Endophytic Fungi: Hidden Treasure Chest of Antimicrobial Metabolites Interrelationship of Endophytes and Metabolites

Overview

Journal Front Microbiol

Specialty Microbiology

Date 2023 Jul 27

PMID 37497538

Authors

Priyanka Jha

Tamanna Kaur

Ishita Chhabra

Avirup Panja

Sushreeta Paul

Vijay Kumar

Tabarak Malik

Affiliations

Soon will be listed here.

Abstract

Endophytic fungi comprise host-associated fungal communities which thrive within the tissues of host plants and produce a diverse range of secondary metabolites with various bioactive attributes. The metabolites such as phenols, polyketides, saponins, alkaloids help to mitigate biotic and abiotic stresses, fight against pathogen attacks and enhance the plant immune system. We present an overview of the association of endophytic fungal communities with a plant host and discuss molecular mechanisms induced during their symbiotic interaction. The overview focuses on the secondary metabolites (especially those of terpenoid nature) secreted by endophytic fungi and their respective function. The recent advancement in multi-omics approaches paved the way for identification of these metabolites and their characterization via comparative analysis of extensive omics datasets. This study also elaborates on the role of diverse endophytic fungi associated with key agricultural crops and hence important for sustainability of agriculture.

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References

Potshangbam M, Indira Devi S, Sahoo D, Strobel G . Functional Characterization of Endophytic Fungal Community Associated with L. and L. Front Microbiol. 2017; 8:325. PMC: 5332368. DOI: 10.3389/fmicb.2017.00325. View

Chiang Y, Ahuja M, Oakley C, Entwistle R, Asokan A, Zutz C . Development of Genetic Dereplication Strains in Aspergillus nidulans Results in the Discovery of Aspercryptin. Angew Chem Int Ed Engl. 2015; 55(5):1662-5. PMC: 4724294. DOI: 10.1002/anie.201507097. View

Zhang P, Wang G, Xu F, Liu J, Wang J, Zhang R . Aspergilolide, a steroid lactone produced by an endophytic fungus . MBL1612 isolated from . Nat Prod Res. 2019; 33(15):2133-2138. DOI: 10.1080/14786419.2018.1488706. View

Shankar A, Sharma K . Fungal secondary metabolites in food and pharmaceuticals in the era of multi-omics. Appl Microbiol Biotechnol. 2022; 106(9-10):3465-3488. PMC: 9095418. DOI: 10.1007/s00253-022-11945-8. View

Saijo Y, Loo E, Yasuda S . Pattern recognition receptors and signaling in plant-microbe interactions. Plant J. 2017; 93(4):592-613. DOI: 10.1111/tpj.13808. View

Uzma F, Mohan C, Hashem A, Konappa N, Rangappa S, Kamath P . Endophytic Fungi-Alternative Sources of Cytotoxic Compounds: A Review. Front Pharmacol. 2018; 9:309. PMC: 5932204. DOI: 10.3389/fphar.2018.00309. View

Hamayun M, Hussain A, Khan S, Kim H, Khan A, Waqas M . Gibberellins Producing Endophytic Fungus AGH786 Rescues Growth of Salt Affected Soybean. Front Microbiol. 2017; 8:686. PMC: 5397423. DOI: 10.3389/fmicb.2017.00686. View

Yang H, Tong J, Lee C, Ha S, Eom S, Im Y . Structural mechanism of ergosterol regulation by fungal sterol transcription factor Upc2. Nat Commun. 2015; 6:6129. DOI: 10.1038/ncomms7129. View

Ding L, Xu P, Li T, Liao X, He S, Xu S . Asperfurandiones A and B, two antifungal furandione analogs from a marine-derived fungus . Nat Prod Res. 2018; 33(23):3404-3408. DOI: 10.1080/14786419.2018.1480622. View

10.

Puri S, Verma V, Amna T, Nabi Qazi G, Spiteller M . An endophytic fungus from Nothapodytes foetida that produces camptothecin. J Nat Prod. 2005; 68(12):1717-9. DOI: 10.1021/np0502802. View

11.

Mishra R, Kalra R, Dilawari R, Deshmukh S, Barrow C, Goel M . Characterization of an Endophytic Strain , CPEF04 With Evaluation of Production Medium for Extracellular Red Pigments Having Antimicrobial and Anticancer Properties. Front Microbiol. 2021; 12:665702. PMC: 8371755. DOI: 10.3389/fmicb.2021.665702. View

12.

Rehman S, Shawl A, Verma V, Kour A, Athar M, Andrabi R . An endophytic Neurospora sp. from Nothapodytes foetida producing camptothecin. Prikl Biokhim Mikrobiol. 2008; 44(2):225-31. View

13.

Vishwakarma K, Kumar N, Shandilya C, Mohapatra S, Bhayana S, Varma A . Revisiting Plant-Microbe Interactions and Microbial Consortia Application for Enhancing Sustainable Agriculture: A Review. Front Microbiol. 2021; 11:560406. PMC: 7779480. DOI: 10.3389/fmicb.2020.560406. View

14.

Liu X, Du Y, Na X, Wang M, Qu Y, Ge L . Integrative transcriptome and metabolome revealed the molecular mechanism of Bacillus megaterium BT22-mediated growth promotion in Arabidopsis thaliana. J Plant Physiol. 2023; 285:153995. DOI: 10.1016/j.jplph.2023.153995. View

15.

Zhu D, Wang J, Zeng Q, Zhang Z, Yan R . A novel endophytic Huperzine A-producing fungus, Shiraia sp. Slf14, isolated from Huperzia serrata. J Appl Microbiol. 2010; 109(4):1469-78. DOI: 10.1111/j.1365-2672.2010.04777.x. View

16.

Luo F, Yu Z, Zhou Q, Huang A . Multi-Omics-Based Discovery of Plant Signaling Molecules. Metabolites. 2022; 12(1). PMC: 8777911. DOI: 10.3390/metabo12010076. View

17.

Ditengou F, Muller A, Rosenkranz M, Felten J, Lasok H, Miloradovic van Doorn M . Volatile signalling by sesquiterpenes from ectomycorrhizal fungi reprogrammes root architecture. Nat Commun. 2015; 6:6279. PMC: 4346619. DOI: 10.1038/ncomms7279. View

18.

Koza N, Adedayo A, Babalola O, Kappo A . Microorganisms in Plant Growth and Development: Roles in Abiotic Stress Tolerance and Secondary Metabolites Secretion. Microorganisms. 2022; 10(8). PMC: 9415082. DOI: 10.3390/microorganisms10081528. View

19.

de la Porte A, Schmidt R, Yergeau E, Constant P . A Gaseous Milieu: Extending the Boundaries of the Rhizosphere. Trends Microbiol. 2020; 28(7):536-542. DOI: 10.1016/j.tim.2020.02.016. View

20.

Canovas D, Studt L, Marcos A, Strauss J . High-throughput format for the phenotyping of fungi on solid substrates. Sci Rep. 2017; 7(1):4289. PMC: 5487330. DOI: 10.1038/s41598-017-03598-9. View