Molecular characterization of marine cyanobacteria from the Indian subcontinent deduced from sequence analysis of the phycocyanin operon (cpcB-IGS-cpcA) and 16S-23S ITS region

Journal of Microbiology

Volumn 44, Issue 6, 2006, Pages 607-616

  Premanandh, Jagadeesan ^a   Priya, Balakrishnan ^a   Teneva, Ivanka ^b   Dzhambazov, Balik ^c   Prabaharan, Dharmar ^a   Uma, Lakshmanan ^a  

^a BHARATHIDASAN UNIVERSITY   (India)

^b UNIVERSITY OF PLOVDIV   (Bulgaria)

^c LUND UNIVERSITY   (Sweden)

Author keywords

Cyanobacteria; Genetic diversity; IGS; ITS; Leptolyngbya; Phormidium; Phycocyanin operon; Phylogeny; Taxonomy

Indexed keywords

CYANOBACTERIA; LEPTOLYNGBYA; OSCILLATORIA; OSCILLATORIALES; PHORMIDIUM;

PHYCOCYANIN; RIBOSOMAL SPACER DNA; RNA 16S; RNA 23S; SEA WATER;

ARTICLE; BACTERIUM IDENTIFICATION; CLASSIFICATION; CYANOBACTERIUM; DNA SEQUENCE; EVALUATION; GENETIC VARIABILITY; GENETICS; INDIA; ISOLATION AND PURIFICATION; MICROBIOLOGY; MOLECULAR GENETICS; OPERON; PHASE CONTRAST MICROSCOPY; PHYLOGENY; ULTRASTRUCTURE;

BACTERIAL TYPING TECHNIQUES; CYANOBACTERIA; DNA, RIBOSOMAL SPACER; INDIA; MICROSCOPY, PHASE-CONTRAST; MOLECULAR SEQUENCE DATA; OPERON; PHYCOCYANIN; PHYLOGENY; RNA, RIBOSOMAL, 16S; RNA, RIBOSOMAL, 23S; SEAWATER; SEQUENCE ANALYSIS, DNA; VARIATION (GENETICS);

EID: 33846942323     PISSN: 12258873     EISSN: 12258873     Source Type: Journal    
DOI: None     Document Type: Article

References (42)

