009. Carcases and mites. Exp. Appl. Acarol. 49: 45-84. https://doi.org/10.1007/s10493-009-9287-6
- Garcia-Hernandez J, Hurtado LA, Leyva-Garcia G, Guido-Moreno A, Aguilera-Marquez D, Mazzei V, et al. 2015. Isopods of the genus Ligia as potential biomonitors of trace metals from the gulf of California and pacific coast of the Baja California peninsula. Ecotoxicol. Environ. Safety 112: 177-185. https://doi.org/10.1016/j.ecoenv.2014.11.002
- Ghosh J, Lun CM, Majeske AJ, Sacchi S, Schrankel CS, Smith LC. 2011. Invertebrate immune diversity. Dev. Comp. Immunol. 35: 959-974. https://doi.org/10.1016/j.dci.2010.12.009
- Padfield D, Castledine M, Buckling A. 2020. Temperature-dependent changes to host-parasite interactions alter the thermal performance of a bacterial host. ISME J. 14: 389-398. https://doi.org/10.1038/s41396-019-0526-5
- Chin CS, Alexander DH, Marks P, Klammer AA, Drake J, Heiner C, et al. 2013. Nonhybrid, finished microbial genome assemblies from long-read SMRT sequencing data. Nat. Methods 10: 563-569. https://doi.org/10.1038/nmeth.2474
- Delcher AL, Bratke KA, Powers EC, Salzberg SL. 2007. Identifying bacterial genes and endosymbiont DNA with Glimmer. Bioinformatics 23: 673-679. https://doi.org/10.1093/bioinformatics/btm009
- Conesa A, Gotz S, Garcia-Gomez JM, Terol J, Talon M, Robles M. 2005. Blast2GO: a universal tool for annotation, visualization and analysis in functional genomics research. Bioinformatics 21: 3674-3676. https://doi.org/10.1093/bioinformatics/bti610
- Lowe TM, Eddy SR. 1997. tRNAscan-SE: a program for improved detection of transfer RNA genes in genomic sequence. Nucleic Acids Res. 25: 955-964. https://doi.org/10.1093/nar/25.5.955
- Lagesen K, Hallin P, Rodland EA, Staerfeldt HH, Rognes T, Ussery DW. 2007. RNAmmer: consistent and rapid annotation of ribosomal RNA genes. Nucleic Acids Res. 35: 3100-3108. https://doi.org/10.1093/nar/gkm160
- Blin K, Shaw S, Steinke K, Villebro R, Ziemert N, Lee SY, et al. 2019. antiSMASH 5.0: updates to the secondary metabolite genome mining pipeline. Nucleic Acids Res. 47: W81-W87. https://doi.org/10.1093/nar/gkz310
- Tamura K, Stecher G, Kumar S. 2021. MEGA11: Molecular evolutionary genetics analysis version 11. Mol. Biol. Evol. 38: 3022-3027. https://doi.org/10.1093/molbev/msab120
- Arkin AP, Cottingham RW, Henry CS, Harris NL, Stevens RL, Maslov S, et al. 2018. KBase: the united states department of energy systems biology knowledgebase. Nat. Biotechnol. 36: 566-569. https://doi.org/10.1038/nbt.4163
- Kwon SW, Kim JS, Park IC, Yoon SH, Park DH, Lim CKwnfm, et al. 2003. Pseudomonas koreensis sp. nov., Pseudomonas umsongensis sp. nov. and Pseudomonas jinjuensis sp. nov., novel species from farm soils in Korea. Int. J. Syst. Evol. Microbiol. 53: 21-27. https://doi.org/10.1099/ijs.0.02326-0
- Peix A, Rivas R, Mateos PF, Martinez-Molina E, Rodriguez-Barrueco C, Velazquez E. 2003. Pseudomonas rhizosphaerae sp. nov., a novel species that actively solubilizes phosphate in vitro. Int. J. Syst. Evol. Microbiol. 53: 2067-2072. https://doi.org/10.1099/ijs.0.02703-0
- Ramette A, Frapolli M, Fischer-Le Saux M, Gruffaz C, Meyer JM, Defago G, et al. 2011. Pseudomonas protegens sp. nov., widespread plant-protecting bacteria producing the biocontrol compounds 2,4-diacetylphloroglucinol and pyoluteorin. Syst. Appl. Microbiol. 34: 180-188. https://doi.org/10.1016/j.syapm.2010.10.005
- Singh H, Du J, Singh P, Yi TH. 2018. Extracellular synthesis of silver nanoparticles by Pseudomonas sp. THG-LS1.4 and their antimicrobial application. J. Pharm. Anal. 8: 258-264. https://doi.org/10.1016/j.jpha.2018.04.004
- Liu Y, Rao Q, Blom J, Lin Q, Luo T. 2020. Pseudomonas piscis sp. nov., isolated from the profound head ulcers of farmed Murray cod (Maccullochella peelii peelii). Int. J. Syst. Evol. Microbiol. 70: 2732-2739. https://doi.org/10.1099/ijsem.0.004101
- Karbalaei-Heidari HR, Budisa N. 2020. Combating antimicrobial resistance with new-to-nature lanthipeptides created by genetic code expansion. Front. Microbiol. 11: 590522.
- Stincone P, Fonseca Veras F, Micalizzi G, Donnarumma D, Vitale Celano G, Petras D, et al. 2022. Listeria monocytogenes exposed to antimicrobial peptides displays differential regulation of lipids and proteins associated to stress response. Cell Mol. Life Sci. 79: 263.
