Isolation, abundance and phylogenetic affiliation of endophytic actinomycetes associated with medicinal plants and screening for their in vitro antimicrobial biosynthetic potential

Frontiers in Microbiology

Volumn 6, Issue APR, 2015, Pages

  Passari, Ajit K ^a   Mishra, Vineet K ^a   Saikia, Ratul ^b   Gupta, Vijai K ^c   Singh, Bhim P ^a  

^a MIZORAM UNIVERSITY   (India)

^b CSIR NORTH EAST INSTITUTE OF SCIENCE AND TECHNOLOGY   (India)

^c NATIONAL UNIVERSITY OF IRELAND   (Ireland)

Author keywords

16S rRNA gene; Antibiotic sensitivity; Endophytic actinomycetes; Non ribosomal peptide synthetase (NRPS); Polyketide synthase (PKS I)

Indexed keywords

AMPICILLIN; CHLORAMPHENICOL; ERYTHROMYCIN; GENTAMICIN; NALIDIXIC ACID; NORFLOXACIN; PENICILLIN G; POLYKETIDE SYNTHASE; STREPTOMYCIN; TETRACYCLINE; VANCOMYCIN;

ACTINOBACTERIA; ANTIBIOTIC SENSITIVITY; ANTIMICROBIAL ACTIVITY; ARTICLE; BACTERIUM IDENTIFICATION; BIOSYNTHESIS; BREVIBACTERIUM; CLERODENDRUM; ENDOPHYTIC ACTINOMYCETE; GENE AMPLIFICATION; GENE SEQUENCE; MEDICINAL PLANT; MICROBACTERIUM; MIRABILIS; NONHUMAN; NUCLEOTIDE SEQUENCE; PHYLOGENETIC TREE; PHYLOGENY; POLYMERASE CHAIN REACTION; SCANNING ELECTRON MICROSCOPY; SEQUENCE ALIGNMENT; STREPTOMYCES;

ACTINOBACTERIA (CLASS); BACTERIA (MICROORGANISMS); BREVIBACTERIUM; BREVIBACTERIUM SP.; CLERODENDRUM COLEBROOKIANUM; LEIFSONIA; LEIFSONIA XYLI; MICROBACTERIUM; MICROBACTERIUM SP.; MIRABILIS JALAPA; STREPTOMYCES;

EID: 84930940562     PISSN: None     EISSN: 1664302X     Source Type: Journal    
DOI: 10.3389/fmicb.2015.00273     Document Type: Article

References (52)

