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Current IssueEditorial BoardOnline First ArticlesArchive

volume 37 issue 2 (april 2014) : 133-138,   Doi: 10.5958/j.0976-0571.37.2.020

IN-SILICO VALIDATION and Comparative analysis OF CANDIDATE GENE ENCODING PROLINE RICH PROTEIN IN LENS CULINARIS

J
Jitender Singh*
J
Juhi Bhardwaj
P
Pankaj Kumar
P
Priya Tomar
A
Anchal Rani
R
Rosy Rani
A
Amit Kumar Singh
A
Anil Sirohi
1College of Biotechnology S.V.P. University of Agric. and Technology, Modipuram-250 110, India
Cite article:- Singh* Jitender, Bhardwaj Juhi, Kumar Pankaj, Tomar Priya, Rani Anchal, Rani Rosy, Singh Kumar Amit, Sirohi Anil (2025). IN-SILICO VALIDATION and Comparative analysis OF CANDIDATE GENE ENCODING PROLINE RICH PROTEIN IN LENS CULINARIS. Legume Research. 37(2): 133-138. doi: 10.5958/j.0976-0571.37.2.020.

ABSTRACT

In present study a proline rich protein has been identified in lentil EST database using (soyabean) glycine max proline rich protein sequence as query sequence known to be down regulated in response to salinity and drought stress. Sequence similarity search has shown 90 % similarity with chickpea EST sequence Accesion no. GR 398344 and 85% similarity with Lens culinaris EST sequence Accession no. GT 622346. Primer pairs were designed for this sequence and validated on selective Lens culinaris cultivars.  tblastx   result has also shown similarity with the glycine max (Soybean) proline rich protein showing repetitive pattern of amino acids . Repetitive pattern observed was similar to the characteristic pattern present in proline rich protein. Identification of this gene will further help to study the role of proline rich protein in response to various biotic and abiotic stress.

