Applied Agriculture Sciences

Agriculture and food sciences | Online ISSN: 3066-3407
23
Citations
100.8k
Views
42
Articles
REVIEWS   (Open Access)

Microbiome–Nutrient Synergy for Cadmium Stress Mitigation in Crops: Mechanisms, Analytic Evidence, and Sustainable Agricultural Implications

Laurie E. Comstock 1*, Takalani Whitney Maake 2*

+ Author Affiliations

Applied Agriculture Sciences 4 (1) 1-8 https://doi.org/10.25163/agriculture.4110617

Submitted: 16 July 2026 Revised: 04 September 2026  Accepted: 12 September 2026  Published: 14 September 2026 


Abstract

The increasing prevalence of cadmium (Cd) contamination in agricultural soils poses a significant threat to crop productivity, food safety, and human health. Cd disrupts plant growth by impairing nutrient and water uptake, inducing oxidative stress, and interfering with photosynthesis, ultimately leading to reduced yields and quality. Traditional chemical remediation approaches are often environmentally unsustainable and may fail to adequately address Cd bioavailability in complex soil-plant systems. Recent research has highlighted the crucial role of beneficial microbiota associated with crop plants, including Plant Growth-Promoting Bacteria (PGPB), Fungi (PGPF), and arbuscular mycorrhizal fungi, in mitigating Cd stress. These microbes enhance nutrient uptake, regulate hormonal balance, and improve plant tolerance to heavy metal stress through mechanisms such as chelation, siderophore production, and competition for essential ions. Simultaneously, targeted nutrient management—particularly of sulfur, phosphorus, zinc, iron, calcium, and silicon—interacts synergistically with microbial activity to reduce Cd uptake and promote detoxification processes. Systematic review and meta-analytic evidence suggest that integrated strategies combining beneficial microbial inoculants with optimized nutrient supplementation can substantially decrease Cd accumulation, improve antioxidant defenses, and support plant growth under contaminated conditions. Despite variability in experimental conditions and microbial strains, the convergence of evidence emphasizes a biologically grounded, sustainable framework for addressing Cd toxicity. This approach not only strengthens plant resilience but also contributes to the long-term safety and sustainability of agricultural production systems.

Keywords: Beneficial microbiota, cadmium stress, nutrient management, Plant Growth-Promoting Bacteria, Plant Growth-Promoting Fungi, arbuscular mycorrhizal fungi, heavy metal mitigation, sustainable agriculture.

References

Afridi, M. S., Ali, S., Salam, A., César Terra, W., Hafeez, A., Sumaira, Ali, B., AlTami, M. S., Ameen, F., Ercisli, S., Marc, R. A., Medeiros, F. H. V., & Karunakaran, R. (2022). Plant microbiome engineering: Hopes or hypes. Biology, 11(12), 1782. https://doi.org/10.3390/biology11121782        

Aishwarya, S. A. N. I., Nagam, N., Vijaya, T., & Netala, R. V. (2017). Screening and identification of heavy metal-tolerant endophytic fungi Lasiodiplodia theobromae from Boswellia ovalifoliolata, an endemic plant of Tirumala hills. Asian Journal of Pharmaceutical and Clinical Research, 10(11), 488–491. https://doi.org/10.22159/ajpcr.2017.v10i11.19946   

Ali, B., Hafeez, A., Javed, M. A., Afridi, M. S., Abbasi, H. A., Qayyum, A., Batool, T., Ullah, A., Marc, R. A., & Al Jaouni, S. K. (2022). Role of endophytic bacteria in salinity stress amelioration by physiological and molecular mechanisms of defense: A comprehensive review. South African Journal of Botany, 151, 33–46. https://doi.org/10.1016/j.sajb.2022.09.036         

Armendariz, A. L., Talano, M. A., Olmos Nicotra, M. F., Escudero, L., Breser, M. L., Porporatto, C., & Agostini, E. (2019). Impact of double inoculation with Bradyrhizobium japonicum E109 and Azospirillum brasilense Az39 on soybean plants grown under arsenic stress. Plant Physiology and Biochemistry, 138, 26–35. https://doi.org/10.1016/j.plaphy.2019.02.011  

Ayaz, M., Li, C.-H., Ali, Q., Zhao, W., Chi, Y.-K., Shafiq, M., Ali, F., Yu, X.-Y., Yu, Q., Zhao, J.-T., Yu, J.-W., Qi, R.-D., & Huang, W.-K. (2023). Bacterial and fungal biocontrol agents for plant disease protection: Journey from lab to field, current status, challenges, and global perspectives. Molecules, 28(18), 6735. https://doi.org/10.3390/molecules28186735 

