Effects of commercial microbial biostimulants on soil and root microbial communities and sugarcane yield
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Ameliorating biological attributes of agricultural soils is desirable, and one avenue is introducing beneficial microbes via commercial biostimulant products. Although gaining popularity with farmers, scientific evaluation of such products in field-grown crops is often lacking. We tested two microbial products, Soil-Life™ and Nutri-Life Platform®, in a commercial sugarcane crop by profiling bacterial and fungal communities in soil and roots using high throughput phylogenetic marker gene sequencing. The products, one predominantly consisting of Lactobacillus and the other of Trichoderma, were applied as a mixture as per manufacturers’ instructions. Additives included in the formulations were not listed, and plots that did not receive the product mixture were the controls. The compositions of bacterial communities of soil and sugarcane roots, sampled 2, 5 and 25 weeks after application, were unaffected by the products. Soil fungal communities were also unaffected, but sugarcane roots had a greater relative abundance of three unidentified taxa in genera Marasmius, Fusarium and Talaromyces in the treated plots. Sugarcane yield was similar across all treatments that included a 25% lower nitrogen fertiliser rate. Further research must examine if the altered root fungal community is a consistent feature of the tested products, and if it conveys benefits. We conclude that putative biostimulants can be evaluated by analysing the composition of microbial communities. DNA profiling should be complemented by cost-benefit analysis to build a public information base documenting the effects of microbial biostimulants. Such knowledge will assist manufacturers in product development and farmers in making judicious decisions on product selection, to ensure that the anticipated benefits of microbial biostimulants are realised for broad acre cropping.
KeywordsMicrobial biostimulants Crop probiotics Beneficial microbes Root microbial communities Soil microbial communities Sugarcane
We thank Terrain Natural Resource Management for funding this project, as well as Melissa Royle and Minka Ibanez for sample collection. Shelby Berg gratefully acknowledges financial support from Sugar Research Australia (PhD top-up stipend and operating funds) and the Australian Government Research Training Program.
Data availability statement
The datasets generated during and/or analysed during the current study are available from the corresponding author on reasonable request.
CP-L and SS designed the study in collaboration with AR and LD. AR was responsible for field sampling and CP-L performed the DNA extractions. CP-L and SB performed bioinformatics analyses, PGD and SB performed statistical analyses and all authors contributed to writing the manuscript.
Compliance with ethical standards
Conflict of interest
The authors declare that they have no conflict of interest.
- ActivFert (2017) Products: soil-life soil activator. ActivFert Natures Balance. https://docs.wixstatic.com/ugd/845181_f3a8f92dbf1b4298ac4cb8d7f621125e.pdf. Accessed 6 November 2017
- Anderson MJ (2017) Permutational multivariate analysis of variance (PERMANOVA). Wiley StatsRef: Statistics Reference Online 1–15. doi: https://doi.org/10.1002/9781118445112.stat07841
- Baldani JI, Pot B, Kirchhof G, Falsen E, Baldani VLD, Olivares FL, Hoste B, Kersters K, Hartmann M, Gillis M, Doberneiger J (1996) Emended description of Herbaspirillum; inclusion of [Pseudomonas] rubrisubalbicans, a mild plant pathogen, as Herbaspirillum rubrisubalbicans comb. nov.; and classification of a group of clinical isolates (EF group 1) as Herbaspirillum species 3. Int J Syst Bacteriol 46:802–810. https://doi.org/10.1099/00207713-46-3-802 CrossRefPubMedGoogle Scholar
- Bashan Y, Kloepper JW, de Bashan LE, Nannipieri P (2016) A need for disclosure of the identity of microorganisms, constituents, and application methods when reporting tests with microbe-based or pesticide-based products. Biol Fertil Soils 52:283–284. https://doi.org/10.1007/s00374-016-1091-y CrossRefGoogle Scholar
