Real-Time PCR Quantification of the Plant Growth Promoting Bacteria Herbaspirillum seropedicae Strain SmR1 in Maize Roots
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- 作者：Tomás Pellizzaro Pereira (1)
Fernanda Plucani do Amaral (1)
Pamela Dall’Asta (1)
Fábio Cristiano Angonesi Brod (1)
Ana Carolina Maisonnave Arisi (1) - 关键词：Herbaspirillum ; Plant–bacteria interaction ; Corn ; Maize ; qPCR ; Diazotroph
- 刊名：Molecular Biotechnology
- 出版年：2014
- 出版时间：July 2014
- 年：2014
- 卷：56
- 期：7
- 页码：660-670
- 全文大小：376 KB
- 参考文献：1. Andersen, C. B., Holst-Jensen, A., Berdal, K. G., Thorstensen, T., & Tengs, T. (2006). Equal performance of TaqMan, MGB, molecular beacon, and SYBR green-based detection assays in detection and quantification of roundup ready soybean. / Journal of Agricultural and Food Chemistry, / 54(26), 9658-663. doi:10.1021/jf061987c . doi.org/10.1021/jf061987c" target="_blank" title="It opens in new window">CrossRef
2. Bal, H. B., Nayak, L., Das, S., & Adhya, T. K. (2013). Isolation of ACC deaminase producing PGPR from rice rhizosphere and evaluating their plant growth promoting activity under salt stress. / Plant and Soil, / 366(1-), 93-05. doi:10.1007/s11104-012-1402-5 . doi.org/10.1007/s11104-012-1402-5" target="_blank" title="It opens in new window">CrossRef
3. Baldani, J., Baldani, V., Seldin, L., & Dobereiner, J. (1986). Characterization of / Herbaspirillum seropedicae Gen-Nov, Sp-Nov, a root-associated nitrogen-fixing bacterium. / International Journal of Systematic Bacteriology, / 36(1), 86-3. doi.org/10.1099/00207713-36-1-86" target="_blank" title="It opens in new window">CrossRef
4. Baldani, J. I., Pot, B., Kirchhof, G., Falsen, E., Baldani, V. L. D., Olivares, F. L., et al. (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. / International Journal of Systematic Bacteriology, / 46(3), 802-10. doi.org/10.1099/00207713-46-3-802" target="_blank" title="It opens in new window">CrossRef
5. Balsanelli, E., Serrato, R. V., de Baura, V. A., Sassaki, G., Yates, M. G., Rigo, L. U., et al. (2010). / Herbaspirillum seropedicae rfbB and rfbC genes are required for maize colonization. / Environmental Microbiology, / 12(8), 2233-244. doi:10.1111/j.1462-2920.2010.02187.x .
