1 Paungfoo-Lonhienne, C. et al. Nitrogen fertilizer dose alters fungal communities in sugarcane soil and rhizosphere. Sci. Rep. 5, 8678 (2015).
2 Qasim, S., Shakir, K. & Al-Shaibani, A. Isolation, screening and production of phytate degrading enzyme (phytase) from local fungi isolate. Iraqi Journal of Agricultural Science 47, 121-128 (2016).
3 Gamez, R. et al. Screening, plant growth promotion and root colonization pattern of two rhizobacteria (Pseudomonas fluorescens Ps006 and Bacillus amyloliquefaciens Bs006) on banana cv. Williams (Musa acuminata Colla). Microbiol. Res. 220, 12-20 (2019).
4 Chenniappan, C. et al. Biocontrol efficiency of native plant growth promoting rhizobacteria against rhizome rot disease of turmeric. Biol. Control 129, 55-64 (2019).
5 La Torre-Ruiz, D. et al. Effect of plant growth-promoting bacteria on the growth and fructan production of Agave americana L. Braz. J. Microbiol. 47, 587-596 (2016).
6 Naseem, H., Ahsan, M., Shahid, M. A. & Khan, N. Exopolysaccharides producing rhizobacteria and their role in plant growth and drought tolerance. J. Basic Microbiol. 58, 1009-1022 (2018).
7 Ghosh, D., Gupta, A. & Mohapatra, S. A comparative analysis of exopolysaccharide and phytohormone secretions by four drought-tolerant rhizobacterial strains and their impact on osmotic-stress mitigation in Arabidopsis thaliana. World Journal of Microbiology and Biotechnology 35, 90 (2019).
8 Chung, E. J. et al. Bacillus oryzicola sp. nov., an endophytic bacterium isolated from the roots of rice with antimicrobial, plant growth promoting, and systemic resistance inducing activities in rice. The Plant Pathology Journal 31, 152 (2015).
9 Olanrewaju, O. S., Glick, B. R. & Babalola, O. O. Mechanisms of action of plant growth promoting bacteria. World Journal of Microbiology and Biotechnology 33, 197 (2017).
10 Compant, S., Duffy, B., Nowak, J., Clément, C. & Barka, E. A. Use of plant growth-promoting bacteria for biocontrol of plant diseases: principles, mechanisms of action, and future prospects. Appl. Environ. Microbiol. 71, 4951-4959 (2005).
11 Rosenblueth, M. & Martínez-Romero, E. Bacterial endophytes and their interactions with hosts. Mol. Plant-Microbe Interact. 19, 827-837 (2006).
12 WINE, C. M. G. I. Enhancement of the fertilizer value of rock phosphate engineered through phosphate-solubilizing bacteria. Ecol. Eng. 15, 27-39 (2000).
13 Vandenkoornhuyse, P., Quaiser, A., Duhamel, M., Le Van, A. & Dufresne, A. The importance of the microbiome of the plant holobiont. New Phytol. 206, 1196-1206 (2015).
14 Bakhshandeh, E., Rahimian, H., Pirdashti, H. & Nematzadeh, G. A. Phosphate solubilization potential and modeling of stress tolerance of rhizobacteria from rice paddy soil in northern Iran. World Journal of Microbiology and Biotechnology 30, 2437-2447 (2014).
15 Lee, B., Lee, S. & Ryu, C.-M. Foliar aphid feeding recruits rhizosphere bacteria and primes plant immunity against pathogenic and non-pathogenic bacteria in pepper. Ann. Bot. 110, 281-290 (2012).
16 Ortolani, M. B., Viçosa, G. N., Beloti, V. & Nero, L. A. Screening and enumeration of lactic acid bacteria in milk using three different culture media in Petrifilm™ Aerobic Count plates and conventional pour plate methodology. J. Dairy Res. 74, 387-391 (2007).
17 Yang, R., Fan, X., Cai, X. & Hu, F. The inhibitory mechanisms by mixtures of two endophytic bacterial strains isolated from Ginkgo biloba against pepper phytophthora blight. Biol. Control 85, 59-67 (2015).
