Ambawade, MS and Pathade, GR (2015) Production of indole acetic acid (IAA) by Stenotrophomonas maltophilia BE25 isolated from roots of banana (Musa spp). International Journal of Science and Research 4, 2644–2650.
Bers, K, Sniegowski, K, Albers, P, Breugelmans, P, Hendrickx, L, De Mot, R and Springael, D (2011) A molecular toolbox to estimate the number and diversity of Variovorax in the environment: application in soils treated with the phenylurea herbicide linuron. FEMS Microbiology Ecology 76, 14–25.
Boon, N, Goris, J, De Vos, P, Verstraete, W and Top, EM (2001) Genetic diversity among 3-chloroaniline-and aniline-degrading strains of the comamonadaceae. Applied and Environmental Microbiology 67, 1107–1115.
Brooke, JS (2012) Stenotrophomonas maltophilia: an emerging global opportunistic pathogen. Clinical Microbiology Reviews 25, 2–41.
De Bruijn, FJ (1992) Use of repetitive (repetitive extragenic palindromic and enterobacterial repetitive intergeneric consensus) sequences and the polymerase chain reaction to fingerprint the genomes of Rhizobium meliloti isolates and other soil bacteria. Applied and Environmental Microbiology 58, 2180–2187.
De Oliveira, VM, Coutinho, HLC, Sobral, BWS, Guimaraes, CT, Van Elsas, JD and Manfio, GP (1999) Discrimination of Rhizobium tropici and R. leguminosarum strains by PCR-specific amplification of 16S–23S rDNA spacer region fragments and denaturing gradient gel electrophoresis (DGGE). Letters in Applied Microbiology 28, 137–141.
De Oliveira Costa, LE, de Queiroz, MV, Borges, AC, de Moraes, CA and de Araújo, EF (2012) Isolation and characterization of endophytic bacteria isolated from the leaves of the common bean (Phaseolus vulgaris). Brazilian Journal of Microbiology 43, 1562–1575.
Deshwal, VK, Pandey, P, Kang, SC and Maheshwari, DK (2003) Rhizobia as a biological control agent against soil borne plant pathogenic fungi. Indian Journal of Experimental Biology 41, 1160–1164.
Dice, LR (1945) Measures of the amount of ecologic association between species. Ecology 26, 297–302.
Frąc, M and Jezierska-Tys, S (2010) Różnorodność mikroorganizmów środowiska glebowego. Postępy Mikrobiologii 40, 47–58.
Gaiero, JR, McCall, CA, Thompson, KA, Day, NJ, Best, AS and Dunfield, KE (2013) Inside the root microbiome: bacterial root endophytes and plant growth promotion. American Journal of Botany 100, 1738–1750.
Gałązka, A, Gawryjołek, K, Grządziel, J, Frąc, M and Księżak, J (2017) Microbial community diversity and the interaction of soil under maize growth in different cultivation techniques. Plant Soil and Environment 63, 264–270.
Gao, J, Terefework, Z, Chen, W and Lindström, K (2001) Genetic diversity of rhizobia isolated from Astragalus adsurgens growing in different geographical regions of China. Journal of Biotechnology 91, 155–168.
Gnat, S, Małek, W, Oleńska, E, Trościańczyk, A, Wdowiak-Wróbel, S, Kalita, M and Wójcik, M (2015) Insight into the genomic diversity and relationship of Astragalus glycyphyllos symbionts by RAPD, ERIC-PCR, and AFLP fingerprinting. Journal of Applied Genetics 56, 551–554.
Grządziel, J and Gałązka, A (2018) Microplot long-term experiment reveals strong soil type influence on bacteria composition and its functional diversity. Applied Soil Ecology 124, 117–123.
Gupta, RM, Kale, PS, Rathi, ML and Jadhav, NN (2015) Isolation, characterization and identification of endophytic bacteria by 16S rRNA partial sequencing technique from roots and leaves of Prosopis cineraria plant. Asian Journal of Plant Science and Research 5, 36–43.