Cai, Y., Xu, W., Wang, M., Chen, W., Li, X., & Li, Y. (2019). Mechanisms and uncertainties of Zn supply on regulating rice Cd uptake. Environmental Pollution, 253, 959–965. https://doi.org/10.1016/j.envpol.2019.07.077

Cely, M. V. T., de Oliveira, A. G., de Freitas, V. F., de Luca, M. B., Barazetti, A. R., dos Santos, I. M. O., Gionco, B., Garcia, G. V., Prete, C. E. C., & Andrade, G. (2016). Inoculant of arbuscular mycorrhizal fungi (Rhizophagus clarus) increases yield of soybean and cotton under field conditions. Frontiers in Microbiology, 7, 720. https://doi.org/10.3389/fmicb.2016.00720 

Chen, X., Ouyang, Y., Fan, Y., Qiu, B., Zhang, G., & Zeng, F. (2018). The pathway of transmembrane cadmium influx via calcium-permeable channels and its spatial characteristics along rice root. Journal of Experimental Botany, 69(22), 5279–5291. https://doi.org/10.1093/jxb/ery293

Clemens, S., Aarts, M. G., Thomine, S., & Verbruggen, N. (2013). Plant science: The key to preventing slow cadmium poisoning. Trends in Plant Science, 18(2), 92–99. https://doi.org/10.1016/j.tplants.2012.08.003

Cornejo, P., Meier, S., García, S., Ferrol, N., Durán, P., Borie, F., & Seguel, A. (2017). Contribution of inoculation with arbuscular mycorrhizal fungi to the bioremediation of a copper-contaminated soil using Oenothera picensis. Journal of Soil Science and Plant Nutrition, 17(1), 14–21. https://doi.org/10.4067/S0718-95162016005000070

Dimkpa, C. O., Merten, D., Svatos, A., Büchel, G., & Kothe, E. (2009). Siderophores mediate reduced and increased uptake of cadmium by Streptomyces tendae F4 and sunflower (Helianthus annuus), respectively. Journal of Applied Microbiology, 107(12), 1687–1696. https://doi.org/10.1111/j.1365-2672.2009.04354.x

Dong, Q., Wallrad, L., Almutairi, B. O., & Kudla, J. (2022). Ca²? signaling in plant responses to abiotic stresses. Journal of Integrative Plant Biology, 64(3), 287–300. https://doi.org/10.1111/jipb.13228

Egger, M., Davey Smith, G., Schneider, M., & Minder, C. (1997). Bias in meta-analysis detected by a simple, graphical test. BMJ, 315(7109), 629–634. https://doi.org/10.1136/bmj.315.7109.629

Fahad, S., Chavan, S. B., Chichaghare, A. R., Uthappa, A. R., Kumar, M., Kakade, V., Pradhan, A., Jinger, D., Rawale, G., Yadav, D. K., et al. (2022). Agroforestry systems for soil health improvement and maintenance. Sustainability, 14(22), 14877. https://doi.org/10.3390/su142214877

Gill, S. S., & Tuteja, N. (2010). Reactive oxygen species and antioxidant machinery in abiotic stress tolerance in plants. Plant Physiology and Biochemistry, 48(12), 909–930. https://doi.org/10.1016/j.plaphy.2010.08.016

Glick, B. R. (2012). Plant growth-promoting bacteria: Mechanisms and applications. Scientifica, 2012, 963401. https://doi.org/10.6064/2012/963401

Guo, J., Liu, W., Zhu, C., Luo, G., Kong, Y., Ling, N., Wang, M., Shen, Q., Guo, S., & Dai, J. (2018). Bacterial rather than fungal community composition is associated with microbial activities and nutrient-use efficiencies in a paddy soil with short-term organic amendments. Plant and Soil, 424, 335–349. https://doi.org/10.1007/s11104-017-3547-8

He, H., Wang, X., Wu, M., Guo, L., Fan, C., & Peng, Q. (2020). Cadmium and lead affect the status of mineral nutrients in alfalfa grown on a calcareous soil. Soil Science and Plant Nutrition, 66(4), 506–514. https://doi.org/10.1080/00380768.2020.1747362

Huang, D., Gong, X., Liu, Y., Zeng, G., Lai, C., Bashir, H., Zhou, L., Wang, D., Xu, P., Cheng, M., et al. (2017). Effects of calcium at toxic concentrations of cadmium in plants. Planta, 245(5), 863–873. https://doi.org/10.1007/s00425-017-2664-1

Huang, J., Wu, X., Tian, F., Chen, Q., Luo, P., Zhang, F., Wan, X., Zhong, Y., Liu, Q., & Lin, T. (2019). Changes in proteome and protein phosphorylation reveal the protective roles of exogenous nitrogen in alleviating cadmium toxicity in poplar plants. International Journal of Molecular Sciences, 21(1), 278. https://doi.org/10.3390/ijms21010278

