Comparison of microbial diversity of edible flowers and basil grown with organic versus conventional methods

Canadian Journal of Microbiology

Volumn 56, Issue 11, 2010, Pages 943-951

  Wetzel, Kaedra ^a   Lee, Jiyoung ^a   Lee, Chang Soo ^a   Binkley, Margaret ^a  

^a OHIO STATE UNIVERSITY   (United States)

Author keywords

Basil; Edible flower; Microbial diversity; Organic and conventional growing

Indexed keywords

16S RRNA SEQUENCES; ACINETOBACTER CALCOACETICUS; AESTHETIC VALUE; BACILLUS AMYLOLIQUEFACIENS; BASELINE ASSESSMENT; BASIL; COMMONLY USED; CONVENTIONAL METHODS; DIVERSITY INDEX; DNA SEQUENCING; EDIBLE FLOWER; ENTEROBACTER; FIRMICUTES; FOOD SAFETY; FOOD SAMPLES; FOOD-BORNE ILLNESS; GAMMAPROTEOBACTERIA; MICROBIAL CONTAMINATION; MICROBIAL DIVERSITY; MICROBIAL FLORA; MICROFLORA; MOLECULAR DIVERSITY; ORGANIC AND CONVENTIONAL GROWING; PHYLOGENETIC ANALYSIS; POTENTIAL RISKS; PSEUDOMONAS AERUGINOSA; SALMONELLA ENTERICA; SPECIES RICHNESS; STATISTICAL ANALYSIS; STATISTICAL ESTIMATION;

BACTERIA; BACTERIOLOGY; HEALTH; RNA; STATISTICAL METHODS;

GENE ENCODING;

RIBOSOME RNA; RNA 16S;

ASSESSMENT METHOD; BACTERIUM; COMPARATIVE STUDY; DEVELOPMENTAL BIOLOGY; FLOWER; FUNCTIONAL MORPHOLOGY; GENETIC ANALYSIS; HERB; INDEX METHOD; MICROBIAL ACTIVITY; MOLECULAR ANALYSIS; PHYLOGENETICS; RISK FACTOR; SPECIES DIVERSITY; SPECIES RICHNESS; STATISTICAL ANALYSIS;

ACINETOBACTER CALCOACETICUS; ARTICLE; BACILLUS AMYLOLIQUEFACIENS; BACTERIUM ISOLATION; BASIL; CROP PRODUCTION; DNA SEQUENCE; ENTEROBACTER; ENTEROBACTER ASBURIAE; ENTEROBACTER COWANII; ENTEROBACTER HORMAECHEI; ENTEROBACTER LUDWIGII; FIRMICUTES; FLOWER; FOOD ORGANISM; FOOD POISONING; GAMMAPROTEOBACTERIA; INTERMETHOD COMPARISON; MICROBIAL DIVERSITY; MICROFLORA; NONHUMAN; PHYLOGENY; PLANT GROWTH; PRIORITY JOURNAL; PSEUDOMONAS AERUGINOSA; SALMONELLA ENTERICA;

BACTERIA; BIODIVERSITY; FLOWERS; FOOD MICROBIOLOGY; FOOD SAFETY; FOOD, ORGANIC; OCIMUM BASILICUM; PHYLOGENY;

ACINETOBACTER CALCOACETICUS; BACILLUS AMYLOLIQUEFACIENS; ENTEROBACTER ASBURIAE; ENTEROBACTER COWANII; ENTEROBACTER HORMAECHEI; ENTEROBACTER LUDWIGII; FIRMICUTES; GAMMAPROTEOBACTERIA; OCIMUM; PSEUDOMONAS AERUGINOSA; SALMONELLA ENTERICA;

EID: 78549291088     PISSN: 00084166     EISSN: 14803275     Source Type: Journal    
DOI: 10.1139/W10-082     Document Type: Article

References (36)

