Characterization and crop production efficiency of diazotrophic bacterial isolates from coastal saline soils

Microbiological Research

Volumn 167, Issue 2, 2012, Pages 95-102

  Barua, Shilajit ^a   Tripathi, Sudipta ^a   Chakraborty, Ashis ^b   Ghosh, Sagarmoy ^a   Chakrabarti, Kalyan ^a  

^a UNIVERSITY OF CALCUTTA   (India)

^b BIDHAN CHANDRA KRISHI VISWAVIDYALAYA   (India)

Author keywords

Coastal soil; Diazotrophs; Lady's finger; Phylogenetic analysis; Rice

Indexed keywords

COASTAL SOILS; DIAZOTROPHS; LADY'S FINGER; PHYLOGENETIC ANALYSIS; RICE;

ACETIC ACID; BACTERIOLOGY; CROPS; CULTIVATION; FERTILIZERS; GENES; PRODUCTIVITY;

SOILS;

BACTERIAL DNA; NITROGENASE REDUCTASE; OXIDOREDUCTASE; RIBOSOME DNA; RNA 16S;

ALTERNATIVE AGRICULTURE; BACTERIUM; BIOCHEMICAL COMPOSITION; BIOFERTILIZER; CHEMICAL COMPOUND; CLIMBING PLANT; CROP PRODUCTION; CROP YIELD; FIELD SURVEY; MOLECULAR ANALYSIS; PHENOTYPE; PHYLOGENETICS; RICE; SALINE SOIL; SALINITY TOLERANCE; SOIL AMENDMENT; SOIL FERTILITY;

ARTICLE; BACILLUS; BACTERIUM IDENTIFICATION; CHEMISTRY; CLASSIFICATION; CLUSTER ANALYSIS; CROP; DNA SEQUENCE; GENETICS; GROWTH, DEVELOPMENT AND AGING; INDIA; ISOLATION AND PURIFICATION; METABOLISM; MICROBIOLOGY; MOLECULAR GENETICS; NITROGEN FIXATION; NUCLEOTIDE SEQUENCE; PHYLOGENY; RHIZOBIUM; SEDIMENT;

AGROBACTERIUM; BACILLUS; BACTERIAL TYPING TECHNIQUES; CLUSTER ANALYSIS; CROPS, AGRICULTURAL; DNA, BACTERIAL; DNA, RIBOSOMAL; GEOLOGIC SEDIMENTS; INDIA; MOLECULAR SEQUENCE DATA; NITROGEN FIXATION; OXIDOREDUCTASES; PHYLOGENY; RNA, RIBOSOMAL, 16S; SEQUENCE ANALYSIS, DNA;

INDIA; SUNDARBANS; WEST BENGAL;

AGROBACTERIUM; BACILLUS (BACTERIUM); BACTERIA (MICROORGANISMS); RHIZOBIUM;

EID: 84855519183     PISSN: 09445013     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.micres.2011.04.001     Document Type: Article

References (58)

