Natural transformation as a mechanism of horizontal gene transfer among environmental Aeromonas species

Systematic and Applied Microbiology

Volumn 36, Issue 4, 2013, Pages 224-234

  Huddleston, Jennifer R ^a   Brokaw, Joshua M ^a   Zak, John C ^b   Jeter, Randall M ^b  

^a ABILENE CHRISTIAN UNIVERSITY   (United States)

^b TEXAS TECH UNIVERSITY   (United States)

Author keywords

Aeromonas; Environmental bacteria; Horizontal gene transfer; Natural transformation

Indexed keywords

BACTERIAL DNA; CALCIUM; MAGNESIUM; SODIUM;

AEROMONAS; AEROMONAS HYDROPHILA; AEROMONAS SALMONICIDA; AEROMONAS SOBRIA; AEROMONAS VERONII; ARTICLE; AUXOTROPHY; BACTERIUM COMPETENCE; BACTERIUM ISOLATE; BACTERIUM TRANSFORMATION; CULTURE MEDIUM; HORIZONTAL GENE TRANSFER; NONHUMAN; NUCLEOTIDE SEQUENCE; PH; PHYLOGENY; PRIORITY JOURNAL;

AEROMONAS; CULTURE MEDIA; DNA TRANSFORMATION COMPETENCE; ENVIRONMENTAL MICROBIOLOGY; GENE TRANSFER, HORIZONTAL; MOLECULAR SEQUENCE DATA; SEQUENCE ANALYSIS, DNA; TRANSFORMATION, BACTERIAL;

AEROMONAS;

EID: 84877832913     PISSN: 07232020     EISSN: 16180984     Source Type: Journal    
DOI: 10.1016/j.syapm.2013.01.004     Document Type: Article

References (58)

