Structure Based Computational Analysis and Molecular Phylogeny of C- Phycocyanin Gene from the Selected Cyanobacteria
Cyanobacteria play a vital role in the production of phycobiliproteins that includes phycocyanin and phycoerythrin pigments. Phycocyanin and related phycobiliproteins have wide variety of application that is used in the food, biotechnology and cosmetic industry because of their color, fluorescent and antioxidant properties. The present study is focused to understand the pigment at molecular level in the Cyanobacteria Oscillatoria terebriformis NTRI05 and Oscillatoria foreaui NTRI06. After extraction of genomic DNA, the amplification of C-Phycocyanin gene was done with the suitable primer PCβF and PCαR and the sequencing was performed. Structural and Phylogenetic analysis was attained using the sequence to develop a molecular model.
[1] N.T. Eriksen, “Production of phycocyanin – a pigment with applications
in biology biotechnology foods and medicine,” Applied Microbiology
and Biotechnology, 2008, Vol. 80, pp. 1-14.
[2] W. Mount David, “Bioinformatics: Sequence and Genome Analysis,”
Spring Harbor Press, 2002, ISBN 0-87969-608-7.
[3] N. Thajuddin, and G. Subramanian, “Cyanobacterial Biodiversity and
potential application in Biotechnology,” Current Science., 2005, Vol.
89(1), pp. 47-57.
[4] N. Thajuddin, A. Sandra, Nierzwicki-Bauer, and G. Subramanian,
“Cyanobacterial biodiversity and recent trends in their taxonomy,” BDU
J. Sci. & Tech., 2007, Vol. 1, pp. 1-14. (in Tamil), 15-28 (in English).
[5] N. Thajuddin, G. Muralitharan, G. Sundaramoorthy, R. Ramamoorthy,
S. Ramachandran, M. A. Akbarsha and M. Gunasekaran,
“Morphological and genetic diversity of symbiotic Cyanobacteria from
cycads,” J. Basic Microbiol., 2010, Vol. 50, pp. 254-265.
[6] N. Thajuddin, and G. Muralitharan, “Applications of PCR based
fingerprinting in the phylogeny of marine Cyanobacteria,” Indian
Hydrobiol., 2008, Vol. 11(1), pp. 25-41.
[7] G. Muralitharan, and N. Thajuddin, “Evidence on the presence of
tRNAfmet group I introns in the marine cyanobacterium Synechococcus
elongatus,” Journal of Microbiology and Biotechnology., 2008, Vol.18
(1), pp. 23-27.
[8] G. Muralitharan and N. Thajuddin, “M13 based genotyping of marine
cyanobacterial strains from the Indian Subcontinent and maintained in
the NFMC germplasm collection,” Journal of Applied Phycology., 2010,
Vol.22, pp. 709-716.
[9] G. Muralitharan, and N. Thajuddin, “Rapid differentiation of
phenotypically and genotypically similar Synechococcus elongatus
strains by PCR fingerprinting,” Biologia, 2011, Vol. 66/2, pp. 238-243.
[10] D. Pandiaraj, D. Mubarak ali. R. Praveenkumar, S. Ravikumar and N.
Thajuddin, “Molecular characterization and phylogeny of marine
Cyanobacteria from Palk Bay Region of Tamil Nadu, India,” Ecologia,
2012, Vol.2, pp. 23-30.
[11] D. Mubarak ali, J. Arunkumar, K. R. Suriya, K. A. Sheik syed ishack
and N. Thajuddin, “Molecular modeling and Phylogenetic analysis of cphycocyanin
gene sequence from marine cyanobacterium Phormidium
tenue NTDM05,” Seaweed Res. Utiln., 2012, Vol. 34(1&2) pp.35-44.
[12] N. Kumari, A. K. Srivastava, P. Bhargava, and L. Rai, “Molecular
approaches towards assessment of cyanobacterial biodiversity,” African
Journal of Biotechnology., 2009, Vol. 8(18), pp. 4284-4298.
[13] J.C. Kendrew, R.E. Dickerson, B.E. Strandberg, R.G. Hart, and D.R.