1. Ahn, J., and Balasubramaniam, V.M. 2007. Physiological responses of Bacillus amyloliquefaciens spores to high pressure. J. Microbiol. Biotechnol. 17(3): 524-529. PMID:18050959.
2. Beuchat, L. 2006. Vectors and conditions for preharvest contamination of fruits and vegetables with pathogens capable of causing enteric diseases. Br. Food J. 108(1): 38-53. doi:10.1108/00070700610637625.
3. Brackett, R. 1999. Incidence, contributing factors, and control of bacterial pathogens in produce. Postharvest Biol. Technol. 15(3): 305-311. doi:10.1016/S0925-5214(98)00096-9.
4. Brandl, M.T., and Mandrell, R.E. 2002. Fitness of Salmonella enterica serovar Thompson in the cilantro phyllosphere. Appl. Environ. Microbiol. 68(7): 3614-3621. doi:10.1128/AEM.68.7. 3614-3621.2002. PMID:12089050.
5. Cooley, M.B., Chao, D., and Mandrell, R.E. 2006. Escherichia coli O157:H7 survival and growth on lettuce is altered by the presence of epiphytic bacteria. J. Food Prot. 69(10): 2329-2335. PMID:17066909.
6. Corti, G., Mondanelli, N., Losco, M., Bartolini, L., Fontanelli, A., and Paradisi, F. 2009. Post-traumatic infection of the lower limb caused by rare Enterobacteriaceae and Mucorales in a young healthy male. Int. J. Infect. Dis. 13(2): e57-e60. doi:10.1016/j. ijid.2008.06.029. PMID:18945631.
7. Doyle, M.P., and Erickson, M.C. 2008. Summer meeting 2007 - the problems with fresh produce: an overview. J. Appl. Microbiol. 105(2): 317-330. doi:10.1111/j.1365-2672.2008.03746.x. PMID:18284485.
8. Edrington, T.S., Fox, W.E., Callaway, T.R., Anderson, R.C., Hoffman, D.W., and Nisbet, D.J. 2009. Pathogen prevalence and influence of composted dairy manure application on antimicrobial resistance profiles of commensal soil bacteria. food-borne Pathog. Dis. 6(2): 217-224. doi:10.1089/fpd.2008.0184. PMID: 19105635.
9. Elviss, N.C., Little, C.L., Hucklesby, L., Sagoo, S., Surman-Lee, S., de Pinna, E., and Threlfall, E.J.; Food, Water and Environmental Surveillance Network. 2009. Microbiological study of fresh herbs from retail premises uncovers an international out break of salmonellosis. Int. J. Food Microbiol. 134(1-2): 83-88. doi:10.1016/j.ijfoodmicro.2009.01.015. PMID:19237218.
10. Euzéby, J.P. 2009. List of prokaryotic names with standing in nomenclature [online]. Available from http://www.bacterio.cict.fr [accessed 14 September 2009].
11. Excoffier, L., Laval, G., and Schneider, S. 2005. Arlequin (version 3.0): an integrated software package for population genetics data analysis. Evol. Bioinform. Online, 1: 47-50. PMID:19325852.
12. Garazzino, S., Aprato, A., Maiello, A., Massé, A., Biasibetti, A., De Rosa, F.G., and Di Perri, G. 2005. Osteomyelitis caused by Enterobacter cancerogenus infection following a traumatic injury: case report and review of the literature. J. Clin. Microbiol. 43(3): 1459-1461. doi:10.1128/JCM.43.3.1459-1461.2005. PMID:15750133.
13. Hall, T.A. 1999. BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucl. Acids. Symp. Ser. 41: 95-98.
14. Hanning, I.B., Nutt, J.D., and Ricke, S.C. 2009. Salmonellosis out breaks in the United States due to fresh produce: sources and potential intervention measures. Food-borne Pathog. Dis. 6(6): 635-648. doi:10.1089/fpd.2008.0232. PMID:19580447.
15. Hoffmann, H., Stindl, S., Stumpf, A., Mehlen, A., Monget, D., Heesemann, J., et al. 2005. Description of Enterobacter ludwigii sp. nov., a novel Enterobacter species of clinical relevance. Syst. Appl. Microbiol. 28(3): 206-212. doi:10.1016/j.syapm. 2004.12.009. PMID:15900967.
16. Kelley, K., Behe, B., Biernbaum, J., and Poff, K. 2001. Consumer ratings of edible flower quality, mix, and color. Hortic. Technol. 11: 644-647.
17. Kilonzo-Nthenge, A., Chen, F.C., and Godwin, S.L. 2006. Efficacy of home washing methods in controlling surface microbial contamination on fresh produce. J. Food Prot. 69(2): 330-334. PMID:16496573.