18 Amplify, B.-S. P. P. T. Design and Evaluation of Useful. Appl. Environ. Microbiol 64, 795 (1998).
19 Glick, B. R. The enhancement of plant growth by free-living bacteria. Can. J. Microbiol. 41, 109-117 (1995).
20 Gordon, S. A. & Weber, R. P. Colorimetric estimation of indoleacetic acid. Plant Physiol. 26, 192 (1951).
21 Ghosh, S. & Basu, P. Production and metabolism of indole acetic acid in roots and root nodules of Phaseolus mungo. Microbiol. Res. 161, 362-366 (2006).
22 Georgieva, T., Evstatieva, Y., Savov, V., Bratkova, S. & Nikolova, D. Assessment of plant growth promoting activities of five rhizospheric Pseudomonas strains. Biocatalysis and Agricultural Biotechnology 16, 285-292 (2018).
23 Murphy, J. & Riley, J. P. A modified single solution method for the determination of phosphate in natural waters. Anal. Chim. Acta 27, 31-36 (1962).
24 Freeman, D., Falkiner, F. & Keane, C. New method for detecting slime production by coagulase negative staphylococci. J. Clin. Pathol. 42, 872-874 (1989).
25 Kaiser, T. D. L. et al. Modification of the Congo red agar method to detect biofilm production by Staphylococcus epidermidis. Diagn. Microbiol. Infect. Dis. 75, 235-239 (2013).
26 Mathur, T. et al. Detection of biofilm formation among the clinical isolates of staphylococci: an evaluation of three different screening methods. Indian J. Med. Microbiol. 24, 25 (2006).
27 Christensen, G. D. et al. Adherence of coagulase-negative staphylococci to plastic tissue culture plates: a quantitative model for the adherence of staphylococci to medical devices. J. Clin. Microbiol. 22, 996-1006 (1985).
28 Stepanović, S. et al. Quantification of biofilm in microtiter plates: overview of testing conditions and practical recommendations for assessment of biofilm production by staphylococci. APMIS 115, 891-899 (2007).
29 Cappuccino, J. & Sherman, N. Ammonia production. Microbiology: A Laboratory Manual, 3rd ed.; Benjamin/Cummings Pub Co.: Redwood City, CA, USA, 125-179 (1992).
30 Abd El-Rahman, A. & Shaheen, H. A. Biological control of the brown rot of potato, Ralstonia solanacearum and effect of bacterization with antagonists on promotion of potato growth. Egyptian J Biol Pest Control 26, 733-739 (2016).
31 Murashige, T. & Skoog, F. A revised medium for rapid growth and bio assays with tobacco tissue cultures. Physiol. Plant. 15, 473-497 (1962).
32 Ma, Y., Prasad, M., Rajkumar, M. & Freitas, H. Plant growth promoting rhizobacteria and endophytes accelerate phytoremediation of metalliferous soils. Biotechnol. Adv. 29, 248-258 (2011).
33 Liu, H. et al. Inner plant values: diversity, colonization and benefits from endophytic bacteria. Frontiers in Microbiology 8, 2552 (2017).
34 Bouizgarne, B. in Bacteria in agrobiology: disease management 15-47 (Springer, 2013).
35 Zinniel, D. K. et al. Isolation and characterization of endophytic colonizing bacteria from agronomic crops and prairie plants. Appl. Environ. Microbiol. 68, 2198-2208 (2002).
36 Hyder, S. et al. Characterization of native plant growth promoting rhizobacteria and their anti-oomycete potential against Phytophthora capsici affecting chilli pepper (Capsicum annum L.). Sci. Rep. 10, 1-15 (2020).
37 Swain, M. & Ray, R. Biocontrol and other beneficial activities of Bacillus subtilis isolated from cowdung microflora. Microbiol. Res. 164, 121-130 (2009).
38 Etesami, H. & Alikhani, H. A. Evaluation of gram-positive rhizosphere and endophytic bacteria for biological control of fungal rice (Oryzia sativa L.) pathogens. Eur. J. Plant Pathol. 147, 7-14 (2017).