6. Bastian, F., Cohen, A., Piccoli, P., Luna, V., Baraldi, R., & Bottini, R. (1998). Production of indole-3-acetic acid and gibberellins A(1) and A(3) by / Acetobacter diazotrophicus and / Herbaspirillum seropedicae in chemically defined culture media. / Plant Growth Regulation, / 24(1), 7-1. doi:10.1023/A:1005964031159 . doi.org/10.1023/A:1005964031159" target="_blank" title="It opens in new window">CrossRef
7. Baudoin, E., Couillerot, O., Spaepen, S., Moenne-Loccoz, Y., & Nazaret, S. (2010). Applicability of the 16S-23S rDNA internal spacer for PCR detection of the phytostimulatory PGPR inoculant / Azospirillum lipoferum CRT1 in field soil. / Journal of Applied Microbiology, / 108(1), 25-8. doi:10.1111/j.1365-2672.2009.04393.x . doi.org/10.1111/j.1365-2672.2009.04393.x" target="_blank" title="It opens in new window">CrossRef
8. Brusamarello-Santos, L. C. C., Pacheco, F., Aljanabi, S. M. M., Monteiro, R. A., Cruz, L. M., Baura, V. A., et al. (2012). Differential gene expression of rice roots inoculated with the diazotroph / Herbaspirillum seropedicae. / Plant and Soil, / 356(1-), 113-25. doi:10.1007/s11104-011-1044-z . doi.org/10.1007/s11104-011-1044-z" target="_blank" title="It opens in new window">CrossRef
9. Cankar, K., Stebih, D., Dreo, T., Zel, J., & Gruden, K. (2006). Critical points of DNA quantification by real-time PCR: Effects of DNA extraction method and sample matrix on quantification of genetically modified organisms. / BMC Biotechnology, / 6, 37. doi:10.1186/1472-6750-6-37 . doi.org/10.1186/1472-6750-6-37" target="_blank" title="It opens in new window">CrossRef
10. Chubatsu, L. S., Monteiro, R. A., de Souza, E. M., Schuler de Oliveira, M. A., Yates, M. G., Wassem, R., et al. (2012). Nitrogen fixation control in / Herbaspirillum seropedicae. / Plant and Soil, / 356(1-), 197-07. doi:10.1007/s11104-011-0819-6 . doi.org/10.1007/s11104-011-0819-6" target="_blank" title="It opens in new window">CrossRef
11. Costa, J., Mafra, I., Kuchta, T., & Oliveira, M. B. P. P. (2012). Single-tube nested real-time PCR as a new highly sensitive approach to trace hazelnut. / Journal of Agricultural and Food Chemistry, / 60(33), 8103-110. doi:10.1021/jf302898z . doi.org/10.1021/jf302898z" target="_blank" title="It opens in new window">CrossRef
12. Couillerot, O., Bouffaud, M.-L., Baudoin, E., Muller, D., Caballero-Mellado, J., & Moenne-Loccoz, Y. (2010). Development of a real-time PCR method to quantify the PGPR strain / Azospirillum lipoferum CRT1 on maize seedlings. / Soil Biology & Biochemistry, / 42(12), 2298-305. doi:10.1016/j.soilbio.2010.09.003 . doi.org/10.1016/j.soilbio.2010.09.003" target="_blank" title="It opens in new window">CrossRef
13. de Souza, R., Beneduzi, A., Ambrosini, A., da Costa, P. B., Meyer, J., Vargas, L. K., et al. (2013). The effect of plant growth-promoting rhizobacteria on the growth of rice ( / Oryza sativa L.) cropped in southern Brazilian fields. / Plant and Soil, / 366(1-), 585-03. doi:10.1007/s11104-012-1430-1 . doi.org/10.1007/s11104-012-1430-1" target="_blank" title="It opens in new window">CrossRef
14. Dinon, A., Prins, T., van Dijk, J., Arisi, A., Scholtens, I., & Kok, E. (2011). Development and validation of real-time PCR screening methods for detection of cry1A.105 and cry2Ab2 genes in genetically modified organisms. / Analytical and Bioanalytical Chemistry, / 400(5), 1433-442. doi:10.1007/s00216-011-4875-9 . doi.org/10.1007/s00216-011-4875-9" target="_blank" title="It opens in new window">CrossRef