1. Akintobi, O. A., Agunbiade, S. O., Okonko, I. O., and Ojo, O. V. (2011). Antimicrobial evaluation and phytochemical analysis of leaf extracts of Mirabilis jalapa against some human pathogenic bacteria. Nat. Sci. 9, 45-53.
2. Ayuso-Sacido, A., and Genilloud, O. (2005). New PCR primers for the screening of NRPS and PKS-I systems in actinomycetes: detection and distribution of these biosynthetic gene sequences in major taxonomic groups. Microb. Ecol. 49, 10-24. doi: 10.1007/s00248-004-0249-6.
3. Baltz, R. H. (2006). Is our antibiotic pipeline unproductive because of starvation, constipation or lack of inspiration? J. Ind. Microbiol. Biotechnol. 33, 507-513. doi: 10.1007/s10295-005-0077-9.
4. Bergey, D. H., and Holt, J. G. (2000). Bergey's Manual of Determinative Bacteriology, 9th Edn. Philadelphia, PA: Lippincott Williams and Wilkins.
5. Cao, L., Qiu, Z., You, J., Tan, H., and Zhou, S. (2005). Isolation and characterization of endophytic streptomycete antagonistics of Fusarium wilt pathogen from surface-sterilized banana roots. FEMS Microbiol. Lett. 247, 147-152. doi: 10.1016/j.femsle.2005.05.006.
6. Cao, L. X., Qiu, Z. Q., You, J. L., Tan, H. M., and Zhou, S. (2004). Isolation and characterization of endophytic Streptomyces antagonists of Fusarium wilt pathogen from surface sterilized banana roots. FEMS Microbiol. Lett. 247, 147-152. doi: 10.1016/j.femsle.2005.05.006.
7. Castillo, U. F., Browne, L., Strobel, G., Hess, W. M., Ezra, S., Pacheco, G., et al. (2007). Biologically active endophytic Streptomycetes from Nothofagus spp. and other plants in Patagonia. Microb. Ecol. 53, 12-19. doi: 10.1007/s00248-006-9129-6.
8. Coombs, J. T., and Franco, C. M. M. (2003). Isolation and identification of actinobacteria from surface sterilized wheat roots. Appl. Environ. Microbiol. 69, 5603-5608. doi: 10.1128/AEM.69.9.5603-5608.2003.
9. Cui, X. L., Mao, P. H., Zeng, M., Li, W. J., Zhang, L. P., Xu, L. H., et al. (2001). Streptomonospora gen. nov., a new member of the family Nocardiopsaceae. Int. J. Syst. Evol. Microbiol. 51, 357-363. doi: 10.1099/00207713-51-2-357.
10. Davison, J. (1999). Genetic exchange between bacteria in the environment. Plasmid 42, 73-91. doi: 10.1006/plas.1999.1421.
11. Faeth, S. H., and Hammon, K. E. (1997). Fungal endophytes in oak tree; long term pattern of abundance and association with leaf miners. Ecology 78, 810-819. doi: 10.1890/0012-9658(1997)078[0810:FEIOTL]2.0.CO;2.
12. Felsenstein, J. (1985). Confidence limits of phylogenies: an approach using the bootstrap. Evol. 39, 783-791. doi: 10.2307/2408678.
13. Fiedler, H. P., Bruntner, C., Riedlinger, J., Bull, A. T., Knutsen, G., Goodfellow, M., et al. (2008). Proximicin A, B and C, novel aminofuran antibiotic and anticancer compounds isolated from marine strains of the actinomycete Verrucosispora. J. Antibiot. 61, 158-163. doi: 10.1038/ja.2008.125.
14. Finking, R., and Marahiel, M. A. (2004). Biosynthesis of nonribosomal peptides. Annu. Rev. Microbiol. 58, 453-488. doi: 10.1146/annurev.micro.58.030603.123615.
15. Goodfellow, M., and Haynes, J. A. (1984). "Actinomycetes in marine sediments," in Biological, Biochemical, and Biomedical Aspects of Actinomycetes, eds L. Ortiz-Ortiz, L. F. Bojalil, and V. Yakoleff (New York, NY: Academic Press), 453-472.
16. Gousterova, A., Paskaleva, D., and Vasileva-Tonkova, E. (2014). Characterization of culturable thermophilic actinobacteria from Livingston Island, Antarctica. Inter Res. J. Bio. Sci. 3, 30-36.
17. Hornung, A., Bertazzo, M., Dziarnowski, A., Schneider, K., and Welzel, K. (2007). A genomic screening approach to the structure-guided identification of drug candidates from natural sources. Chem. Bio. Chem. 8, 757-766. doi: 10.1002/cbic.200600375.