Davies, “Structure of Myoglobin,” Nature, 1960, Vol. 185, pp.422-427.
[14] M.J. Foster, “Molecular Modelling on Structural Biology,” Micron,
2002, Vol. 33, pp.365 -384.
[15] J.A. Smoker, and S.R. Barnum, “Rapid small-scale DNA isolation
from filamentous cyanobacteria,” FEMS Microbiology Letters., 1988,
Vol. 56(1), pp.119 – 122.
[16] B.A. Neilan, “The Molecular Evolution and DNA Profiling of Toxic
Cyanobacteria,” Curr. Issues Mol. Biol., 2002, Vol. 4, pp.1-11.
[17] J. Garnier, J. F. Gibrat, and B. Robson, “GOR Secondary structure
prediction method version IV,” 1996, Vol. 266, pp. 540-553.
[18] T. V. Desikachary, “Cyanophyta Indian Council of Agricultural
Research New Delhi, India,” 1959.
[19] N. Saitou, and M. Nei, “The Neighbor-joining method: A new method
for reconstructing phylogenetic trees,” Molecular Biology and
Evolution, 1987, Vol.4, pp. 406-425.
[20] K. Tamura, D. Peterson, N. Peterson, G. Stecher, M. Nei, and S. Kumar,
“MEGA5: Molecular Evolutionary Genetics Analysis using Maximum
Likelihood, Evolutionary Distance, and Maximum Parsimony Methods,”
Molecular Biology and Evolution., 2011, Vol. 28(10), pp.2731-2739.
[21] K. Guruprasad, B.V. Reddy, M.W. Pandit, “Correlation Between
Stability of a Protein and its Dipeptide Composition: A Novel Approach
For Predicting In Vivo Stability of a Protein From Its Primary
Sequence,” Protein Eng., 1990, Vol. 4(2), pp.155-61.
[1] N.T. Eriksen, “Production of phycocyanin – a pigment with applications
in biology biotechnology foods and medicine,” Applied Microbiology
and Biotechnology, 2008, Vol. 80, pp. 1-14.
[2] W. Mount David, “Bioinformatics: Sequence and Genome Analysis,”
Spring Harbor Press, 2002, ISBN 0-87969-608-7.
[3] N. Thajuddin, and G. Subramanian, “Cyanobacterial Biodiversity and
potential application in Biotechnology,” Current Science., 2005, Vol.
89(1), pp. 47-57.
[4] N. Thajuddin, A. Sandra, Nierzwicki-Bauer, and G. Subramanian,
“Cyanobacterial biodiversity and recent trends in their taxonomy,” BDU
J. Sci. & Tech., 2007, Vol. 1, pp. 1-14. (in Tamil), 15-28 (in English).
[5] N. Thajuddin, G. Muralitharan, G. Sundaramoorthy, R. Ramamoorthy,
S. Ramachandran, M. A. Akbarsha and M. Gunasekaran,
“Morphological and genetic diversity of symbiotic Cyanobacteria from
cycads,” J. Basic Microbiol., 2010, Vol. 50, pp. 254-265.
[6] N. Thajuddin, and G. Muralitharan, “Applications of PCR based
fingerprinting in the phylogeny of marine Cyanobacteria,” Indian
Hydrobiol., 2008, Vol. 11(1), pp. 25-41.
[7] G. Muralitharan, and N. Thajuddin, “Evidence on the presence of
tRNAfmet group I introns in the marine cyanobacterium Synechococcus
elongatus,” Journal of Microbiology and Biotechnology., 2008, Vol.18
(1), pp. 23-27.
[8] G. Muralitharan and N. Thajuddin, “M13 based genotyping of marine
cyanobacterial strains from the Indian Subcontinent and maintained in
the NFMC germplasm collection,” Journal of Applied Phycology., 2010,
Vol.22, pp. 709-716.
[9] G. Muralitharan, and N. Thajuddin, “Rapid differentiation of
phenotypically and genotypically similar Synechococcus elongatus
strains by PCR fingerprinting,” Biologia, 2011, Vol. 66/2, pp. 238-243.