15. Egener, T., Hurek, T., & Reinhold-Hurek, B. (1999). Endophytic expression of nif genes of / Azoarcus sp strain BH72 in rice roots. / Molecular Plant–Microbe Interactions, / 12(9), 813-19. doi:10.1094/mpmi.1999.12.9.813 . doi.org/10.1094/MPMI.1999.12.9.813" target="_blank" title="It opens in new window">CrossRef
16. Elbeltagy, A., Nishioka, K., Sato, T., Suzuki, H., Ye, B., Hamada, T., et al. (2001). Endophytic colonization and in planta nitrogen fixation by a / Herbaspirillum sp. isolated from wild rice species. / Applied and Environment Microbiology, / 67(11), 5285-293. doi:10.1128/AEM.67.11.5285- . 5293.2001. doi.org/10.1128/AEM.67.11.5285-5293.2001" target="_blank" title="It opens in new window">CrossRef
17. Faleiro, A., Pereira, T., Espindula, E., Brod, F., & Arisi, A. (2013). Real time PCR detection targeting nifA gene of plant growth promoting bacteria / Azospirillum brasilense strain FP2 in maize roots. / Symbiosis, / 61(3), 125-33. doi:10.1007/s13199-013-0262-y . doi.org/10.1007/s13199-013-0262-y" target="_blank" title="It opens in new window">CrossRef
18. Fan, B., Chen, X. H., Budiharjo, A., Bleiss, W., Vater, J., & Borriss, R. (2011). Efficient colonization of plant roots by the plant growth promoting bacterium / Bacillus amyloliquefaciens FZB42, engineered to express green fluorescent protein. / Journal of Biotechnology, / 151(4), 303-11. doi:10.1016/j.jbiotec.2010.12.022 . doi.org/10.1016/j.jbiotec.2010.12.022" target="_blank" title="It opens in new window">CrossRef
19. Gaut, B. S., d’Ennequin, M. L., Peek, A. S., & Sawkins, M. C. (2000). Maize as a model for the evolution of plant nuclear genomes. / Proceedings of the National Academy of Sciences of the United States of America, / 97(13), 7008-015. doi:10.1073/pnas.97.13.7008 . doi.org/10.1073/pnas.97.13.7008" target="_blank" title="It opens in new window">CrossRef
20. Gyaneshwar, P., James, E. K., Reddy, P. M., & Ladha, J. K. (2002). Herbaspirillum colonization increases growth and nitrogen accumulation in aluminium-tolerant rice varieties. / New Phytologist, / 154(1), 131-45. doi:10.1046/j.1469-8137.2002.00371.x . doi.org/10.1046/j.1469-8137.2002.00371.x" target="_blank" title="It opens in new window">CrossRef
21. James, E. K., Gyaneshwar, P., Mathan, N., Barraquio, Q. L., Reddy, P. M., Iannetta, P. P. M., et al. (2002). Infection and colonization of rice seedlings by the plant growth-promoting bacterium / Herbaspirillum seropedicae Z67. / Molecular Plant–Microbe Interactions, / 15(9), 894-06. doi:10.1094/mpmi.2002.15.9.894 . doi.org/10.1094/MPMI.2002.15.9.894" target="_blank" title="It opens in new window">CrossRef
22. James, E. K., & Olivares, F. L. (1998). Infection and colonization of sugar cane and other graminaceous plants by endophytic diazotrophs. / Critical Reviews in Plant Sciences, / 17(1), 77-19. doi:10.1016/s0735-2689(98)00357-8 . doi.org/10.1016/S0735-2689(98)00357-8" target="_blank" title="It opens in new window">CrossRef
23. James, E. K., Olivares, F. L., Baldani, J. I., & Dobereiner, J. (1997). Herbaspirillum, an endophytic diazotroph colonizing vascular tissue in leaves of / Sorghum bicolor L Moench. / Journal of Experimental Botany, / 48(308), 785-97. doi:10.1093/jxb/48.3.785 . doi.org/10.1093/jxb/48.3.785" target="_blank" title="It opens in new window">CrossRef