18. Hou, B. C., Wang, E. T., Li, Y., Jia, R. Z., Chen, W. F., Man, C. X., et al. (2009). Rhizobial resource associated with epidemic legumes in Tibet. Microb. Ecol. 57, 69-81. doi: 10.1007/s00248-008-9397-4.
19. Khachatourians, G. G. (1998). Agricultural use of antibiotics and the evolution and transfer of antibiotic-resistant bacteria. Can. Med. Assoc. J. 159, 1129-1136.
20. Kim, T. U., Cho, S. H., Han, J. H., Shin, Y. M., Lee, H. B., and Kim, S. B. (2012). Diversity and physiological properties of root endophytic actinobacteria in native herbaceous plants of Korea. J. Microbiol. 50, 50-57. doi: 10.1007/s12275-012-1417-x.
21. Lam, K. S. (2006). Discovery of novel metabolites from marine actinomycetes. Curr. Opin. Microbiol. 9, 245-251. doi: 10.1016/j.mib.2006.03.004.
22. Li, J., Zhao, G. Z., Chen, H. H., Wang, H. B., Qin, S., Zhu, W. Y., et al. (2008). Antitumour and antimicrobial activities of endophytic streptomycetes from pharmaceutical plants in rainforest. Lett. Appl. Microbiol. 47, 574-580. doi: 10.1111/j.1472-765X.2008.02470.x.
23. Merckx, R., Dijkra, A., Hartog, A. D., and Veen, J. A. V. (1987). Production of root-derived material and associated microbial growth in soil at different nutrient levels. Biol. Fert. Soils 5, 126-132. doi: 10.1007/BF00257647.
24. Minowa, Y., Araki, M., and Kanehisa, M. (2007). Comprehensive analysis of distinctive polyketide and nonribosomal peptide structural motifs encoded in microbial genomes. J. Mol. Biol. 368, 1500-1617. doi: 10.1016/j.jmb.2007.02.099.
25. Nath, S. C., and Bordoloi, D. N. (1991). Clerodendron colebrookianum, a folk remedy for the treatment of hypertension in the North-eastern India. Indian J. Pharmacogn. 29, 127-129. doi: 10.3109/13880209109082863.
26. Nimnoi, P., Pongsilp, N., and Lumyong, S. (2010). Endophytic actinomycetes isolated from Aquilaria crassna Pierre ex Lec and screening of plant growth promoters production. World J. Microbiol. Biotechnol. 26, 193-203. doi: 10.1007/s11274-009-0159-3.
27. Pal, A., Chattopadhyay, A., and Paul, A. K. (2012). Diversity and antimicrobial spectrum of endophytic bacteria isolated from Paederia Foetida L. Int. J. Curr. Pharm. Res. 4, 123-127.
28. Qin, S., Chen, H. H., Zhao, G. Z., Li, J., Zhu, W. Y., Xu, L. H., et al. (2012). Abundant and diverse endophytic actinobacteria associated with medicinal plant Maytenus austroyunnanensis in Xishuangbanna tropical rainforest revealed by culture-dependent and culture-independent methods. Environ. Microbiol. Rep. 4, 522-531. doi: 10.1111/j.1758-2229.2012.00357.x.
29. Qin, S., Li, J., Chen, H. H., Zhao, G. Z., and Zhu, W. Y. (2009). Isolation, diversity and antimicrobial activity of rare actinobacteria from medicinal plants of tropical rain forests in Xishuangbanna, China. Appl. Environ. Microbiol. 75, 6176-6186. doi: 10.1128/AEM.01034-09.
30. Qin, S., Li, J., Zhao, G. Z., Chen, H. H., Xu, L. H., and Li, W. J. (2008). Saccharopolyspora endophytica sp. nov., an endophytic actinomycete isolated from the root of Maytenus austroyunnanensis. Syst. Appl. Microbiol. 31, 352-357. doi: 10.1016/j.syapm.2008.08.001.
31. Qiu, F., Huang, Y., Sun, L., Zhang, X., Liu, Z., and Song, W. (2007). Leifsonia ginsengi sp. nov., isolated from ginseng root. Int. J. Syst. Evol. Microbiol. 57, 405-408. doi: 10.1099/ijs.0.64487-0.
32. Rakotoniriana, E. F., Rafamantanana, M., Randriamampionona, D., Rabemanantsoa, C., Urveg-Ratsimamanga, S., El-Jaziri, M., et al. (2013). Study in vitro of the impact of endophytic bacteria isolated from Centella asiatica on the disease incidence caused by the hemibiotrophic fungus Colletotrichum higginsianum. Antonie Van Leeuwenhoek 103, 121-133. doi: 10.1007/s10482-012-9791-2.
33. Saadoun, I., and Muhana, A. (2008). Optimal production conditions, extraction, partial purification and characterization of inhibitory compound(s) produced by Streptomyces Ds-104 isolate against multi-drug resistant Candida albicans. Curr. Trends Biotechnol. Pharm. 2, 402-420.