1. Alexander M. Introduction to soil microbiology 1977, Wiley Eastern Limited, New Delhi, p. 338-39. 2nd ed.
2. Allen O.N. Experiments in soil bacteriology 1957, Burgess Publishing Co., Minneapolis, p. 83-6.
3. Altschul S.F., Madden T.L., Schaffer A.A., Zhang J., Zhang Z., Miller W., et al. Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res 1997, 25:3389-3402.
4. Balandreau J. The spermosphere model to select for plant growth promoting rhizobacteria. Biofertilisers in action 2002, 55-63. Rural Industries Research and Development Corporation, Canberra. I.R. Kennedy, A.T.M.A. Choudhury (Eds.).
5. Barua S., Tripathi S., Ghosh A., Chakraborty A., Ghosh S., Chakrabarti K. Studies on non-symbiotic diazotrophic bacterial population of the saline soils of Sunderbans. J Pure Appl Microbiol 2008, 2(2):355-364.
6. Biswas J.C., Ladha J.K., Dazzo F.B. Rhizobia inoculation improves nutrient uptake and growth of lowland rice. Soil Sci Soc Am J 2000, 64:1644-1650.
7. Chavada N.B., Patel R., Vanpuria S., Raval B.P., Thakkar P.V. A study on isolated diazotrophic (non-symbiotics) bacteria from saline desert soil as a biofertilizer. Int J Pharm Appl Sci 2010, 1(1):52-54.
8. Chien Y.T., Zinder S.H. Cloning functional organization, transcript studies, and phylogenetic analysis of the complete nitrogenase structural genes (nifHDK2) and associated genes in the archaeon Methanosarcina barkeri 227. J Bacteriol 1996, 178:143-148.
9. Dey R., Pal K.K., Bhatt D.M., Chauhan S.M. Growth promotion and yield enhancement of peanut (Arachis hypogaea L.) by application of plant growth-promoting rhizobacteria. Microbiol Res 2004, 159:371-394.
10. Ding Y., Wang J., Liu Y., Chen S. Isolation and identification of nitrogen-fixing bacilli from plant rhizospheres in Beijing region. J Appl Microbiol 2005, 99:1271-1281.
11. Eardly B.D., Young J.P.W., Selander R.K. Phylogenetic position of Rhizobium sp. strain Or 191, a symbiont of both Medicago sativa and Phaseolus vulgaris, based on partial sequences of the 16S rRNA and nifH genes. Appl Environ Microbiol 1992, 58:1809-1815.
12. Felsenstein J. Confidence limits on phylogenies: an approach using the bootstrap. Evolution 1985, 39:783-791.
13. Fuentes-Ramirez L.E., Jimenez-Salgado T., Abarca-Ocampo I.R., Caballero-Mellado J. Acetobacter diazotrophicus, an indoleacetic acid producing bacterium isolated from sugarcane cultivars of Mexico. Plant Soil 1993, 154:145-150.
14. Ghosh A., Maity B., Chakrabarti K., Chattopadhyay D. Bacterial diversity of east Calcutta wet land area: possible identification of potential bacterial population for different biotechnological uses. Microb Ecol 2007, 54:452-459.
15. Gordon S.A., Weber R.P. Colorimetric estimation of indole acetic acid. Plant Physiol 1951, 26:192-195.
16. Haukka K., Lindström K., Young J.P.W. Three phylogenetic groups of nodA and nifH genes in Sinorhizobium and Mesorhizobium isolated from leguminous trees growing in Africa and Latin America. Appl Environ Microbiol 1998, 64:419-426.
17. Hennecke H., Kaluza K., Thony B., Fuhrmann M., Ludwig W., Stackebrandt E. Concurrent evolution of nitrogenase genes and 16S rRNA in Rhizobium species and other nitrogen-fixing bacteria. Arch Microbiol 1985, 142:342-348.
18. Herman M.A.B., Nault B.A., Smart C.D. Effects of plant growth-promoting rhizobacteria on bell pepper production and green peach aphid infestations in New York. Crop Protect 2008, 27:996-1002.
19. Holtz J.D. Bergey's manual of determinative bacteriology 1993, Williams and Wilkins, Baltimore. 9th ed.
20. Hurek T., Egener T., Reinhold-Hurek B. Divergence in nitrogenases of Azoarcus spp., Proteobacteria of the β-subclass. J Bacteriol 1997, 179:4172-4178.
21. Jha B., Thakur M.C., Gontia I., Albrecht V., Stoffels M., Schmid M., et al. Isolation, partial identification and application of diazotrophic rhizobacteria from traditional Indian rice cultivars. Eur J Soil Biol 2009, 45:62-72.
22. John M.K. Calorimetric determination of phosphorus in soil and plant materials with ascorbic acid. Soil Sci 1970, 109:214-220.
23. Juma N.G., Tabatabai M.A. Effects of trace elements on phosphatase activity in soils. Soil Sci Soc Am J 1977, 41:343-346.
24. Kalra Y.P., Maynard D.G. Methods manual for forest soil and plant analysis. Information report NOR-X-319 1991, Forestry Canada, Northwest Region, Northeastern Forestry Centre.
25. Kanvinde L., Sastry G.R.K. Agrobacterium tumefaciens is a diazotrophic bacterium. Appl Environ Microbiol 1990, 56:2087-2092.
26. Kashyap S., Sharma S., Vasudevan P. Effect of native bioinoculants on vegetable crops grown on alkaline soil under field conditions. J New Seeds 2005, 7:75-90.
27. Kennedy I.R., Choudhury A.T.M.A., Kecskes M.L. Free-living bacterial diazotrophs in crop-farming systems: can their potential for plant growth promotion be better exploited?. Soil Biol Biochem 2004, 36:1229-1244.
28. Koonin E.V., Makarova K.S., Aravind L. Horizontal gene transfer in prokaryotes: quantification and classification. Annu Rev Microbiol 2001, 55:709-742.
29. Loganathan P., Nair S. Swaminathania salitolerans gen. nov., sp. nov., a salt-Tolerant nitrogen-fixing and phosphate-solubilizing bacterium from wild rice (Porteresia coarctata Tateoka). Int J Syst Evol Microbiol 2004, 54(1):199-204.