24. Kang, M., Kim, M., Hwang, D., Cho, M., Seol, Y., Hahn, J., et al. (2012). Quantitative in planta PCR assay for specific detection of / Xanthomonas oryzae pv. / oryzicola using putative membrane protein based primer set. / Crop Protection, / 40, 22-7. doi:10.1016/j.cropro.2012.04.014 . doi.org/10.1016/j.cropro.2012.04.014" target="_blank" title="It opens in new window">CrossRef
25. Klassen, G., Pedrosa, F. O., Souza, E. M., Funayama, S., & Rigo, L. U. (1997). Effect of nitrogen compounds on nitrogenase activity in / Herbaspirillum seropedicae SMR1. / Canadian Journal of Microbiology, / 43(9), 887-91. doi.org/10.1139/m97-129" target="_blank" title="It opens in new window">CrossRef
26. Liu, F. C., Xing, S. J., Ma, H. L., Du, Z. Y., & Ma, B. Y. (2013). Plant growth-promoting rhizobacteria affect the growth and nutrient uptake of / Fraxinus americana container seedlings. / Applied Microbiology and Biotechnology, / 97(10), 4617-625. doi:10.1007/s00253-012-4255-1 . doi.org/10.1007/s00253-012-4255-1" target="_blank" title="It opens in new window">CrossRef
27. Monteiro, R. A., Balsanelli, E., Tuleski, T., Faoro, H., Cruz, L. M., Wassem, R., et al. (2012). Genomic comparison of the endophyte / Herbaspirillum seropedicae SmR1 and the phytopathogen / Herbaspirillum rubrisubalbicans M1 by suppressive subtractive hybridization and partial genome sequencing. / FEMS Microbiology Ecology, / 80(2), 441-51. doi:10.1111/j.1574-6941.2012.01309.x . doi.org/10.1111/j.1574-6941.2012.01309.x" target="_blank" title="It opens in new window">CrossRef
28. Monteiro, R. A., Balsanelli, E., Wassem, R., Marin, A. M., Brusamarello-Santos, L. C. C., Schmidt, M. A., et al. (2012). Herbaspirillum-plant interactions: microscopical, histological and molecular aspects. / Plant and Soil, / 356(1-), 175-96. doi:10.1007/s11104-012-1125-7 . doi.org/10.1007/s11104-012-1125-7" target="_blank" title="It opens in new window">CrossRef
29. Monteiro, R. A., Schmidt, M. A., de Baura, V. A., Balsanelli, E., Wassem, R., Yates, M. G., et al. (2008). Early colonization pattern of maize ( / Zea mays L. Poales, Poaceae) roots by / Herbaspirillum seropedicae (Burkholderiales, Oxalobacteraceae). / Genetics and Molecular Biology, / 31(4), 932-37. doi:10.1590/s1415-47572008005000007 . doi.org/10.1590/S1415-47572008005000007" target="_blank" title="It opens in new window">CrossRef
30. Pedrosa, F. O., Monteiro, R. A., Wassem, R., Cruz, L. M., Ayub, R. A., Colauto, N. B., et al. (2011). Genome of / Herbaspirillum seropedicae strain SmR1, a specialized diazotrophic endophyte of tropical grasses. / Plos Genetics, / 7(5), e1002064. doi:10.1371/journal.pgen.1002064 . doi.org/10.1371/journal.pgen.1002064" target="_blank" title="It opens in new window">CrossRef
31. Raj, M., Jeeva, M. L., Hegde, V., Vidyadharan, P., Archana, P. V., Senthil alias Sankar, M., et al. (2012). Polymerase chain reaction assay for rapid, sensitive detection, and identification of / Colletotrichum gloeosporioides causing greater yam anthracnose. / Molecular Biotechnology, / 52(3), 277-84. doi:10.1007/s12033-012-9496-9 . doi.org/10.1007/s12033-012-9496-9" target="_blank" title="It opens in new window">CrossRef
32. Rashid, S., Charles, T. C., & Glick, B. R. (2012). Isolation and characterization of new plant growth-promoting bacterial endophytes. / Applied Soil Ecology, / 61, 217-24. doi:10.1016/j.apsoi1.2011.09.011 . doi.org/10.1016/j.apsoil.2011.09.011" target="_blank" title="It opens in new window">CrossRef