34. Saitou, N., and Nei, M. (1987). The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol. Biol. Evol. 4, 406-425.
35. Sardi, P., Saracchi, M., Quaroni, S., Petrolini, B., Borgonovi, G. E., and Merli, S. (1992). Isolation of endophytic streptomyces strains from surface-sterilized roots. Appl. Environ. Microbiol. 58, 2691-2693.
36. Schulz, B., Wanke, U., Draeger, S., and Aust, H. J. (1993). Endophytes from herbaceous plants and shrubs: effectiveness of surface sterilization methods. Mycol. Res. 97, 1447-1450. doi: 10.1016/S0953-7562(09)80215-3.
37. Sharma, H. K., Chhangte, L., and Dolui, A. K. (2001). Traditional medicinal plants in Mizoram, India. Fitoterapia 72, 146-161. doi: 10.1016/S0367-326X(00)00278-1.
38. Sheil, D. (1999). Tropical forest diversity, environmental change and species augmentation: after the intermediate disturbance hypothesis. J. Veg. Sci. 10, 851-860. doi: 10.2307/3237310.
39. Shirling, E. B., and Gottlieb, D. (1966). Methods for characterization of Streptomyces species. Int. J. Syst. Bacteriol. 16, 313-340. doi: 10.1099/00207713-16-3-313.
40. Strobel, G. A., and Daisy, B. (2003). Bioprospecting for microbial endophytes and their natural products. Microbiol. Mol. Biol. Rev. 67, 491-502. doi: 10.1128/MMBR.67.4.491-502.2003.
41. Strobel, G. A., and Long, D. M. (1998). Endophytic microbes embody pharmaceutical potential. ASM News 64, 263-268.
42. Strobel, G. A., Miller, R. V., Martinez-Miller, C., Condron, M. M., Teplow, D. B., and Hess, W. M. (1999). Cryptocandin, a potent antimycotic from the endophytic fungus Cryptosporiopsis cf quercina. Microbiology 145, 1919-1926. doi: 10.1099/13500872-145-8-1919.
43. Strobel, G., Daisy, B., Castillo, U., and Harper, J. (2004). Natural products from endophytic microorganisms. J. Nat. Prod. 67, 257-268. doi: 10.1021/np030397v.
44. Taechowisan, T., and Lumyong, S. (2003). Activity of endophytic actinomycetes from roots of Zingiber officinale and Alpinia galena against phytopathogenic fungi. Ann. Microbiol. 53, 291-298.
45. Taechowisan, T., Peberdy, J. F., and Lumyong, S. (2003). Isolation of endophytic actinomycetes from selected plants and their antifungal activity. World J. Microbiol. Biotechnol. 19, 381-385. doi: 10.1023/A:1023901107182.
46. Tamura, K., Peterson, D., Peterson, N., Stecher, G., Nei, M., and Kumar, S. (2011). MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol. Biol. Evol. 28, 2731-2739. doi: 10.1093/molbev/msr121.
47. Tan, R. X., and Zou, W. X. (2001). Endophytes: a rich source of functional metabolites. Nat. Prod. Rep. 18, 448-459. doi: 10.1039/b100918o.
48. Thompson, J. D., Gibson, T. J., Plewniak, F., Jeanmougin, F., and Higgins, D. G. (1997). The Clustal X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res. 24, 4876-4882. doi: 10.1093/nar/25.24.4876.
49. Verma, V. C., Gond, S. K., Kumar, A., Mishra, A., Kharwar, R. N., and Gange, A. C. (2009). Endophytic actinomycetes from Azadirachta indica A. Juss.: isolation, diversity, and anti-microbial activity. Microb. Ecol. 57, 749-756. doi: 10.1007/s00248-008-9450-3.
50. Williams, S. T., Sharpe, M. E., and Holt, J. G. (1989). Bergey's Manual of Systematic Bacteriology, Vol. 4. Baltimore, MD: Williams and Wilkins.
51. Yu, H., Zhang, L., Li, L., Zheng, C., and Guo, L. (2010). Recent developments and future prospects of antimicrobial metabolites produced by endophytes. Microbiol. Res. 165, 437-449. doi: 10.1016/j.micres.2009.11.009.
52. Zhao, K., Penttinen, P., Xiao, T. G. J., Chen, Q., and Xu, J., (2011). The Diversity and antimicrobial activity of endophytic actinomycetes isolated from medicinal plants in Panxi Plateau, China. Curr. Microbiol. 62, 182-190. doi: 10.1007/s00284-010-9685-3.