30. Minorsky P.V. On the inside. Plant Physiol 2008, 146:323-324.
31. Mirza M.S., Mehnaz S., Normand P., Prigent-Combaret C., Moënne-Loccoz Y., Bally R., et al. Molecular characterization and PCR detection of a nitrogen-fixing Pseudomonas strain promoting rice growth. Biol Fertil Soils 2006, 43:163-170.
32. Normand P., Bousquet J. Phylogeny of nitrogenase sequences in Frankia and other nitrogen-fixing microorganisms. J Mol Evol 1989, 29:436-447.
33. Ohkuma M., Noda S., Kudo T. Phylogenetic diversity of nitrogen fixation genes in the symbiotic microbial community in the gut of diverse termites. Appl Environ Microbiol 1999, 65:4926-4934.
34. Okon Y., Labandera-Gonzalez C.A. Agronomic applications of Azospirillum: an evaluation of 20 years worldwide field inoculation. Soil Biol Biochem 1994, 26:1591-1602.
35. Poly F., Ranjard L., Nazaret S., Gourbiere F., Monrozier L.J. Comparison of nifH gene pools in soils and soil microenvironments with contrasting properties. Appl Environ Microbiol 2001, 67:2255-2262.
36. Poly F., Jocteur Monrozier L., Bally R. Improvement in RFLP procedure to study the community of nitrogen fixers in soil through the diversity of nifH gene. Res Microbiol 2001, 152:95-103.
37. 2-reduction) in the rice rhizosphere soil as influenced by pesticides and methods of their application. J Agric Sci (UK) 1983, 100:637-642.
38. Ravikumar S., Kathiresan K., Ignatiammal S.T.M., Selvam M.B., Shanthy S. Nitrogen-fixing azotobacters from mangrove habitat and their utility as marine biofertilizers. J Exp Mar Biol Ecol 2004, 312:5-17.
39. Ravikumar S. Prospects of marine biofertilizers for saline soil crop cultivation. ENVIS CENTRE Newslett 2008;6(June (2)). http://www.envismadrasuniv.org/nl200082%20articles%20saline.html.
40. Reis V.M.P., Estrada-de los Santos S., Tenorio-Salgado J., Vogel M., Stoffels S., Guyon P., et al. Burkholderia tropica sp. nov., a novel nitrogen-fixing, plant-associated bacterium. Int J Syst Evol Microbiol 2004, 54:2155-2162.
41. Rekha P.D., Lai W.A., Arun A.B., Young C.C. Effect of free and encapsulated Pseudomonas putida CC-FR2-4 and Bacillus subtilis CC-pgl04 on plant growth under gnotobiotic conditions. Bioresour Technol 2007, 98:447-451.
42. Shahab S., Ahmed N., Khan N.S. Indole acetic acid production and enhanced plant growth promotion by indigenous PSBs. Afr J Agric Res 2009, 4(11):1312-1316.
43. Saitou N., Nei M. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 1987, 4:406-425.
44. Sarwar M., Kremer R.J. Enhanced suppression of plant growth through production of l-tryptophan-derived compounds by deleterious rhizobacteria. Plant Soil 1995, 172:261-269.
45. Tabatabai M.A., Bremner J.M. Use of p-nitrophenol phosphate for assay of soil phosphatase activity. Soil Biol Biochem 1969, 1:301-307.
46. Tamura K., Dudley J., Nei M., Kumar S. MEGA 4: Molecular Evolutionary Genetics Analysis (MEGA) software version 4.0. Mol Biol Evol 2007, 24:1596-1599.
47. Tran Van V., Berge O., Ngo Ke S., Balanderau J., Heulin T. Repeated beneficial effects of rice inoculation with a strain of Burkholderia vietnamiensis on early and late yield component in low fertility sulphate acid soils of Vietnam. Plant Soil 2000, 218:273-284.
48. Tripathi S., Chakraborty A., Chakrabarti K., Bandyopadhyay B.K. Enzyme activities and microbial biomass in coastal soils of India. Soil Biol Biochem 2007, 39(11):2840-2848.
49. 2-fixing bacterial diversity detected in rice roots by molecular evolutionary analysis of nifH gene sequences. J Bacteriol 1995, 177:1414-1417.
50. Verma S.C., Ladha J.K., Tripathi A.K. Evaluation of plant growth promoting and colonization ability of entophytic diazotrophs from deep water rice. J Biotechnol 2001, 91:127-141.
51. Wani S.P. Role of biofertilizers in upland crop production. Fertilizers, organic manures, recyclable wastes and biofertlizers 1992, 91-112. Fertilizer Development and Consultation Organization, New Delhi. H.L.S. Tandan (Ed.).
52. Widmer R., Shaffer B.T., Porteous L.A., Seidler J. Analysis of nifH gene pool complexity in soil and litter at a Douglas fir forest site in the Oregon cascade mountain range. Appl Environ Microbiol 1999, 65:374-380.
53. Yanni Y.G., El-Fattah F.K.A. Towards integrated biofertilization management with free living and associative dinitrogen fixers for enhancing rice performance in the Nile delta. Symbiosis 1999, 27:319-331.
54. Yim W.J., Poonguzhali S., Madhaiyan M., Palaniappan P., Siddikee M.A., Sa T. Characterization of plant-growth promoting diazotrophic bacteria isolated from field grown Chinese cabbage under different fertilization conditions. J Microbiol 2009, 47:147-155.
55. Zahran H.H. Diversity adaptation and activity of the bacterial flora in saline environments. Biol Fertil Soil 1997, 25:211-223.
56. Zahran H.H. Rhizobium-legume symbiosis and nitrogen fixation under severe conditions and in an arid climate. Microbiol Mol Biol Rev 1999, 63:968-989.
57. Zehr J.P., Jenkins B.D., Short S.M., Steward G. Nitrogenase gene diversity and microbial community structure: a cross-system comparison. Environ Microbiol 2003, 5:539-554.
58. Zorita M.D., Canigia M.V.F. Field performance of a liquid formulation of Azospirillum brasilienses on dryland wheat productivity. Eur J Soil Biol 2009, 45:3-11.