REFERENCES

  1. Bouton, S., Viau L., Lelievre, E. and Limami, A.M. (2005). A gene encoding a protein with a proline-rich domain (MtPPRD1), revealed by suppressive subtractive hybridization (SSH), is specifically expressed in the Medicago truncatula embryo axis during germination. J Exp Bot., 56: 825–832.
  2. Chen, J. and Varner, J. E. (1985). An extracellular matrix protein in plants: characterization of a genomic clone for carrot extension. EMBO J., 4: 2145–2151.
  3. Deutch, C.E, and Winicov, I. (1995). Post-transcriptional regulation of a salt-inducible alfalfa gene encoding a putative chimeric proline-rich cell wall protein. Plant Mol Biol., 27: 411–418.
  4. Fowler, T. J., Bernhardt, C. and Tierney, M. L. (1999). Characterization and Expression of Four Proline-Rich Cell Wall Protein Genes in Arabidopsis Encoding Two Distinct Subsets of Multiple Domain Proteins. Plant Physiol., 121: 1081–1091
  5. Gothandam, K. M., Nalini, E., Karthikeyan, S. and Shin, J. S. (2010). OsPRP3, a flower specific proline-rich protein of rice, determines extracellular matrix structure of floral organs and its overexpression confers cold-tolerance. Plant Mol Biol., 72:125-135
  6. Hall, T. A. (1999). BioEdit: a user friendly biological sequence alignment editor and analysis program for Windows 95/    98/NT. Nucleic Acids Symp. Ser., 41:95-98.
  7. Harrak, H., Chamberland, H., Plante, M., Bellemare, G., Lafontaine, J.G. and Tabaeizadeh, Z. (2001). A Proline-, Threonine-, and Glycine-Rich Protein Down-Regulated by Drought Is Localized in the Cell Wall of Xylem Elements. Plant Physiol., 121: 557–564.
  8. He, C.Y., Zhang, J.S. and Chen, S.Y. (2001). A soybean gene encoding a proline-rich protein is regulated by salicylic acid, an endogenous circadian rhythm and by various stresses. Theor. Appl. Genet., 104:1125–1131.
  9. Hong, J.C., Nagao, R.T. and Key, J.L. (1987). Characterization of a proline-rich cell wall protein gene family of soybean: A comparative analysis. J Biol Chem., 262:8367–8376.
  10. Marcus, A., Greenberg, J. and Fullard, A.V. (1991). Repetitive proline-rich proteins in the extracellular matrix of the plant cell. Physiol Plant., 81: 273–279
  12. Sambrook, J. and Russell, D. W (2001). Molecular Cloning: A Laboratory Manual, Cold Spring Harbor Laboratory Press, New York,
  13. Sheng, J., Ovidio, R. D. and Mehdy, M.C. (1991). Negative and positive regulation of a novel proline-rich protein mRNA by fungal elicitor and wounding. Plant J., 1: 345–354.
  14. Tabaeizadeh, Z. (1998). Drought-induced responses in plant cells. Rev Cyt., 182: 193–247.
  15. Tierney, M.L., Wiechert, J. and Pluymers, D. (1988). Analysis of the expression of extensin and p33-related cell wall proteins in carrot and soybean Mol Gen Genet., 211:393–399.
  16. Varner, J.E. and Lin, L.S. (1989). Plant cell wall architecture. Cell, 56: 231–239.
  17. Wang, R., Chong, K. and Wang, T. (2006). Divergence in spatial expression patterns and in response to stimuli of tandem-repeat paralogues encoding a novel class of proline-rich proteins in Oryza sativa. J Exp Bot., 57:2887–2897.
  18. Wilson, R.C. and Cooper, J.B. (1994). Characterization of PRPl and PRP2 from Medicago trunca tula. Plant Physiol., 105:445–446
  19. Ye, Z. H. and Varner, J. E. (1991). Tissue-specific expression of cell wall proteins in developing soybean tissues. Plant Cell, 3: 23–37.
  20. Zohary, D. (1972). The wild progenitor and place of origin of the cultivated lentil. Lens culinaris. Economic Botany, 26:326–332.
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    volume 37 issue 2 (april 2014) : 133-138,   Doi: 10.5958/j.0976-0571.37.2.020

    IN-SILICO VALIDATION and Comparative analysis OF CANDIDATE GENE ENCODING PROLINE RICH PROTEIN IN LENS CULINARIS

    J
    Jitender Singh*
    J
    Juhi Bhardwaj
    P
    Pankaj Kumar
    P
    Priya Tomar
    A
    Anchal Rani
    R
    Rosy Rani
    A
    Amit Kumar Singh
    A
    Anil Sirohi
    1College of Biotechnology S.V.P. University of Agric. and Technology, Modipuram-250 110, India
    Cite article:- Singh* Jitender, Bhardwaj Juhi, Kumar Pankaj, Tomar Priya, Rani Anchal, Rani Rosy, Singh Kumar Amit, Sirohi Anil (2025). IN-SILICO VALIDATION and Comparative analysis OF CANDIDATE GENE ENCODING PROLINE RICH PROTEIN IN LENS CULINARIS. Legume Research. 37(2): 133-138. doi: 10.5958/j.0976-0571.37.2.020.

    ABSTRACT

    In present study a proline rich protein has been identified in lentil EST database using (soyabean) glycine max proline rich protein sequence as query sequence known to be down regulated in response to salinity and drought stress. Sequence similarity search has shown 90 % similarity with chickpea EST sequence Accesion no. GR 398344 and 85% similarity with Lens culinaris EST sequence Accession no. GT 622346. Primer pairs were designed for this sequence and validated on selective Lens culinaris cultivars.  tblastx   result has also shown similarity with the glycine max (Soybean) proline rich protein showing repetitive pattern of amino acids . Repetitive pattern observed was similar to the characteristic pattern present in proline rich protein. Identification of this gene will further help to study the role of proline rich protein in response to various biotic and abiotic stress.

