| Peer-Reviewed

In Silico Investigations on Basal Stem Rot Disease and Biocontrol in Elaeis Guineensis

Received: 31 July 2015     Accepted: 8 August 2015     Published: 8 September 2015
Views:       Downloads:
Abstract

Palm oil is the main vegetable oil produced in Nigeria and Elaeis guineensis's health is crucial in obtaining maximum production of oil. The genus Ganoderma belongs to the family of Ganodermataceae, which causes white rots of hardwoods in many woody plants like E. guineensis by decomposing their lignin with peroxidase and laccase. Introducing endophytic bacteria to the roots of E. guineensis could lead to suppression in the growth of Ganoderma specie. This study investigated microbial natural biocides capable of controlling basal stem rot disease in E. guineensis. Homology modeling of ganodermal manganese dependent peroxidase and laccase was achieved with ModWeb online tool. Secondary metabolites were manually curated and lignin was modeled as guaiacol. Virtual screening was achieved with AutoDockVina® on Linux platform. The result showed that eight (8) compounds had better binding affinities when compared with guaiacol. Catechin and flavanone are lead secondary metabolites with biocontrol potential against G. lucidium and binds to the same site that guaiacol binds on ganodermal manganese dependent peroxidase and laccase while flavanone binds to a different site on laccase. Stem rot disease in E. guineensis could be better controlled with natural biocides in endophytic bacteria such as catechin and flavanone.

Published in Computational Biology and Bioinformatics (Volume 3, Issue 5)
DOI 10.11648/j.cbb.20150305.12
Page(s) 74-80
Creative Commons

This is an Open Access article, distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution and reproduction in any medium or format, provided the original work is properly cited.

Copyright

Copyright © The Author(s), 2015. Published by Science Publishing Group

Keywords

Elaeis Guineensis, Catechin, Flavanone, Lignin, Laccase, Manganese Peroxidase, G. Lucidium, Bio-Control, Natural Biocides