39 Zhalnina, K. et al. Dynamic root exudate chemistry and microbial substrate preferences drive patterns in rhizosphere microbial community assembly. Nature Microbiology 3, 470-480 (2018).
40 Dinesh, R. et al. Isolation, characterization, and evaluation of multi-trait plant growth promoting rhizobacteria for their growth promoting and disease suppressing effects on ginger. Microbiol. Res. 173, 34-43 (2015).
41 Özyilmaz, Ü. & Benlioglu, K. Enhanced biological control of phytophthora blight of pepper by biosurfactant-producing Pseudomonas. The plant Pathology Journal 29, 418 (2013).
42 Kim, S. G., Jang, Y., Kim, H. Y., Koh, Y. J. & Kim, Y. H. Comparison of microbial fungicides in antagonistic activities related to the biological control of phytophthora blight in chili pepper caused by Phytophthora capsici. Plant Pathol J 26, 340-345 (2010).
43 Yang, M.-M. et al. Screening potential bacterial biocontrol agents towards Phytophthora capsici in pepper. Eur. J. Plant Pathol. 134, 811-820 (2012).
44 Syed-Ab-Rahman, S. F. et al. Identification of soil bacterial isolates suppressing different Phytophthora spp. and promoting plant growth. Frontiers in Plant Science 9, 1502 (2018).
45 Adibi, A., Rees, E. R., McCarley, S., Sica, V. P. & Oberlies, N. H. Characterization and isolation of peptide metabolites of an antifungal bacterial isolate identified as Bacillus amyloliquefaciens subspecies plantarum strain FZB42. Journal of Microbiology, Biotechnology and Food Sciences 9, 1309-1313 (2020).
46 Kour, D. et al. in Plant Growth Promoting Rhizobacteria for Agricultural Sustainability 19-65Kour D. et al. (2019) Rhizospheric Microbiomes: Biodiversity, Mechanisms of Plant Growth Promotion, and Biotechnological Applications for Sustainable Agriculture. In: Kumar A., Meena V. (eds) Plant Growth Promoting Rhizobacteria for Agricultural Sustainability. Springer, Singapore. (Springer, 2019).
47 Vessey, J. Plant growth promoting rhizobacteria as biofertilizer. Plant Soil 255, 571-586, doi:10.1023/A:1026037216893 (2003).
48 Syed-Ab-Rahman, S. F. et al. Soil bacterial diffusible and volatile organic compounds inhibit Phytophthora capsici and promote plant growth. Sci. Total Environ. 692, 267-280 (2019).
49 Pain, R., Duggan, P. & Adams, D. in 10th international symposium on phototrophic prokaryotes, Barcelona, Spain. 147.
50 Qin, H. & Huang, R. Auxin controlled by ethylene steers root development. International Journal of Molecular Sciences 19, 3656 (2018).
51 Mohite, B. Isolation and characterization of indole acetic acid (IAA) producing bacteria from rhizospheric soil and its effect on plant growth. Journal of Soil Science and Plant Nutrition 13, 638-649 (2013).
52 ALKahtani, M. D. et al. Isolation and characterization of plant growth promoting endophytic bacteria from desert plants and their application as bioinoculants for sustainable agriculture. Agronomy 10, 1325 (2020).
53 Khamna, S., Yokota, A., Peberdy, J. F. & Lumyong, S. Indole-3-acetic acid production by Streptomyces sp. isolated from some Thai medicinal plant rhizosphere soils. EurAsian Journal of BioSciences 4, 23-32 (2010).
54 Datta, C. & Basu, P. Indole acetic acid production by a Rhizobium species from root nodules of a leguminous shrub, Cajanus cajan. Microbiol. Res. 155, 123-127 (2000).
55 Wahyudi, A. T., Astuti, R. P., Widyawati, A., Mery, A. & Nawangsih, A. A. Characterization of Bacillus sp. strains isolated from rhizosphere of soybean plants for their use as potential plant growth for promoting rhizobacteria. Journal of Microbiology and Antimicrobials 3, 34-40 (2011).