Han, JI, Choi, HK, Lee, SW, Orwin, PM, Kim, J, LaRoe, SL, Kim, TG, O'Neil, J, Leadbetter, JR, Lee, SY, Hur, CG, Spain, JC, Ovchinnikova, G, Goodwin, L and Han, C (2011) Complete genome sequence of the metabolically versatile plant growth-promoting endophyte Variovorax paradoxus S110. Journal of Bacteriology 193, 1183–1190.
Handelsman, J (2004) Metagenomics: application of genomics to uncultured microorganisms. Microbiology and Molecular Biology Reviews 68, 669–685.
Hollender, J, Dreyer, U, Kornberger, L, Kämpfer, P and Dott, W (2002) Selective enrichment and characterization of a phosphorus-removing bacterial consortium from activated sludge. Applied Microbiology and Biotechnology 58, 106–111.
James, DW, Suslow, TV and Steinback, KE (1985) Relationship between rapid, firm adhesion and long-term colonization of roots by bacteria. Applied and Environmental Microbiology 50, 392–397.
Jha, P and Kumar, A (2009) Characterization of novel plant growth promoting endophytic bacterium Achromobacter xylosoxidans from wheat plant. Microbial Ecology 58, 179–188.
Katara, J, Deshmukh, R, Singh, NK and Kaur, S (2012) Molecular typing of native Bacillus thuringiensis isolates from diverse habitats in India using REP-PCR and ERIC-PCR analysis. Journal of General and Applied Microbiology 58, 83–94.
Kawamura, I, Yagi, T, Hatakeyama, K, Hasegawa, Y, Ohkura, T, Ohkusu, K, Takahashi, Y and Kojima, S (2011) Recurrent vascular catheter-related bacteremia caused by Delftia acidovorans with different antimicrobial susceptibility profiles. Journal of Infection and Chemotherapy 17, 111–113.
Knief, C, Delmotte, N and Vorholt, JA (2011) Bacterial adaptation to life in association with plants–A proteomic perspective from culture to in situ conditions. Proteomics 11, 3086–3105.
Kumar, V and Gera, R (2014) Isolation of a multi-trait plant growth promoting Brevundimonas sp. and its effect on the growth of Bt-cotton. 3 Biotech 4, 97–101.
Kumar, A, Kumar, A and Pratush, A (2014) Molecular diversity and functional variability of environmental isolates of Bacillus species. SpringerPlus 3, 312.
Lane, DJ (1991) 16S/23S rRNA sequencing. In Stackebrandt, E and Goodfellow, M (eds), Nucleic Acid Techniques in Bacterial Systematics. New York, NY, USA: John Wiley & Sons, pp. 115–147.
Li, JH, Wang, ET, Chen, WF and Chen, WX (2008) Genetic diversity and potential for promotion of plant growth detected in nodule endophytic bacteria of soybean grown in Heilongjiang province of China. Soil Biology and Biochemistry 40, 238–246.
Liaqat, F and Eltem, R (2016) Identification and characterization of endophytic bacteria isolated from in vitro cultures of peach and pear rootstocks. 3 Biotech 6, 120.
Lin, CW, Chiou, CS, Chang, YC and Yang, TC (2008) Comparison of pulsed-field gel electrophoresis and three rep-PCR methods for evaluating the genetic relatedness of Stenotrophomonas maltophilia isolates. Letters in Applied Microbiology 47, 393–398.
Lodewyckx, C, Vangronsveld, J, Porteous, F, Moore, ER, Taghavi, S, Mezgeay, M and van der Lelie, D (2002) Endophytic bacteria and their potential applications. Critical Reviews in Plant Sciences 21, 583–606.
Miliute, I, Buzaite, O, Baniulis, D and Stanys, V (2015) Bacterial endophytes in agricultural crops and their role in stress tolerance: a review. Zemdirbyste (Agriculture) 102, 465–478.
Müller, RH, Jorks, S, Kleinsteuber, S and Babel, W (1999) Comamonas acidovorans strain MC1: a new isolate capable of degrading the chiral herbicides dichlorprop and mecoprop and the herbicides 2, 4-D and MCPA. Microbiological Research 154, 241–246.