1. Abbott S.L., Cheung W.K., Janda J.M. The genus Aeromonas: biochemical characteristics, atypical reactions, and phenotypic identification schemes. J. Clin. Microbiol. 2003, 41:2348-2357.
2. Ahn S.J., Wen Z.T., Burne R.A. Multilevel control of competence development and stress tolerance in Streptococcus mutans UA159. Infect. Immun. 2006, 74:1631-1642.
3. Albert M.J., Ansaruzzaman M., Talukder K.A., Chopra A.K., Kühn I., Rahman M., Faruque A.S., Islam M.S., Sack R.B., Möllby R. Prevalence of enterotoxin genes in Aeromonas spp. isolated from children with diarrhea, healthy controls, and the environment. J. Clin. Microbiol. 2000, 38:3785-3790.
4. Albert M.J., Faruque A.S., Faruque S.M., Sack R.B., Mahalanabis D. Case-control study of enteropathogens associated with childhood diarrhea in Dhaka, Bangladesh. J. Clin. Microbiol. 1999, 37:3458-3464.
5. Alperi A., Martinez-Murcia A.J., Ko W.C., Monera A., Saavedra M.J., Figueras M.J. Aeromonas taiwanensis sp. nov. and Aeromonas sanarellii sp. nov., clinical species from Taiwan. Int. J. Syst. Evol. Microbiol. 2010, 60:2048-2055.
6. Alperi A., Martinez-Murcia A.J., Monera A., Saavedra M.J., Figueras M.J. Aeromonas fluvialis sp. nov., isolated from a Spanish river. Int. J. Syst. Evol. Microbiol. 2010, 60:72-77.
7. Altschul S.F., Gish W., Miller W., Myers E.W., Lipman D.J. Basic local alignment search tool. J. Mol. Biol. 1990, 215:403-410.
8. Anagnostopoulos C., Spizizen J. Requirements for transformation in Bacillus subtilis. J. Bacteriol. 1961, 81:741-746.
9. Berkowitz D., Hushon J.M., Whitfield H.J., Roth J., Ames B.N. Procedure for identifying nonsense mutations. J. Bacteriol. 1968, 96:215-220.
10. Berndt C., Meier P., Wackernagel W. DNA restriction is a barrier to natural transformation in Pseudomonas stutzeri JM300. Microbiology 2003, 149:895-901.
11. Brokaw J.M., Hufford L. Origins and introgression of polyploid species in Mentzelia section Trachyphytum (Loasaceae). Am. J. Bot. 2010, 97:1457-1473.
12. Chun J., Hong S.G. Methods and programs for calculation of phylogenetic relationships from molecular sequences. Molecular Phylogeney of Microorganisms 2010, 23-40. Caister Academic Press, Norfolk, UK. A. Oren, R.T. Papke (Eds.).
13. Coyne J.A., Orr H.A. Speciation 2004, Sinauer Associates, Massachusetts.
14. de Vries J., Wackernagel W. Microbial horizontal gene transfer and the DNA release from transgenic crop plants. Plant Soil 2004, 266:91-104.
15. Figueras M.J., Alperi A., Beaz-Hidalgo R., Stackebrandt E., Brambilla E., Monera A., Martinez-Murcia A.J. Aeromonas rivuli sp. nov., isolated from the upstream region of a karst water rivulet. Int. J. Syst. Evol. Microbiol. 2011, 61:242-248.
16. Hammer Ø., Harper D.A.T., Ryan P.D. PAST: paleontological statistics software package for education and data analysis. Paleontol. Electron. 2001, 4:9.
17. Hardy O.J., Pavoine S. Assessing phylogenetic signal with measurement error: a comparison of Mantel tests, Blomberg et al.'s K, and phylogenetic distograms. Evol.: Int. J. Org. Evol. 2012, 66:2614-2621.
18. Huddleston J.R., Zak J.C., Jeter R.M. Antimicrobial susceptibilities of Aeromonas isolated from environmental sources. Appl. Environ. Microbiol. 2006, 72:7036-7042.
19. Janda J.M., Abbott S.L. The genus Aeromonas: taxonomy, pathogenicity, and infection. Clin. Microbiol. Rev. 2010, 23:35-73.
20. Janda J.M., Abbott S.L. Human pathogens. The Genus Aeromonas 1996, 151-173. John Wiley & Sons Chichester, England. B. Austin, M. Altwegg, P.J. Gosling, S. Joseph (Eds.).
21. Juni E. Simple genetic transformation assay for rapid diagnosis of Moraxella osloensis. Appl. Microbiol. 1974, 27:16-24.
22. Kaznowski A., Wlodarczak K. Susceptibilities of motile Aeromonas sp. to antimicrobial agents. Zentralbl. Bakteriol. 1991, 275:85-93.
23. Ko W.C., Yu K.W., Liu C.Y., Huang C.T., Leu H.S., Chuang Y.C. Increasing antibiotic resistance in clinical isolates of Aeromonas strains in Taiwan. Antimicrob. Agents Chemother. 1996, 40:1260-1262.
24. Kühn I., Albert M.J., Ansaruzzaman M., Bhuiyan N.A., Alabi S.A., Islam M.S., Neogi P.K., Huys G., Janssen P., Kersters K., Möllby R. Characterization of Aeromonas spp. isolated from humans with diarrhea, from healthy controls, and from surface water in Bangladesh. J. Clin. Microbiol. 1997, 35:369-373.
25. Lorenz M.G., Wackernagel W. Bacterial gene transfer by natural genetic transformation in the environment. Microbiol. Rev. 1994, 58:563-602.
26. Maddison, W.P., Maddison, D.R. (2011) Mesquite: a modular system for evolutionary analysis. http://mesquiteproject.org/.
27. Maddison W.P., Slatkin M. Null models for the number of evolutionary steps in a character on a phylogenetic tree. Evol.: Int. J. Org. Evol. 1991, 45:1184-1197.
28. Martin D.P., Lemey P., Lott M., Moulton V., Posada D., Lefeuvre P. RDP3: a flexible and fast computer program for analyzing recombination. Bioinformatics 2010, 26:2462-2463.