56 Apine, O. & Jadhav, J. Optimization of medium for indole‐3‐acetic acid production using Pantoea agglomerans strain PVM. J. Appl. Microbiol. 110, 1235-1244 (2011).
57 Goswami, D., Dhandhukia, P., Patel, P. & Thakker, J. N. Screening of PGPR from saline desert of Kutch: growth promotion in Arachis hypogea by Bacillus licheniformis A2. Microbiol. Res. 169, 66-75 (2014).
58 Abd El-Azeem, S., Mehana, T. & Shabayek, A. in African Crop Sci. Conf. Proceed. 1517-1525.
59 Elias, F., Woyessa, D. & Muleta, D. Phosphate solubilization potential of rhizosphere fungi isolated from plants in Jimma Zone, Southwest Ethiopia. International Journal of Microbiology 2016, 11 (2016).
60 Aliyat, F. Z., Maldani, M., El Guilli, M., Nassiri, L. & Ibijbijen, J. Isolation and Characterization of Phosphate Solubilizing Bacteria from Phosphate Solid Sludge of the Moroccan Phosphate Minessolati. The Open Agriculture Journal 14, 16-24 (2020).
61 Batool, S. & Iqbal, A. Phosphate solubilizing rhizobacteria as alternative of chemical fertilizer for growth and yield of Triticum aestivum (Var. Galaxy 2013). Saudi J. Biol. Sci. 26, 1400-1410 (2019).
62 Marschner, P., Crowley, D. & Rengel, Z. Rhizosphere interactions between microorganisms and plants govern iron and phosphorus acquisition along the root axis–model and research methods. Soil Biol. Biochem. 43, 883-894 (2011).
63 Susilowati, L., Kusumo, B. & Arifin, Z. in Journal Of Physics: Conference Series. 055082 (IOP Publishing).
64 Flemming, H.-C. & Wingender, J. The biofilm matrix. Nature reviews microbiology 8, 623-633 (2010).
65 Backer, R. et al. Plant growth-promoting rhizobacteria: context, mechanisms of action, and roadmap to commercialization of biostimulants for sustainable agriculture. Frontiers in plant science 9, 1473 (2018).
66 Haque, M. M. et al. Biofilm Producing Rhizobacteria With Multiple Plant Growth-Promoting Traits Promote Growth of Tomato Under Water-Deficit Stress. Frontiers in Microbiology 11 (2020).
67 Marques, A. P., Pires, C., Moreira, H., Rangel, A. O. & Castro, P. M. Assessment of the plant growth promotion abilities of six bacterial isolates using Zea mays as indicator plant. Soil Biol. Biochem. 42, 1229-1235 (2010).
68 Mukherjee, A., Singh, B. & Verma, J. P. Harnessing chickpea (Cicer arietinum L.) seed endophytes for enhancing plant growth attributes and bio-controlling against Fusarium sp. Microbiol. Res. 237, 126469 (2020).
69 Sagar, A. Comparative Analysis of Production of Hydrogen Cyanide (HCN) with Production of Siderophore (SD) and Phosphate Solubilization (PS) Activity in Plant Growth Promoting Bacteria (PGPB). Vegetos 31, 130-135 (2018).
70 Cheng, Z., McConkey, B. J. & Glick, B. R. Proteomic studies of plant–bacterial interactions. Soil Biol. Biochem. 42, 1673-1684 (2010).
71 Hardoim, P. R., van Overbeek, L. S. & van Elsas, J. D. Properties of bacterial endophytes and their proposed role in plant growth. Trends Microbiol. 16, 463-471 (2008).
72 Saharan, B. & Nehra, V. Plant growth promoting rhizobacteria: a critical review. Life Sci Med Res 21, 30 (2011).
73 Wenke, K., Kai, M. & Piechulla, B. Belowground volatiles facilitate interactions between plant roots and soil organisms. Planta 231, 499-506 (2010).