Muyzer, G and Smalla, K (1998) Application of denaturing gradient gel electrophoresis (DGGE) and temperature gradient gel electrophoresis (TGGE) in microbial ecology. Antonie van Leeuwenhoek 73, 127–141.
Myers, RM, Maniatis, T and Lerman, LS (1987) Detection and localization of single base changes by denaturing gradient gel electrophoresis. Methods in Enzymology 155, 501–527.
Nakatsu, CH, Torsvik, V and Øvreås, L (2000) Soil community analysis using DGGE of 16S rDNA polymerase chain reaction products. Soil Science Society of America Journal 64, 1382–1388.
Narayan, KD, Pandey, SK and Das, SK (2010) Characterization of Comamonas thiooxidans sp. nov., and comparison of thiosulfate oxidation with Comamonas testosteroni and Comamonas composti. Current Microbiology 61, 248–253.
Niu, B, Paulson, JN, Zheng, X and R K (2017) Simplified and representative bacterial community of maize roots. Proceedings of the National Academy of Sciences USA 114, E2450–E2459.
Ogutcu, H, Adiguzel, A, Gulluce, M, Karadayi, M and Sahin, F (2009) Molecular characterization of Rhizobium strains isolated from wild chickpeas collected from high altitudes in Erzurum-Turkey. Romanian Biotechnological Letters 14, 4294–4300.
Otsu, Y, Matsuda, Y, Shimizu, H, Ueki, H, Mori, H, Fujiwara, K, Nakajima, T, Miwa, A, Nonomura, T, Sakuratani, Y, Tosa, Y, Mayama, S and Toyoda, H (2003) Biological control of phytophagous ladybird beetles Epilachna vigintioctopunctata (Col., Coccinellidae) by chitinolytic phylloplane bacteria Alcaligenes paradoxus entrapped in alginate beads. Journal of Applied Entomology 127, 441–446.
Puławska, J, Willems, A, De Meyer, SE and Süle, S (2012) Rhizobium nepotum sp. nov. isolated from tumors on different plant species. Systematic and Applied Microbiology 35, 215–220.
Robinson, RJ, Fraaije, BA, Clark, IM, Jackson, RW, Hirsch, PR and Mauchline, TH (2016) Endophytic bacterial community composition in wheat (Triticum aestivum) is determined by plant tissue type, developmental stage and soil nutrient availability. Plant and Soil 405, 381–396.
Santoyo, G, Moreno-Hagelsieb, G, del Carmen Orozco-Mosqueda, M and Glick, BR (2016) Plant growth-promoting bacterial endophytes. Microbiological Research 183, 92–99.
Senthilkumar, M, Anandham, R, Madhaiyan, M, Venkateswaran, V and Sa, T (2011) Endophytic bacteria: perspectives and applications in agricultural crop production. In Maheshwari, DK (ed.), Bacteria in Agrobiology: Crop Ecosystems. Berlin, Germany: Springer, pp. 61–96.
Sun, L, Qiu, F, Zhang, X, Dai, X, Dong, X and Song, W (2008) Endophytic bacterial diversity in rice (Oryza sativa L.) roots estimated by 16S rDNA sequence analysis. Microbial Ecology 55, 415–424.
Szilagyi-Zecchin, VJ, Ikeda, AC, Hungria, M, Adamoski, D, Kava-Cordeiro, V, Glienke, C and Galli-Terasawa, LV (2014) Identification and characterization of endophytic bacteria from corn (Zea mays L.) roots with biotechnological potential in agriculture. AMB Express 4, 26.
Versalovic, J, Schneider, M, De Bruijn, FJ and Lupski, JR (1994) Genomic fingerprinting of bacteria using repetitive sequence-based polymerase chain reaction. Methods in Molecular and Cellular Biology 5, 25–40.
Wilson, D (1995) Endophyte: the evolution of a term, and clarification of its use and definition. Oikos 73, 274–276.