29. Minana-Galbis D., Farfan M., Gaspar Loren J., Carmen Fuste M. Proposal to assign Aeromonas diversa sp. nov. as a novel species designation for Aeromonas group 501. Syst. Appl. Microbiol. 2010, 33:15-19.
30. Nei M., Kumar S. Molecular Evolution and Phylogenetics 2000, Oxford University Press, New York.
31. Norgard M.V., Imaeda T. Physiological factors involved in the transformation of Mycobacterium smegmatis. J. Bacteriol. 1978, 133:1254-1262.
32. Page W.J., Sadoff H.L. Physiological factors affecting transformation of Azotobacter vinelandii. J. Bacteriol. 1976, 125:1080-1087.
33. Paul J.H., Jeffrey W.H., DeFlaun M.F. Dynamics of extracellular DNA in the marine environment. Appl. Environ. Microbiol. 1987, 53:170-179.
34. Pavan M.E., Abbott S.L., Zorzópulos J., Janda J.M. Aeromonas salmonicida subsp. pectinolytica subsp. nov., a new pectinase-positive subspecies isolated from a heavily polluted river. Int. J. Syst. Evol. Microbiol. 2000, 50(Pt 3):1119-1124.
35. Posada D., Crandall K.A. The effect of recombination on the accuracy of phylogeny estimation. J. Mol. Evol. 2002, 54:396-402.
36. R Development Core Team R: A Language and Environment for Statistical Computing 2012, R Foundation for Statistical Computing, Vienna, Austria. http://www.r-project.org/.
37. Rohlf B.F. Methods of comparing classifications. Annu. Rev. Ecol. Syst. 1974, 4:101-113.
38. Romanowski G., Lorenz M.G., Wackernagel W. Plasmid DNA in a groundwater aquifer microcosm - adsorption, DNAase resistance and natural genetic transformation of Bacillus subtilis. Mol. Ecol. 1993, 2:171-181.
39. Sakai D.K. Transformation of a nonpathogenic Aeromonas salmonicida mutant with intraspecific, interspecific and intergeneric bacterial-DNA fragments in a laboratory model of river sediments. Nippon Suisan Gakk. 1987, 53:1141-1149.
40. Sakai D.K. Transmission of protease genes into a protease-deficient mutant of Aeromonas salmonicida in river sediments. J. Fish Dis. 1987, 10:171-179.
41. Schmidt A.S., Bruun M.S., Dalsgaard I., Larsen J.L. Incidence, distribution, and spread of tetracycline resistance determinants and integron-associated antibiotic resistance genes among motile aeromonads from a fish farming environment. Appl. Environ. Microbiol. 2001, 67:5675-5682.
42. Silver A.C., Williams D., Faucher J., Horneman A.J., Gogarten J.P., Graf J. Complex evolutionary history of the Aeromonas veronii group revealed by host interaction and DNA sequence data. PloS One 2011, 6:e16751.
43. Smith H.O., Danner D.B., Deich R.A. Genetic transformation. Annu. Rev. Biochem. 1981, 50:41-68.
44. Smith H.O., Gwinn M.L., Salzberg S.L. DNA uptake signal sequences in naturally transformable bacteria. Res. Microbiol. 1999, 150:603-616.
45. Sneath P.H. Evidence from Aeromonas for genetic crossing-over in ribosomal sequences. Int. J. Syst. Bacteriol. 1993, 43:626-629.
46. Sokal R.R., Rohlf F.J. Biometry 1995, Freeman, New York. 3rd edn.
47. Stamatakis A. RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models. Bioinformatics 2006, 22:2688-2690.
48. Swofford D.L. PAUP*: Phylogenetic Analysis Using Parsimony (*and Other Methods) 2002, Sinaur, Sunderland, MA, USA.
49. Tamura K., Nei M., Kumar S. Prospects for inferring very large phylogenies by using the neighbor-joining method. Proc. Natl. Acad. Sci. U.S.A. 2004, 101:11030-11035.
50. Thompson J.D., Higgins D.G., Gibson T.J. CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res. 1994, 22:4673-4680.
51. Ulrich R.L., Hughes T.A. A rapid procedure for isolating chromosomal DNA from Lactobacillus species and other Gram-positive bacteria. Lett. Appl. Microbiol. 2001, 32:52-56.
52. Wang Y., Orvis J., Dyer D., Chen C. Genomic distribution and functions of uptake signal sequences in Actinobacillus actinomycetemcomitans. Microbiology 2006, 152:3319-3325.
53. Wang Y., Taylor D.E. Natural transformation in Campylobacter species. J. Bacteriol. 1990, 172:949-955.
54. Ward J.H. Hierarchical grouping to optimize an objective function. J. Am. Stat. Assoc. 1963, 58.
55. Warren W.J., Jeter R.M., Kimbrough R.C., Zak J.C. Population patterns and antimicrobial resistance of Aeromonas in urban playa lakes. Can. J. Microbiol. 2004, 50:397-404.
56. Watt V.M., Ingles C.J., Urdea M.S., Rutter W.J. Homology requirements for recombination in Escherichia coli. Proc. Natl. Acad. Sci. U.S.A. 1985, 82:4768-4772.
57. Yañez M.A., Catalán V., Apráiz D., Figueras M.J., Martínez-Murcia A.J. Phylogenetic analysis of members of the genus Aeromonas based on gyrB gene sequences. Int. J. Syst. Evol. Microbiol. 2003, 53:875-883.
58. Zhang X.S., Blaser M.J. Natural transformation of an engineered Helicobacter pylori strain deficient in type II restriction endonucleases. J. Bacteriol. 2012, 194:3407-3416.