1. Anagnostidis, K. and J. Komárek. 1985. Modern approach to the classification system of cyanophytes 1-Introduction. Arch. Hydrobiol./ Suppl. 71, Algological. Studies 38 / 39, 291-302.
2. Ballot, A., P. Dadheech, and L. Krienitz. 2004. Phylogenetic relationship of Arthrospira, Phormidium, and Spirulina strains from Kenyan and Indian waterbodies. Arch. Hydrobiol. Suppl./Algological Studies 113, 37-56.
3. Barker, G.L., P.K. Hayes, and S.L. O'Mahony. 1999. A molecular and phenotypic analysis of Nodularia (Cyanobacteria) from the Baltic Sea. J. Phycol. 35, 931-937.
4. Barker, G.L., B.A. Handley, P. Vacharapiyasophon, J.R. Stevens, and P.K. Hayes. 2000a. Allele-specific PCR shows that genetic exchange occurs among genetically diverse Nodularia (Cyanobacteria) filaments in the Baltic Sea. Microbiology 146, 2865-2875.
5. Barker, G.L., A. Konopka, B.A. Handley, and P.K. Hayes. 2000b. Genetic variation in Aphanizomenon (Cyanobacteria) colonies from the Baltic Sea and North America. J. Phycol. 36, 947-950.
6. Baurain, D., L. Renquin, S. Grubisic, P. Scheldeman, A. Belay, and A. Wilmotte. 2002. Remarkable conservation of internally transcribed spacer sequences of Arthrospira ("Spirulina") (Cyanophyceae, Cyanobacteria) strains from four continents and of recent and 30-years-old dried samples from Africa. J. Phycol. 38, 384-393.
7. Bolch, C.J.S., S.I. Blackburn, B.A. Neilan, and P.M. Grewe. 1996. Genetic characterization of strains of cyanobacteria using PCR-RFLP of the phycocyanin intergenic spacer and flanking regions. J. Phycol. 32, 445-451.
8. Boyer, S.L., V.R. Flechtner, and J.R. Johansen. 2001. Is the 16S-23S rRNA internal transcribed spacer region a good tool for use in molecular systematics and population genetics? A case study in cyanobacteria. Mol. Biol. Evol. 18, 1057-1069.
9. Castenholz, R.W. and J.B. Waterbury. 1989. Cyanobacteria. In Stanley, J.T., M.P. Bryant, N. Pfenning, and J.H. Holt (Eds.). Bergy's Manual Systematic Bacteriology, Vol. 3. Section 19: Oxygenic photosynthetic bacteria. Williams and Wilkins, Baltimore, USA
10. Crosbie, N.D., M. Pöckl, and T. Weisse. 2003. Dispersal and phylogenetic diversity of nonmarine Picocyanobacteria, inferred from 16S rRNA gene and cpcBA-Intergenic spacer sequence analyses. Appl. Environ. Microbiol. 69, 5716-5721.
11. Dyble, J. H.W. Paerl, and B.A. Neilan. 2002. Genetic characterization of Cylindrospermopsis raciborskii (Cyanobacteria) isolates from diverse geographic origins based on nifH and cpcBA-IGS nucleotide sequence analysis. Appl. Environ. Microbiol. 68, 2567-2571.
12. Felsenstein, J. 2004. PHYLIP (Phylogeny Inference Package) version 3.6. Distributed by the author. Department of Genome Sciences, University of Washington, Seattle, USA
13. Fox, G.E., J.D. Wisotzkey, and P. Jurtshuk, Jr. 1992. How close is close: 16S rRNA sequence identity may not be sufficient to guarantee species identity. Int. J. Syst. Bacteriol. 42, 166-170.
14. Garcia-Pichel, F., L. Prufert-Bebout, and G. Muyzer. 1996. Phenotypic and phylogenetic analysis show Microcoleus chthonoplastes to be a cosmopolitan cyanobacterium. Appl. Environ. Microbiol., 62, 3284-3291.
15. Ishida, T., A. Yokota, and J. Sugiyama. 1997. Phylogenetic relationships of filamentous cyanobacterial taxa inferred from 16S rDNA sequence divergence. J. Gen. Appl. Microbiol. 43, 237-241.
16. Iteman, I., R. Rippka, N. Tandeau De Marsac, and M. Herdman. 2000. Comparison of conserved structural and regulatory domains within divergent 16S rRNA-23S rRNA spacer sequences of cyanobacteria. Microbiol. 146, 1275-1286.
17. Janson, S. and E. Granéli. 2002. Phylogenetic analyses of nitrogen-fixing cyanobacteria from the Baltic Sea reveal sequence anomalies in the phycocyanin operon. Int. J. System. Evol. Microbiol. 52, 1397-1404.
18. Komárek, J. and K. Anagnostidis. 1989. Modern approach to the classification system of cyanophytes. 4: Nostocales. Arch. Hydrobiol. Suppl./Algological Studies 56, 247-345.
19. Komárek, J. and K. Anagnostidis. 2005. Süßwasserflora von Mitteleuropa Bd.19/2 Cyanoprokaryota, Oscillatoriales, Verlag: Spektrum Akademischer Verlag; Urban and Fischer Bei Els, 759 p.
20. Li, X. 2000. Phenotypic and genotypic characterization of Nostoc species from 6 different sites in the Mojave desert. Master's thesis, John Carroll University, Cleveland, Ohio.
21. Litvaitis, M.K. 2002. A molecular test of cyanobacterial phylogeny: inferences from constraint analyses. Hydrobiologia 468, 135-145.