- Wu CY, Chen CL, Lee YH, Cheng YC, Wu YC, Shu HY, et al. 2007. Nonribosomal synthesis of fengycin on an enzyme complex formed by fengycin synthetases. J. Biol. Chem. 282: 5608-5616. https://doi.org/10.1074/jbc.M609726200
- Piewngam P, Zheng Y, Nguyen TH, Dickey SW, Joo HS, Villaruz AE, et al. 2018. Pathogen elimination by probiotic Bacillus via signalling interference. Nature 562: 532-537. https://doi.org/10.1038/s41586-018-0616-y
- Dassama LM, Kenney GE, Rosenzweig AC. 2017. Methanobactins: from genome to function. Metallomics 9: 7-20. https://doi.org/10.1039/C6MT00208K
- Guzman J, Vilcinskas A. 2021. Genome analysis suggests the bacterial family Acetobacteraceae is a source of undiscovered specialized metabolites. Antonie Van Leeuwenhoek 115: 41-58. https://doi.org/10.1007/s10482-021-01676-7
- Jurado-Martin I, Sainz-Mejias M. 2021. Pseudomonas aeruginosa: An audacious pathogen with an adaptable arsenal of virulence factors. Int. J. Mol. Sci. 22: 3128.
- Decoin V, Barbey C, Bergeau D, Latour X, Feuilloley MG, Orange N, et al. 2014. A type VI secretion system is involved in Pseudomonas fluorescens bacterial competition. PLoS One 9: e89411.
- Vachee A, Mossel DA, Leclerc H. 1997. Antimicrobial activity among Pseudomonas and related strains of mineral water origin. J. Appl. Microbiol. 83: 652-658. https://doi.org/10.1046/j.1365-2672.1997.00274.x
- El-Sheshtawy H, Doheim M. 2014. Selection of Pseudomonas aeruginosa for biosurfactant production and studies of its antimicrobial activity. Egypt. J. Petroleum 23: 1-6. https://doi.org/10.1016/j.ejpe.2014.02.001
- Fleming A. 1980. Classics in infectious diseases: on the antibacterial action of cultures of a penicillium, with special reference to their use in the isolation of B. influenzae by Alexander Fleming, Reprinted from the British Journal of Experimental Pathology 10:226-236, 1929. Rev. Infect. Dis. 2: 129-139. https://doi.org/10.1093/clinids/2.1.129
- Terreni M, Taccani M, Pregnolato M. 2021. New antibiotics for multidrug-fesistant bacterial strains: latest research developments and future perspectives. Molecules 26: 2671.
- Enright MC, Robinson DA, Randle G, Feil EJ, Grundmann H, Spratt BG. 2002. The evolutionary history of methicillin-resistant Staphylococcus aureus (MRSA). Proc. Natl. Acad. Sci. USA 99: 7687-7692. https://doi.org/10.1073/pnas.122108599
- Thompson T. 2022. The staggering death toll of drug-resistant bacteria. Nature doi: 10.1038/d41586-022-00228-x. Online ahead of print.
- Davies O, Bennett S. 2017. WHO publishes list of bacteria for which new antibiotics are urgently needed. WHO Newsletters.
- Cook MA, Wright GD. 2022. The past, present, and future of antibiotics. Sci. Transl. Med. 14: eabo7793.
- Thumar JT, Dhulia K, Singh SP. 2010. Isolation and partial purification of an antimicrobial agent from halotolerant alkaliphilic Streptomyces aburaviensis strain Kut-8. World J. Microbiol. Biotechnol. 26: 2081-2087. https://doi.org/10.1007/s11274-010-0394-7
- Silby MW, Winstanley C, Godfrey SA, Levy SB, Jackson RW. 2011. Pseudomonas genomes: diverse and adaptable. FEMS Microbiol. Rev. 35: 652-680. https://doi.org/10.1111/j.1574-6976.2011.00269.x
- Keita K, Darkoh C. 2022. Secondary plant metabolites as potent drug candidates against antimicrobial-resistant pathogens. SN Appl. Sci. 4: 209.
- Ndlovu T, Rautenbach M, Vosloo JA, Khan S, Khan W. 2017. Characterisation and antimicrobial activity of biosurfactant extracts produced by Bacillus amyloliquefaciens and Pseudomonas aeruginosa isolated from a wastewater treatment plant. AMB Express 7: 108.
- Khaligh SF, Asoodeh A. 2022. Recent advances in the bio-application of microalgae-derived biochemical metabolites and development trends of photobioreactor-based culture systems. 3 Biotech 12: 260.
- Afzal S, Yadav AK, Poonia AK, Choure K, Yadav AN, Pandey A. 2022. Antimicrobial therapeutics isolated from algal source: retrospect and prospect. Biologua 20: 1-15.
- Parameswari RP, Lakshmi T. 2022. Microalgae as a potential therapeutic drug candidate for neurodegenerative diseases. J. Biotechnol. 358: 128-139. https://doi.org/10.1016/j.jbiotec.2022.09.009
- Wu MJ, Xu B, Guo YW. 2022. Unusual secondary metabolites from the mangrove ecosystems: Structures, bioactivities, chemical, and bio-syntheses. Mar. Drugs 20: 535.
- Perry EK, Meirelles LA. 2022. From the soil to the clinic: the impact of microbial secondary metabolites on antibiotic tolerance and resistance. Nat. Rev. Microbiol. 20: 129-142. https://doi.org/10.1038/s41579-021-00620-w