- Bauoin E, Nazaret S, Mougel C, Ranjard M, Moënne-Loccoz Y (2009) Impact of inoculation with the phytostimulatory PGPR Azospirillum lipoferum CRT1 on the genetic structure of the rhizobacterial community of field-grown maize. Soil Biol Biochem 41:409–413. https://doi.org/10.1016/j.soilbio.2008.10.015 CrossRefGoogle Scholar
- Bensch K (2016) Mycobank database: fungal database, nomenclature and species bank. International Mycological Association. http://www.mycobank.org/. Accessed 3 July 2018
- Brackin R, Schmidt S, Walter D, Bhuiyan S, Buckley S, Anderson J (2017) Soil biological health—what is it and how can we improve it? Proc Aust Soc Sugar Cane Technol 39:141–154Google Scholar
- Caporaso JG, Kuczynski J, Stombaugh J, Bittinger K, Busham FD, Costello EK, Fierer N, Peña AG, Goodrich JK, Gordon JI, Huttley GA, Kelley ST, Knights D, Koenig JE, Ley RE, Lozupone CA, McDonald D, Muegge BD, Pirrung M, Reeder J, Sevinsky JR, Turnbaough PJ, Walters WA, Widmann J, Yatsunenko T, Zaneveld J, Knight R (2010) QIIME allows analysis of high-throughput community sequencing data. Nat Methods 7:335–336. https://doi.org/10.1038/nmeth0510-335 CrossRefPubMedPubMedCentralGoogle Scholar
- Chen YX, Zhou T, Penttinen P, Zou L, Wang K, Cui YQ, Heng NN, Xu KW (2015) Symbiotic matching, taxonomic position, and field assessment of symbiotically efficient rhizobia isolated from soybean root nodules in Sichuan, China. Biol Fertil Soils 51:707–718. https://doi.org/10.1007/s00374-015-1019-y CrossRefGoogle Scholar
- Cote CK, Heffron JD, Bozue JA, Welkos SL (2015) Bacillus anthracis and other Bacillus species. In: Tang Y-W, Sussman M, Liu D, Poxton I, Schwartzman J (eds) Molecular medical microbiology, 2nd edn. Academic Press, London, pp 1789–1844Google Scholar
- DeSantis TZ, Hugenholtz P, Larsen N, Rojas M, Brodie EL, Keller K, Huber T, Dalevi D, Hu P, Anderson GL (2006) Greengenes, a chimera-checked 16S rRNA gene database and workbench compatible with ARB. Appl Environ Microbiol 72:5069–5072. https://doi.org/10.1128/AEM.03006-05 CrossRefPubMedPubMedCentralGoogle Scholar
- Díaz-Zorita M, Canigia MVF, Bravo OÁ, Berger A, Satorre EH (2015) Field evaluation of extensive crops inoculated with Azospirillum sp. In: Cassán FB, Okon Y, Creus CM (eds) Handbook for Azospirillum: technical issues and protocols. Springer, Cham, pp 435–445Google Scholar
- EPPO (2012a) Principles of efficacy evaluation for microbial plant protection products. EPPO Bulletin. http://pp1.eppo.org/list.php. Accessed 6 November 2017
- EPPO (2012b) Introduction to the efficacy evaluation of plant protection products. EPPO Bulletin. http://pp1.eppo.org/list.php. Accessed 6 November 2017
- EPPO (2012c) Number of efficacy trials. EPPO Bulletin. http://pp1.eppo.org/list.php.
- Etesami H, Alikhani HA, Hosseini HM (2015) Indole-3-acetic acid and 1-aminocyclopropane-1-carboxylate deaminase: bacterial traits required in rhizosphere, rhizoplane and/or endophytic competence by beneficial bacteria. In: Maheshwari DK (ed) Bacterial metabolites in sustainable agroecosystem. Springer, Cham, pp 183–258CrossRefGoogle Scholar
- Figueiredo GGO, Lopes VR, Fendrich RC, Szilagyi-Zecchin VJ (2017) Interaction between beneficial bacteria and sugarcane. In: Singh DP, Singh HB, Prabha R (eds) Plant-microbe interactions in agro-ecological perspectives. Springer Nature, Singapore, pp 1–28Google Scholar
- Higa T, Parr JF (1994) Beneficial and effective microorganisms for a sustainable agriculture and environment. Int Nat Farming Res Cent 1:1–16Google Scholar
- Jog R, Nareshkumar G, Rajkumar S (2016) Enhancing soil health and plant growth promotion by actinomycetes. In: Subramaniam G, Arumugam S, Rajendran V (eds) Plant growth promoting actinobacteria: a new avenue for enhancing the productivity and soil fertility of grain legumes. Springer, Singapore, pp 33–45CrossRefGoogle Scholar
- Kõljalg U, Larsson KH, Abarenkov K, Nilsson RH, Alexander IJ, Eberhardt U, Erland S, Høiland K, Kjøller R, Larsson E, Pennanen T, Sen R, Taylor AFS, Tedersoo L, Vrålstad BUM (2005) UNITE: a database providing web-based methods for the molecular identification of ectomycorrhizal fungi. New Phytol 166:1063–1068. https://doi.org/10.1111/j.1469-8137.2005.01376.x CrossRefPubMedGoogle Scholar
- König H, Fröhlich J (2009) Lactic acid bacteria. In: König H, Gottfried U, Fröhlich J (eds) Biology of microorganisms on grapes, in must and in wine, 2nd edn. Springer International Publishing, Cham, pp 3–42Google Scholar
