Phylogenetic relationships of Brazilian isolates of Pythium insidiosum based on ITS rDNA and cytochrome oxidase II gene sequences

Veterinary Microbiology

Volumn 159, Issue 1-2, 2012, Pages 141-148

  Azevedo, M I ^a   Botton, S A ^a   Pereira, D I B ^b   Robe, L J ^c   Jesus, F P K ^a   Mahl, C D ^a   Costa, M M ^d   Alves, S H ^a   Santurio, J M ^a  

^a FEDERAL UNIVERSITY OF SANTA MARIA   (Brazil)

^b FEDERAL UNIVERSITY OF PELOTAS   (Brazil)

^c FEDERAL UNIVERSITY OF RIO GRANDE   (Brazil)

^d UNIVERSIDADE FEDERAL DO VALE DO SÃO FRANCISCO   (Brazil)

Author keywords

Cox II; Internal transcribed spacer region; Oomycete; Phylogenetic analysis; Pythium spp.

Indexed keywords

CYTOCHROME C OXIDASE; CYTOCHROME OXIDASE II; INTERNAL TRANSCRIBED SPACER 1; INTERNAL TRANSCRIBED SPACER 2; RIBOSOME DNA; UNCLASSIFIED DRUG; RIBOSOMAL SPACER DNA; RNA 5.8S;

ARTICLE; BACTERIUM ISOLATE; BAYES THEOREM; BRAZIL; GENE SEQUENCE; LAGENIDIUM; LAGENIDIUM GIGANTEUM; NONHUMAN; NUCLEOTIDE SEQUENCE; PHYLOGENY; PYTHIUM; PYTHIUM INSIDIOSUM; CLASSIFICATION; ENZYMOLOGY; GENETICS; ISOLATION AND PURIFICATION; MOLECULAR GENETICS;

LAGENIDIUM GIGANTEUM; PYTHIUM; PYTHIUM INSIDIOSUM;

BRAZIL; DNA, RIBOSOMAL SPACER; ELECTRON TRANSPORT COMPLEX IV; MOLECULAR SEQUENCE DATA; PHYLOGENY; PYTHIUM; RNA, RIBOSOMAL, 5.8S;

EID: 84864606770     PISSN: 03781135     EISSN: 18732542     Source Type: Journal    
DOI: 10.1016/j.vetmic.2012.03.030     Document Type: Article

References (36)