[10] D. Pandiaraj, D. Mubarak ali. R. Praveenkumar, S. Ravikumar and N.
Thajuddin, “Molecular characterization and phylogeny of marine
Cyanobacteria from Palk Bay Region of Tamil Nadu, India,” Ecologia,
2012, Vol.2, pp. 23-30.
[11] D. Mubarak ali, J. Arunkumar, K. R. Suriya, K. A. Sheik syed ishack
and N. Thajuddin, “Molecular modeling and Phylogenetic analysis of cphycocyanin
gene sequence from marine cyanobacterium Phormidium
tenue NTDM05,” Seaweed Res. Utiln., 2012, Vol. 34(1&2) pp.35-44.
[12] N. Kumari, A. K. Srivastava, P. Bhargava, and L. Rai, “Molecular
approaches towards assessment of cyanobacterial biodiversity,” African
Journal of Biotechnology., 2009, Vol. 8(18), pp. 4284-4298.
[13] J.C. Kendrew, R.E. Dickerson, B.E. Strandberg, R.G. Hart, and D.R.
Davies, “Structure of Myoglobin,” Nature, 1960, Vol. 185, pp.422-427.
[14] M.J. Foster, “Molecular Modelling on Structural Biology,” Micron,
2002, Vol. 33, pp.365 -384.
[15] J.A. Smoker, and S.R. Barnum, “Rapid small-scale DNA isolation
from filamentous cyanobacteria,” FEMS Microbiology Letters., 1988,
Vol. 56(1), pp.119 – 122.
[16] B.A. Neilan, “The Molecular Evolution and DNA Profiling of Toxic
Cyanobacteria,” Curr. Issues Mol. Biol., 2002, Vol. 4, pp.1-11.
[17] J. Garnier, J. F. Gibrat, and B. Robson, “GOR Secondary structure
prediction method version IV,” 1996, Vol. 266, pp. 540-553.
[18] T. V. Desikachary, “Cyanophyta Indian Council of Agricultural
Research New Delhi, India,” 1959.
[19] N. Saitou, and M. Nei, “The Neighbor-joining method: A new method
for reconstructing phylogenetic trees,” Molecular Biology and
Evolution, 1987, Vol.4, pp. 406-425.
[20] K. Tamura, D. Peterson, N. Peterson, G. Stecher, M. Nei, and S. Kumar,
“MEGA5: Molecular Evolutionary Genetics Analysis using Maximum
Likelihood, Evolutionary Distance, and Maximum Parsimony Methods,”
Molecular Biology and Evolution., 2011, Vol. 28(10), pp.2731-2739.
[21] K. Guruprasad, B.V. Reddy, M.W. Pandit, “Correlation Between
Stability of a Protein and its Dipeptide Composition: A Novel Approach
For Predicting In Vivo Stability of a Protein From Its Primary
Sequence,” Protein Eng., 1990, Vol. 4(2), pp.155-61.
@article{"International Journal of Biological, Life and Agricultural Sciences:65121", author = "N. Reehana and A. Parveez Ahamed and D. Mubarak Ali and A. Suresh and R. Arvind Kumar and N. Thajuddin", title = "Structure Based Computational Analysis and Molecular Phylogeny of C- Phycocyanin Gene from the Selected Cyanobacteria", abstract = "Cyanobacteria play a vital role in the production of phycobiliproteins that includes phycocyanin and phycoerythrin pigments. Phycocyanin and related phycobiliproteins have wide variety of application that is used in the food, biotechnology and cosmetic industry because of their color, fluorescent and antioxidant properties. The present study is focused to understand the pigment at molecular level in the Cyanobacteria Oscillatoria terebriformis NTRI05 and Oscillatoria foreaui NTRI06. After extraction of genomic DNA, the amplification of C-Phycocyanin gene was done with the suitable primer PCβF and PCαR and the sequencing was performed. Structural and Phylogenetic analysis was attained using the sequence to develop a molecular model.
", keywords = "Cyanobacteria, C-Phycocyanin gene, Phylogenetic analysis, Structural analysis. ", volume = "7", number = "1", pages = "84-5", }