- Lucy M, Reed E, Glick BR (2004) Applications of free living plant growth-promoting rhizobacteria. Anton Leeuw Int J G 86:1–25. https://doi.org/10.1023/B:ANTO.0000024903.10757.6e CrossRefGoogle Scholar
- Mendes R, Pizzirani-Kleiner AA, Araujo WL, Raaijmakers JM (2007) Diversity of cultivated endophytic bacteria from sugarcane: genetic and biochemical characterization of Burkholderia cepacia complex isolates. Appl Environ Microbiol 73:7259–7267. https://doi.org/10.1128/AEM.01222-07 CrossRefPubMedPubMedCentralGoogle Scholar
- Naveed M, Mitter B, Yousaf S, Pastar M, Afzal M, Sessitsch A (2014) The endophyte Enterobacter sp. FD17: a maize growth enhancer selected based on rigorous testing of plant beneficial traits and colonization characteristics. Biol Fertil Soils 50:249–262. https://doi.org/10.1007/s00374-013-0854-y CrossRefGoogle Scholar
- Nielsen UN, Wall DH, Six J (2015) Soil biodiversity and the environment. Annu Rev Environ Resour 40:63–90. https://doi.org/10.1146/annurev-environ-102014-021257 CrossRefGoogle Scholar
- Nutri-Tech Solutions (2017) Nutri-life platform: new and improved blend. Nutri-Tech. https://shop.nutri-tech.com.au/products/platform. Accessed 6 November 2017
- Paungfoo-Lonhienne C, Lonhienne TGA, Yeoh YK, Donose BC, Webb RI, Parsons J, Liao W, Sagulenko E, Lakshmanan P, Hugenholtz P, Schmidt S, Ragan MA (2016) Crosstalk between sugarcane and a plant-growth promoting Burkholderia species. Sci Rep 6:1–14. https://doi.org/10.1038/srep37389 CrossRefGoogle Scholar
- Pii Y, Mimmo T, Tomasi N, Terzano R, Cesco S, Crecchio C (2015) Microbial interactions in the rhizosphere: beneficial influences of plant growth-promoting rhizobacteria on nutrient acquisition process. A review. Biol Fertil Soils:403–415. https://doi.org/10.1007/s00374-015-0996-1 CrossRefGoogle Scholar
- R Core Team (2013) R: a language and environment for statistical computing. R Foundation for Statistical Computing, Vienna, Austria. URL http://www.-R-project.org/Google Scholar
- Research and Markets (2017) Global agricultural microbial market—forecasts from 2017 to 2022. Research and Markets. https://www.researchandmarkets.com/research/w9mfnj/global/. Accessed 6 November 2017
- Saharan BS, Nehra V (2011) Plant growth promoting rhizobacteria : a critical review. Life Sci Med Res 1–30Google Scholar
- Singh RK, Singh P, Li HB, Yang LT, Li YR (2017) Soil–plant–microbe interactions: use of nitrogen-fixing bacteria for plant growth and development in sugarcane. In: Singh DP, Singh HB, Prabha R (eds) Plant-microbe interactions in agro-ecological perspectives. Springer Nature, Singapore, pp 35–59CrossRefGoogle Scholar
- Steenhoudt O, Vandereyden J (2000) Azospirillum, a free-living nitrogen fixing bacterium closely associated with grasses: genetic, biochemical and ecological aspects. FEMS Microbiol Rev 24:487–506. https://doi.org/10.1111/j.1574-6976.2000.tb00552.x CrossRefPubMedGoogle Scholar
- Thokchom E, Thakuria D, Kalita MC, Sharma CK, Talukdar NC (2017) Root colonization by host-specific rhizobacteria alters indigenous root endophyte and rhizosphere soil bacterial communities and promotes the growth of mandarin orange. Eur J Soil Biol 79:48–56. https://doi.org/10.1016/j.ejsobi.2017.02.003 CrossRefGoogle Scholar
- Valverde A, Burgos A, Fiscella T, Rivas R, Velazquez E, Rodriguez-Barrueco C, Cervantes E, Chamber M, Igual JM (2006) Differential effects of coinoculations with Pseudomonas jessenii PS06 (a phosphate-solubilizing bacterium) and Mesorhizobium ciceri C-2/2 strains on the growth and seed yield of chickpea under greenhouse and field conditions. In: Velazquez E, Rodriguez-Barrueco C (eds) First international meeting on microbial phosphate solubilization. Springer, Dordrecht, pp 43–50Google Scholar
- Yeoh YK, Dennis PG, Paungfoo-Lonhienne C, Weber L, Brackin R, Ragan MA, Schmidt S, Hugenholtz P (2017) Evolutionary conservation of a core root microbiome across plant phyla along a tropical soil chronosequence. Nat Commun 8:215. https://doi.org/10.1038/s41467-017-00262-8 CrossRefPubMedPubMedCentralGoogle Scholar
- Zhang Y, Burris RH, Ludden PW, Roberts GP (1997) Regulation of nitrogen fixation in Azospirillum brasilense. FEMS Microbiol Lett 152:195–204. https://doi.org/10.1111/j.1574-6968.1997.tb10428.x CrossRefPubMedGoogle Scholar