33. Rodriguez-Salazar, J., Suarez, R., Caballero-Mellado, J., & Iturriaga, G. (2009). Trehalose accumulation in / Azospirillum brasilense improves drought tolerance and biomass in maize plants. / FEMS Microbiology Letters, / 296(1), 52-9. doi:10.1111/j.1574-6968.2009.01614.x . doi.org/10.1111/j.1574-6968.2009.01614.x" target="_blank" title="It opens in new window">CrossRef
34. Roncato-Maccari, L. D. B., Ramos, H. J. O., Pedrosa, F. O., Alquini, Y., Chubatsu, L. S., Yates, M. G., et al. (2003). Endophytic / Herbaspirillum seropedicae expresses nif genes in gramineous plants. / FEMS Microbiology Ecology, / 45(1), 39-7. doi:10.1016/s0168-6496(03)00108-9 . doi.org/10.1016/S0168-6496(03)00108-9" target="_blank" title="It opens in new window">CrossRef
35. Roncato-Maccari, L. D. B., Ramos, H. J. O., Pedrosa, F. O., Alquini, Y., Chubatsu, L. S., Yates, M. G., et al. (2003). Root colonization, systemic spreading and contribution of / Herbaspirillum seropedicae to growth of rice seedling. / Symbiosis, / 35(1-), 261-70.
36. Ruppel, S., Ruhlmann, J., & Merbach, W. (2006). Quantification and localization of bacteria in plant tissues using quantitative real-time PCR and online emission fingerprinting. / Plant and Soil, / 286(1-), 21-5. doi:10.1007/s11104-006-9023-5 . doi.org/10.1007/s11104-006-9023-5" target="_blank" title="It opens in new window">CrossRef
37. Schmidt, M., Souza, E., Baura, V., Wassem, R., Yates, M., Pedrosa, F., et al. (2011). Evidence for the endophytic colonization of / Phaseolus vulgaris (common bean) roots by the diazotroph / Herbaspirillum seropedicae. / Brazilian Journal of Medical and Biological Research, / 44(3), 182-85. doi:10.1590/S0100-879X2011007500004 . doi.org/10.1590/S0100-879X2011007500004" target="_blank" title="It opens in new window">CrossRef
38. Schnable, P. S. (2012). The B73 maize genome: Complexity, diversity, and dynamics (November, pg 1112, 2009). / Science, / 337(6098), 1040. doi.org/10.1126/science.1221820" target="_blank" title="It opens in new window">CrossRef
39. Shime-Hattori, A., Kobayashi, S., Ikeda, S., Asano, R., Shime, H., & Shinano, T. (2011). A rapid and simple PCR method for identifying isolates of the genus / Azospirillum within populations of rhizosphere bacteria. / Journal of Applied Microbiology, / 111(4), 915-24. doi:10.1111/j.1365-2672.2011.05115.x . doi.org/10.1111/j.1365-2672.2011.05115.x" target="_blank" title="It opens in new window">CrossRef
40. Stets, M. I., Pinto, A. S, Jr, Huergo, L. F., de Souza, E. M., Guimaraes, V. F., Alves, A. C., et al. (2013). Rapid identification of bacterial isolates from wheat roots by high resolution whole cell MALDI-TOF MS analysis. / Journal of Biotechnology, / 165(3-), 167-74. doi:10.1016/j.jbiotec.2013.04.001 . doi.org/10.1016/j.jbiotec.2013.04.001" target="_blank" title="It opens in new window">CrossRef
41. Su’udi, M., Kim, J., Park, J.-M., Bae, S.-C., Kim, D., Kim, Y.-H., et al. (2013). Quantification of rice blast disease progressions through Taqman real-time PCR. / Molecular Biotechnology, / 55(1), 43-8. doi:10.1007/s12033-012-9632-6 . doi.org/10.1007/s12033-012-9632-6" target="_blank" title="It opens in new window">CrossRef