    REFERENCES

    1. Bouton, S., Viau L., Lelievre, E. and Limami, A.M. (2005). A gene encoding a protein with a proline-rich domain (MtPPRD1), revealed by suppressive subtractive hybridization (SSH), is specifically expressed in the Medicago truncatula embryo axis during germination. J Exp Bot., 56: 825–832.
    2. Chen, J. and Varner, J. E. (1985). An extracellular matrix protein in plants: characterization of a genomic clone for carrot extension. EMBO J., 4: 2145–2151.
    3. Deutch, C.E, and Winicov, I. (1995). Post-transcriptional regulation of a salt-inducible alfalfa gene encoding a putative chimeric proline-rich cell wall protein. Plant Mol Biol., 27: 411–418.
    4. Fowler, T. J., Bernhardt, C. and Tierney, M. L. (1999). Characterization and Expression of Four Proline-Rich Cell Wall Protein Genes in Arabidopsis Encoding Two Distinct Subsets of Multiple Domain Proteins. Plant Physiol., 121: 1081–1091
    5. Gothandam, K. M., Nalini, E., Karthikeyan, S. and Shin, J. S. (2010). OsPRP3, a flower specific proline-rich protein of rice, determines extracellular matrix structure of floral organs and its overexpression confers cold-tolerance. Plant Mol Biol., 72:125-135
    6. Hall, T. A. (1999). BioEdit: a user friendly biological sequence alignment editor and analysis program for Windows 95/    98/NT. Nucleic Acids Symp. Ser., 41:95-98.
    7. Harrak, H., Chamberland, H., Plante, M., Bellemare, G., Lafontaine, J.G. and Tabaeizadeh, Z. (2001). A Proline-, Threonine-, and Glycine-Rich Protein Down-Regulated by Drought Is Localized in the Cell Wall of Xylem Elements. Plant Physiol., 121: 557–564.
    8. He, C.Y., Zhang, J.S. and Chen, S.Y. (2001). A soybean gene encoding a proline-rich protein is regulated by salicylic acid, an endogenous circadian rhythm and by various stresses. Theor. Appl. Genet., 104:1125–1131.
    9. Hong, J.C., Nagao, R.T. and Key, J.L. (1987). Characterization of a proline-rich cell wall protein gene family of soybean: A comparative analysis. J Biol Chem., 262:8367–8376.
    10. Marcus, A., Greenberg, J. and Fullard, A.V. (1991). Repetitive proline-rich proteins in the extracellular matrix of the plant cell. Physiol Plant., 81: 273–279
    12. Sambrook, J. and Russell, D. W (2001). Molecular Cloning: A Laboratory Manual, Cold Spring Harbor Laboratory Press, New York,
    13. Sheng, J., Ovidio, R. D. and Mehdy, M.C. (1991). Negative and positive regulation of a novel proline-rich protein mRNA by fungal elicitor and wounding. Plant J., 1: 345–354.
    14. Tabaeizadeh, Z. (1998). Drought-induced responses in plant cells. Rev Cyt., 182: 193–247.
    15. Tierney, M.L., Wiechert, J. and Pluymers, D. (1988). Analysis of the expression of extensin and p33-related cell wall proteins in carrot and soybean Mol Gen Genet., 211:393–399.
    16. Varner, J.E. and Lin, L.S. (1989). Plant cell wall architecture. Cell, 56: 231–239.
    17. Wang, R., Chong, K. and Wang, T. (2006). Divergence in spatial expression patterns and in response to stimuli of tandem-repeat paralogues encoding a novel class of proline-rich proteins in Oryza sativa. J Exp Bot., 57:2887–2897.
    18. Wilson, R.C. and Cooper, J.B. (1994). Characterization of PRPl and PRP2 from Medicago trunca tula. Plant Physiol., 105:445–446
    19. Ye, Z. H. and Varner, J. E. (1991). Tissue-specific expression of cell wall proteins in developing soybean tissues. Plant Cell, 3: 23–37.
    20. Zohary, D. (1972). The wild progenitor and place of origin of the cultivated lentil. Lens culinaris. Economic Botany, 26:326–332.
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