1. Akaike H. A new look at the statistical model identification. IEEE Trans. Automat. Contr. 1974, 19:716-723.
2. Baker R.H., De Salle R. Multiple sources of character information and the phylogeny of Hawaiian drosophilids. Syst. Biol. 1997, 46:654-673.
3. Bandelt H.J., Forster P., Röhl A. Median-joining networks for inferring intraspecific phylogenies. Mol. Biol. Evol. 1999, 16:37-48.
4. Bosco S.M.G., Bagagli E.J., Araújo J.P., Candeias J.M.G., Franco M.F., Marques M.E.A., Mendoza L., Camargo R.P., Marques S.A. Human pythiosis Brasil. Emer. Infect. Dis. 2005, 11:715-718.
5. Bosco S.M.G., Reis G.M., Theodoro R.C., Macoris S.A.G., Marques S.A., Macoris D., Bagalgi E. Morphological and molecular characterization of an equine isolate of Pythium insidiosum and comparison with the first human isolate from the same geographic region. Med. Mycol. 2008, 46:557-565.
6. Botton S.A., Pereira D.I.B., Costa M.M., Azevedo M.I., Argenta J.S., Jesus F.P.K., Alves S.H., Santurio J.M. Identification of Pythium insidiosum by Nested PCR in Cutaneous Lesions of Brazilian Horses and Rabbits. Curr. Microbiol. 2011, 62:1225-1229.
7. Brown T.A. Genomes 2002, Bios Scientific Publishers, Oxford, 496 p. 2nd ed.
8. Garzon C.D., Yanez J.M., Moorman G.W. P ythium cryptoirregulare, a new species within the P. irregulare complex. Mycologia 2007, 99:291-301.
9. Gaastra W., Lipman L.J.A., DE Cock A.W.A.M., Exel E.T., Pegge R.B.G., Scheurwater R.V., Mendoza L. Pythium insidiosum: an overview. Vet. Microbiol. 2010, 146:1-16.
10. Guindon S., Gascuel O. A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood. Syst. Biol. 2003, 52:696-704.
11. Huelsenbeck J.P., Ronquist F. Bayes-Bayesian inference of phylogenetic trees. Bioinformatics 2001, 17:754-755.
12. Hudspeth D., Nadler S., Hudspeth M. A COX2 molecular phylogeny of the Peronosporomycetes. Mycologia 2000, 92:67-684.
13. Kammarnjesadakul P., Palaga T., Sritunyalucksana K., Mendoza L., Krajaejun T., Vanittanakom N., Tongchusak S., Denduangboripant J., Chindamporns A. Phylogenetic analysis of Pythium insidiosum Thai strains using cytochrome oxidase II (COX II) DNA coding sequences and internal transcribed spacer regions (ITS). Med. Mycol. 2011, 49:289-295.
14. Klassen G.R., Balcerzak M., DE Cock A.W.A.M. 5S ribosomal RNA gene spacer as species specific probes for eight species of Pythium. Phytopathology 1996, 86:581-587.
15. Martin F. Phylogenetic relationships among some Pythium species inferred from sequence analysis of the mitochondrially encoded cytochrome oxidase II gene. Mycologia 2000, 92:711-727.
16. Matsumoto C., Kageyama K., Suga H., Hyakumachi M. Intraspecific DNA polymorphisms of Pythium irregulare. Mycol. Res. 1999, 104:1333-1341.
17. Matsumoto C., Kageyama K., Suga H., Hyakumachi M. Phylogenetic relationships of Pythium species based on ITS and 5.8S sequences of the ribosomal DNA. Mycoscience 1999, 40:321-331.
18. Möller E.M., Bahnweg G., Sandemann H., Geiger H.H. A simple and efficient protocol for isolation of high molecular weight DNA from filamentous fungi, fruit bodies, and infected plant tissues. Nucleic Acids Res. 1992, 20:6115-6116.
19. Murdoch D., Parr D. Pythium insidiosum keratitis. Aust. NZJ Ophthalmol. 1997, 25:177-179.
20. Nylander J.A.A. MrModeltest v2. Program Distributed by the Author. Evolutionary Biology Center 2004, Uppsala University.
21. Posada C., Crandall K.A. MODELTEST: testing the model of DNA substitution. Bioinformatics 1998, 14:817-818.
22. Remsen J., De Salle R. Character congruence and multiple data partitions and the origin of the Hawaiian Drosophilidae. Mol. Phylogenet. Evol. 1998, 9:225-235.
23. Rozas, J., 2009. DNA sequence polymorphism analysis using DnaSP. In: Posada, D. (Ed.) Bioinformatics for DNA Sequence Analysis; Methods. Molecular Biology Series. 537, pp. 337-350.
24. Santurio J.M., Ferreiro L. Pitiose: Uma abordagem micológica e terapêutica 2008, Porto Alegre, Ed. da Universidade Federal do Rio Grande do Sul, Brazil, 111 p.
25. Santurio J.M., Leal A.T., Leal A.B.M., Festugatto R., Lubeck I., Sallis E.S.V., Copetti M.V., Alves S.H., Ferreiro L. Three types of immunotherapics against pythiosis insidiosum developed and evaluated. Vaccine 2003, 21:2535-2540.
26. Schurko A., Mendoza L., De Cock A.W.A.M., Klassen G.R. Evidence for geographic clusters: Molecular genetic differences among strains of Pythium insidiosum from Asia, Australia, and the Americas are explored. Mycology 2003, 95:200-208.
27. Schurko A.M., Mendoza L., Lévesque A.C., Désaulniers N.L., De Cock A.W.A.M., Klassen G. A molecular phylogeny of Pythium insidiosum. Mycol. Res. 2003, 107:537-544.
28. Schurko A.M., Mendoza L., De Cock A.W.A.M., Bedard J.E.J., Klassen G.R. Development of a species-specific probe for Pythium insidiosum and the diagnosis of pythiosis. J. Clin. Microbiol. 2004, 42:2411-2418.
29. Shen, Q.S., 2001. Molecular phylogenetic analysis of Grifola frondosa (Maitake) and related species and the influence of selected nutrient supplements on mushroom yield. Doctoral dissertation. The Pennsylvania State University Graduate School. 141 p.
30. Slatkin M., Hudson R.R. Pairwise comparisons of mitochondrial DNA sequences in stable and exponentially growing populations. Genetics 1991, 129:555-562.
31. Staden R. Zhe Staden sequence analysis package. Mol. Biotechnol. 1996, 5:233-241.
32. Supabandhu J., Fisher M.C., Mendoza L., Vanittanakom N. Isolation and identification of the human pathogen Pythium insidiosum from environmental samples collected in Thai agricultural areas. Med. Mycol. 2008, 46:41-52.
33. Swofford D.L. PAUP: Phylogenetic Analysis Using Parsimony (and other methods). Version 4 2003, Sinauer Associates, Massachusetts.
34. Tamura K., Nei M. Estimation of the number of base nucleotide substitution in the control region of mitochondrial DNA in humans and chimpanzees. Mol. Biol. Evol. 1993, 10:512-526.
35. Villa N.O., Kageyama K., Asano T., Suga H. Phylogenetic relationships of Pythium and Phytophthora species based on ITS rDNA, cytochrome oxidase II and beta-tubulin gene sequences. Mycology 2006, 98:410-422.
36. White T., Bruns T., Lee S. Amplification and direct sequencing of fungal ribosomal RNA genes for phylogenetics. PCR Protocols: A Guide to Methods and Applications 1990, 315-322. Academic Press, New York. M. Innis, D. Gelfand, J.J. Sninsky (Eds.).