42. Taule, C., Mareque, C., Barlocco, C., Hackembruch, F., Reis, V. M., Sicardi, M., et al. (2012). The contribution of nitrogen fixation to sugarcane ( / Saccharum officinarum L.), and the identification and characterization of part of the associated diazotrophic bacterial community. / Plant and Soil, / 356(1-), 35-9. doi:10.1007/s11104-011-1023-4 . doi.org/10.1007/s11104-011-1023-4" target="_blank" title="It opens in new window">CrossRef
43. Timmusk, S., Paalme, V., Lagercrantz, U., & Nevo, E. (2009). Detection and quantification of / Paenibacillus polymyxa in the rhizosphere of wild barley ( / Hordeum spontaneum) with real-time PCR. / Journal of Applied Microbiology, / 107(3), 736-45. doi:10.1111/j.1365-2672.2009.04265.x . doi.org/10.1111/j.1365-2672.2009.04265.x" target="_blank" title="It opens in new window">CrossRef
44. Verma, S. C., Ladha, J. K., & Tripathi, A. K. (2001). Evaluation of plant growth promoting and colonization ability of endophytic diazotrophs from deep water rice. / Journal of Biotechnology, / 91(2-), 127-41. doi:10.1016/s0168-1656(01)00333-9 . doi.org/10.1016/S0168-1656(01)00333-9" target="_blank" title="It opens in new window">CrossRef
45. Videira, S. S., de Oliveira, D. M., de Morais, R. F., Borges, W. L., Divan Baldani, V. L., & Baldani, J. I. (2012). Genetic diversity and plant growth promoting traits of diazotrophic bacteria isolated from two / Pennisetum purpureum Schum. genotypes grown in the field. / Plant and Soil, / 356(1-), 51-6. doi:10.1007/s11104-011-1082-6 . doi.org/10.1007/s11104-011-1082-6" target="_blank" title="It opens in new window">CrossRef
46. Zhang, T., & Fang, H. H. (2006). Applications of real-time polymerase chain reaction for quantification of microorganisms in environmental samples. / Applied Microbiology and Biotechnology, / 70(3), 281-89. doi:10.1007/s00253-006-0333-6 . doi.org/10.1007/s00253-006-0333-6" target="_blank" title="It opens in new window">CrossRef - 作者单位：Tomás Pellizzaro Pereira (1)
Fernanda Plucani do Amaral (1)
Pamela Dall’Asta (1)
Fábio Cristiano Angonesi Brod (1)
Ana Carolina Maisonnave Arisi (1)
1. Departamento de Ciência e Tecnologia de Alimentos, Centro de Ciências Agrárias, Universidade Federal de Santa Catarina, Rod. Admar Gonzaga, 1346, Florianópolis, SC, 88034-001, Brazil - ISSN：1559-0305
文摘
The plant growth promoting bacteria Herbaspirillum seropedicae SmR1 is an endophytic diazotroph found in several economically important crops. Considering that methods to monitor the plant–bacteria interaction are required, our objective was to develop a real-time PCR method for quantification of PGPB H. seropedicae in the rhizosphere of maize seedlings. Primer pairs were designed, and their specificity was verified using DNA from 12 different bacterial species. Ten standard curves of qPCR assay using HERBAS1 primers and tenfold serial dilutions of H. seropedicae SmR1 DNA were performed, and PCR efficiency of 91?% and correlation coefficient of 0.99 were obtained. H. seropedicae SmR1 limit of detection was 101 copies (corresponding to 60.3?fg of bacterial DNA). qPCR assay using HERBAS1 was used to detect and quantify H. seropedicae strain SmR1 in inoculated maize roots, cultivated in vitro and in pots, harvested 1, 4, 7, and 10?days after inoculation. The estimated bacterial DNA copy number per gram of root was in the range 107-09 for plants grown in vitro and it was around 106 for plants grown in pots. Primer pair HERBAS1 was able to quantify H.?seropedicae SmR1, and this assay can be useful for monitoring plant–bacteria interaction.