18. Koganemaru, H., and Hitomi, S. 2008. Bacteremia caused by VanC-type enterococci in a university hospital in Japan: a 6-year survey. J. Infect. Chemother. 14(6): 413-417. doi:10.1007/ s10156-008-0644-x. PMID:19089554.
19. Kroes, I., Lepp, P.W., and Relman, D.A. 1999. Bacterial diversity within the human subgingival crevice. Proc. Natl. Acad. Sci. U.S.A. 96(25): 14547-14552. doi:10.1073/pnas.96.25.14547. PMID:10588742.
20. Lane, D. J. 1991. 16S/23S rRNA sequencing. In Nucleic acid techniques in bacterial systematics. Edited by E. Stackebrandt and M. Goodfellow. John Wiley and Sons, New York. pp. 115-175.
21. Larkin, M.A., Blackshields, G., Brown, N.P., Chenna, R., McGettigan, P.A., McWilliam, H., et al. 2007. Clustal W and Clustal X version 2.0. Bioinformatics, 23(21): 2947-2948. doi:10.1093/ bioinformatics/btm404.
22. Little, C.L., and Gillespie, I.A. 2008. Prepared salads and public health. J. Appl. Microbiol. 105(6): 1729-1743. doi:10.1111/j. 1365-2672.2008.03801.x. PMID:18397258.
23. Maheshwari, N., and Shefler, A. 2009. Enterobacter cloacae: an "ICU bug" causing community acquired necrotizing meningoencephalitis. Eur. J. Pediatr. 168(4): 503-505. doi:10.1007/s00431-008-0790-2. PMID:18661149.
24. Martin, A.P. 2002. Phylogenetic approaches for describing and comparing the diversity of microbial communities. Appl. Environ. Microbiol. 68(8): 3673-3682. doi:10.1128/AEM.68.8. 3673-3682.2002. PMID:12147459.
25. Materon, L., Martinez-Garcia, M., and McDonald, V. 2007. Identification of sources of microbial pathogens on cantaloupe rinds from pre-harvest to post-harvest operations. World J. Microbiol. Biotechnol. 23(9): 1281-1287. doi:10.1007/s11274-007-9362-2.
26. Nee, S., May, R.M., and Harvey, P.H. 1995. The reconstructed evolutionary process. Philos. Trans. R. Soc. Lond. B Biol. Sci. 344: 305-311.
27. Nei, M. 1987. Molecular evolutionary genetics. Columbia University Press, New York.
28. Neidhardt, F.C., Bloch, P.L., and Smith, D.F. 1974. Culture medium for enterobacteria. J. Bacteriol. 119(3): 736-747. PMID: 4604283.
29. Nieminen, T., Rintaluoma, N., Andersson, M., Taimisto, A.M., AliVehmas, T., Seppäla, A., et al. 2007. Toxinogenic Bacillus pumilus and Bacillus licheniformis from mastitic milk. Vet. Microbiol. 124(3-4): 329-339. doi:10.1016/j.vetmic.2007.05.015. PMID:17611049.
30. Peng, G., Zhang, W., Luo, H., Xie, H., Lai, W., and Tan, Z. 2009. Enterobacter oryzae sp. nov., a nitrogen-fixing bacterium isolated from the wild rice species Oryza latifolia. Int. J. Syst. Evol. Microbiol. 59(Pt 7): 1650-1655. PMID:19578150.
31. Sapers, G. 2001. Efficacy of washing and sanitizing methods for disinfection of fresh fruit and vegetable products. Food Technol. Biotechnol. 39(4): 305-311.
32. Sproer, C., Mendrock, U., Swiderski, J., Lang, E., and Stackebrandt, E. 1999. The phylogenetic position of Serratia, Buttiauxella and some ther genera of the family Enterobacteriaceae. Int. J. Syst. Bacteriol. 49(4): 1433-1438. doi:10.1099/00207713-49-4-1433.
33. Stach, J.E., Maldonado, L.A., Masson, D.G., Ward, A.C., Goodfellow, M., and Bull, A.T. 2003. Statistical approaches for estimating actinobacterial diversity in marine sediments. Appl. Environ. Microbiol. 69(10): 6189-6200. doi:10.1128/AEM.69.10.6189-6200.2003. PMID:14532080.
34. Tajima, F. 1983. Evolutionary relationship of DNA sequences in finite populations. Genetics, 105(2): 437-460. PMID:6628982.
35. Takezaki, N., Rzhetsky, A., and Nei, M. 1995. Phylogenetic test of the molecular clock and linearized trees. Mol. Biol. Evol. 12(5): 823-833.
36. Tamura, K., Dudley, J., Nei, M., and Kumar, S. 2007. MEGA4: molecular evolutionary genetics analysis (MEGA) software version 4.0. Mol. Biol. Evol. 24(8): 1596-1599. doi:10.1093/molbev/msm092. PMID:17488738.