Lahlali, R., Ezrari, S., Radouane, N., Kenfaoui, J., Esmaeel, Q., El Hamss, H., Belabess, Z., & Barka, E. A. (2022). Biological control of plant pathogens: A global perspective. Microorganisms, 10(3), 596. https://doi.org/10.3390/microorganisms10030596

Li, Y., Wang, B., Chang, Y., Yang, Y., Yao, C., Huang, X., Zhang, J., Cai, Z., & Zhao, J. (2019). Reductive soil disinfestation effectively alleviates the replant failure of Sanqi ginseng through allelochemical degradation and pathogen suppression. Applied Microbiology and Biotechnology, 103(8), 3581–3595. https://doi.org/10.1007/s00253-019-09729-0   

Ma, J., Saleem, M. H., Ali, B., Rasheed, R., Ashraf, M. A., Aziz, H., Ercisli, S., Riaz, S., Elsharkawy, M. M., Hussain, I., et al. (2022). Impact of foliar application of syringic acid on tomato (Solanum lycopersicum L.) under heavy metal stress—Insights into nutrient uptake, redox homeostasis, oxidative stress, and antioxidant defense. Frontiers in Plant Science, 13, 950120. https://doi.org/10.3389/fpls.2022.950120        

Ma, W., Luo, P., Ahmed, S., Hayat, H. S., Anjum, S. A., Nian, L., Wu, J., Wei, Y., Ba, W., Haider, F. U., et al. (2024). Synergistic effect of biochar, phosphate fertilizer, and phosphorous solubilizing bacteria for mitigating cadmium (Cd) stress and improving maize growth in Cd-contaminated soil. Plants, 13(3), 3333. https://doi.org/10.3390/plants13233333

Manzar, N., Kashyap, A. S., Goutam, R. S., Rajawat, M. V. S., Sharma, P. K., Sharma, S. K., & Singh, H. V. (2022). Trichoderma: Advent of versatile biocontrol agent, its secrets and insights into mechanism of biocontrol potential. Sustainability, 14(19), 12786. https://doi.org/10.3390/su141912786

Nagórska, K., Bikowski, M., & Obuchowski, M. (2007). Multicellular behaviour and production of a wide variety of toxic substances support usage of Bacillus subtilis as a powerful biocontrol agent. Acta Biochimica Polonica, 54(3), 495–508. https://doi.org/10.18388/abp.2007_3224

Pietro-Souza, W., Pereira, F. C., Mello, I. S., Stachack, F. F. F., Terezo, A. J., da Cunha, C. N., White, J. F., Li, H., & Soares, M. A. (2020). Mercury resistance and bioremediation mediated by endophytic fungi. Chemosphere, 240, 124874. https://doi.org/10.1016/j.chemosphere.2019.124874     

Spokas, K. A., Novak, J. M., & Venterea, R. T. (2012). Biochar’s role as an alternative N-fertilizer: Ammonia capture. Plant and Soil, 350(1–2), 35–42. https://doi.org/10.1007/s11104-011-0930-8    

Tian, L., Lin, X., Tian, J., Ji, L., Chen, Y., Tran, L. S. P., & Tian, C. (2020). Research advances of beneficial microbiota associated with crop plants. International Journal of Molecular Sciences, 21(5), 1792. https://doi.org/10.3390/ijms21051792 

Timmusk, S., Nevo, E., & Niinemets, Ü. (2020). Harnessing microbial multitrophic engineering for increased crop yield under drought. Pathogens, 9(6), 419. https://doi.org/10.3390/pathogens9060419              

Timmusk, S., Nevo, E., Ayele, F., Noe, S., & Niinemets, Ü. (2020). Fighting Fusarium pathogens in the era of climate change: A conceptual approach. Pathogens, 9(6), 419. https://doi.org/10.3390/pathogens9060419

Vurukonda, S. S. K. P., Giovanardi, D., & Stefani, E. (2018). Plant growth promoting and biocontrol activity of Streptomyces spp. as endophytes. International Journal of Molecular Sciences, 19(4), 952. https://doi.org/10.3390/ijms19040952              

Zahoor, M., Irshad, M., Rahman, H., Qasim, M., Afridi, S. G., Qadir, M., & Hussain, A. (2017). Alleviation of heavy metal toxicity and phytostimulation of Brassica campestris L. by endophytic Mucor sp. MHR-7. Ecotoxicology and Environmental Safety, 142, 139–149. https://doi.org/10.1016/j.ecoenv.2017.04.005          


View Dimensions


View Plumx


View Altmetric




Save
0
Citation
56
View

Share