22. Lu, W. 1999. Application of molecular biological techniques to the identification of cyanobacteria. Master's thesis, Liverpool John Moores University, England.
23. Lu, W., E.H. Evans, S.M. McColl, and V.A. Saunders. 1997. Identification of cyanobacteria by polymorphisims of PCR-amplified ribosomal DNA spacer regions. FEMS Microbiol. Lett. 153, 147-149.
24. Manen, J.F. and J. Falque. 2002. The cpcB-cpcA locus as a tool for the genetic characterization of the genus Arthrospira (Cyanobacteria): evidence for horizontal transfer. Int. J. System. Evol. Microbiol. 52, 861-867.
25. Margheri, M.C., R. Piccardi, S. Ventura, C. Viti, and L. Giovannetti. 2003. Genotypic diversity of oscillatoriacean strains belonging to the genera Geitlerinema and Spirulina determined by 16S rDNA restriction analysis. Curr. Microbiol. 46, 359-364.
26. Neilan, B.A., D. Jacobs, and A.E. Goodman. 1995. Genetic diversity and phylogeny of toxic cyanobacteria determined by DNA polymorphisms within the phycocyanin locus. Appl. Environ. Microbiol. 61, 3875-3883.
27. Nübel, U., F. Garcia-Pichel, and G. Muyzer. 1997. PCR primers to amplify 16S rRNA genes from cyanobacteria. Appl. Environ. Microbiol. 63, 3327-3332.
28. Orcutt, K.M., U. Rasmussen, E.A. Webb, J.B. Waterbury, K. Gundersen, and B. Bergman. 2002. Characterization of Trichodesmium spp. by genetic techniques. Appl. Environ. Microbiol. 68, 2236-2245.
29. Otsuka, S., S. Suda, R. Li, S. Matsumoto, and M. Watanabe. 2000. Morphological variability of colonies of Microcystis morphospecies in culture. J. Gen. Appl. Microbiol. 46, 39-50.
30. Payne, M.C., J.R. Johansen, and S.L. Boyer. 2001. Taxonomic resolution of Leptolyngbya (Cyanophyta) utilizing the 16S rRNA gene sequence. 55th Annual Meeting of the Phycological Society of America, June 23-28, 2001, Estes Park, CO, USA; J. Phycol. 37, 40.
31. Prabaharan, D. 1988. Partial characterization of the marine cyanobacterium Phormidium valderianum 30501 for biotechnological purposes. M. Phil Dissertation, Bharathidasan University, Tiruchirapalli, India.
32. Rippka, R., J. Deruelles, J.B. Waterbury, M. Herdman, and R.Y. Stanier. 1979. Generic assignments, strain histories and properties of pure cultures of cyanobacteria. J. Gen. Microbiol. 111, 1-61.
33. Robertson, B.R., N. Tezuka, and M.M. Watanabe. 2001. Phylogenetic analyses of Synechococcus strains (Cyanobacteria) using sequences of 16S rDNA and part of the phycocyanin operon reveal multiple evolutionary lines and reflect phycobilin content. Int. J. Syst. Evol. Microbiol. 51, 861-871.
34. Saker, M.L., B.A. Neilan, and D.J. Griffiths. 1999. Two morphological forms of Cylindrospermopsis raciborskii (Cyanobacteria) isolated from Solomon Dam, Palm Island, Queensland. J. Phycol. 35, 599-606.
35. Salomon, P.S., S. Janson, and E. Granéli. 2003. Molecular identification of bacteria associated with filaments of Nodularia spumigena and their effect on the cyanobacterial growth. Harmful. Algae 2, 261-272.
36. Scheldeman, P., D. Baurain, R. Bouhy, M. Scott, M. Mühling, B.A. Whitton, A. Belay, and A. Wilmotte. 1999. Arthrospira ("Spirulina") strains from four continents are resolved in only two clusters, based on amplified ribosomal DNA restriction analysis on the internally transcribed spacer. FEMS Microbiol. Lett. 172, 213-222.
37. Stanier, R.Y., R. Kunisawa, M. Mandel, and G. Cohen-Bazire. 1971. Purification and properties of unicellular blue-green algae (order Chroococcales). Bacteriol. Rev. 35, 171-205
38. Taton, A., S. Grubusic, E. Brambilla, R.D. Wit, and A. Wilmotte. 2003. Cyanobacterial diversity in natural and artificial microbial mats of lake fryxell (Mc Murdo dry valleys, Antartica): a morphological and molecular approach. Appl. Environ. Microbiol. 69, 5157-5169.
39. Teneva, I., B. Dzhambazov, R. Mladenov, and K. Schirmer. 2005. Molecular and phylogenetic characterization of Phormidium species (Cyanoprokaryota) using the cpc-BGS-cpcA locus. J. Phycol. 41, 188-194.
40. Tillett, D., D.L. Parker, and B.A. Neilan. 2001. Detection of toxigenicity by a probe for the microcystin synthetase A gene (mcyA) of the cyanobacterial genus Microcystis: comparison of toxicities with 16S rRNA and phycocyanin operon (phycocyanin intergenic spacer) phylogenies. Appl. Environ. Microbiol. 67, 2810-2818.
41. Wu, X., A. Zarka, and S. Boussiba. 2000. A simplified protocol for preparing DNA from filamentous cyanobacteria. Plant. Mol. Biol. Rep. 18, 385-392.
42. Young, J.M., 2001. Implications of alternative classifications and horizontal gene transfer for bacterial taxonomy. Int. J. System. Evol. Microbiol. 51, 945-953.