References
[1] Gourichon H, (2013) Analysis of incentives and disincentives for Palm Oil in Nigeria. Technical notes series, MAFAP, FAO, Rome.
[2] Hepting G.H (1971) Diseases of forest and shade trees of the United States. In: Flood J, Bridge PD Holderness M (eds) Ganoderma diseases of perennial crops. CABI Publisher, UK
[3] Naher, L., Yusuf, U. K., Ismail, A., Tan, S. G and Mondal, M.M.A. (2013) Ecological status of Ganodermaand basal stem rot disease of oil palms (Elaeis guineensis Jacq.) Australian Journal of Crop Science 7(11):1723-1727
[4] Ariffin, D., Idris, A. S., Singh, G., (2000) Status of Ganoderma in oil palm. In: Flood, J., Bridge, P. D., Holderness, M. (Eds.), Ganoderma Diseases of Perennial Crops. CABI Publishing, Wallingford, UK, pp. 49–68.
[5] Turner, P. D. (1981): Oil Palm Diseases and Disorders. The Incorporated Society of Planters, Kuala Lumpur, Malaysia
[6] Wasser S. P and Weis A. L (1999) Medicinal properties of substances occurring in higher basidiomycetes mushrooms: Current Perspectives. Int. J Med Mushrooms 1: 31-62
[7] Keller, A. C., Keller, J., Maillard, M. P., Hostettmann, K. (1997): A lanostane-type steroid from the fungus Ganoderma carnosum, Phytochemistry 46:963—965
[8] Paterson R. R. M. (2007) Ganoderma disease of oil palm—A white rot perspective necessary for integrated control Crop Protection 26:1369–1376
[9] Jasmina L J. Simoniã, J. B., Vukojeviã, M. M., Stajiã, J. M. G (2009) effect of cultivation conditions on ligninolytic enzyme production by Ganoderma carnosum Proc. Nat. Sci. 116, 289—295
[10] Soepena, H., Purba, R. Y. and Pawirosukarto, S. (2000) A control strategy forbasal stem rot (Ganoderma) on oil palm. In: Flood, J. et al. (eds.), Ganoderma Disease of Perennial Crops, CAB International, UK Pp 83–8.
[11] Azevedo, J. L., Maccheroni, J. W., Pereira O. J. and Araujo, L.W. (2000) Endophytic microorganisms: A review on insect control and recent advance on tropical plants. J. Biotechnol., 3: 40–65
[12] Sapak, Z., Meon, S. and Ahmad, Z. A. M. (2008) Effect of endophytic bacteria on growth and suppression of Ganoderma infection in oil palm. Int. J. Agri. Biol., 10: 127–32.
[13] Compant, S., Nowak, J., Coenye, T., Clement, C., AitBarka, E. (2008) Diversity and occurrence of Burkholderia spp. In the natural environment FEMS Microbiol Rev 32(4): 607-626 doi:10.1111/j.1574-6976.2008.00113.x
[14] Elshafie H. S., Bufo S. A., Racioppi R. and Camele I. (2013) Biochemical Characterization of Volatile Secondary Metabolites Produced by Burkholderia gladioli pv. agaricicola. International Journal of Drug Discovery 5 (1): 181-184.
[15] Elshafie, H. S.,Camele, I., Racioppi, R., Scrano, L., Iacobellis, N. S. and Bufo, S. A. (2012) In Vitro Antifungal Activity of Burkholderia gladioli pv.agaricicola against Some Phytopathogenic Fungi Int. J. Mol. Sci. 2012, 13, 16291-16302; doi:10.3390/ijms131216291
[16] Pieper, U., Webb, B. M., Dong, G. Q., Schneidman-Duhovny, D., Fan, H., Kim, S. J., Khuri, N., Spill, Y. G., Weinkam, P., Hammel, M., Tainer, J. A., Nilges, M and Sali A (2013) ModBase, a database of annotated compiarative protein structure models and associated resources Nucleic Acid Research 2013 1-11 doi:10.1093/nar/gkt1144
[17] Eramian, D., Eswar, N, Shen, M and Sali A (2008) How well can the accuracy of comparative protein structure models be predicted? Protein Sci. 17: 1881-1893
[18] Pettersen, E. F., Goddard, T. D., Huang, C. C., Couch, G. S., Greenblatt, D. M., Meng, E.C. and Ferrin, T.E. (2004).UCSF Chimera--a visualization system for exploratory research and analysis. Journal of Computational Chemistry 25(13):1605-1617.
[19] Fiser, A., Do, R. K., and Sali, A. (2000) Modeling of loops in protein structures. Protein Sci. 9: 1753–1773.
[20] Sali, A. and Blundell, T. L (1993) Comparative protein modelling by satisfaction of spatial restraints. J. Mol. Biol. 234: 779–815.
[21] Sali A (2014) MODELLER: A program for protein structure modeling release 9.14, r10167
[22] Trott, O. and Olson, A. J. (2010) AutoDockVina: improving the speed and accuracy of docking with a new scoring function, efficient optimization andmulti-threading. Journal of Computational Chemistry 31: 455-461.
[23] Michel, F. S. (1999). Python: A Programming Language for Software Integration and Development. J. Mol. Graphics Mod.; 17:57-61.
[24] Morris, G. M., Huey, R., Lindstrom, W., Sanner, M. F., Belew, R. K., Goodsell, D. S. and Olson, A. J. (2009). Autodock4 and AutoDockTools4: automated docking with selective receptor flexiblity. Journal of Computational Chemistry 16: 2785-2876
[25] Wahyudiono, T. K., Sasaki M. and Goto, M. (2007) Decomposition of a Lignin Model Compound under Hydrothermal Conditions Chemical Engineering &Technology30 (8) 1113–1122
[26] Del Río, J. A., Gómez, P., Báidez, A., Fuster, M. A D., Ortuño, A and Frías, V (2004) Phenolic compounds have a role in the defence mechanism protecting grapevine against the fungi involved in Petri disease Phytopathol. Mediterr. 43, 87–94
[27] Maheshwari D. K (2010) Plant growth and health promoting bacteria Srpinger Verlag Berlin Heidelberg, Germany Pp 130-135
[28] Irwin, J. J., Sterling, T., Mysinger, M. M., Bolstad, E. S., and Coleman, R. G (2012) ZINC: A Free Tool to Discover Chemistry for Biology Journal of Chemical Information and Modeling 52 1757−1768
[29] Keshavarz, F., Alavianmehr, M. M. and Yousefi, R. (2013).Molecular interaction of Benzalkonium Iburofenate and its Discrete Ingredients with Human Serum Albumin. Phys. Chem. Res; 1(2): 111 – 116.
Cite This Article
  • APA Style

    Ezebuo Fortunatus Chidolue, Lukong Colin Banboye, Okafor Irene Ngozi, Onuoha Maxwell Chijioke. (2015). In Silico Investigations on Basal Stem Rot Disease and Biocontrol in Elaeis Guineensis. Computational Biology and Bioinformatics, 3(5), 74-80. https://doi.org/10.11648/j.cbb.20150305.12

    Copy | Download

    ACS Style

    Ezebuo Fortunatus Chidolue; Lukong Colin Banboye; Okafor Irene Ngozi; Onuoha Maxwell Chijioke. In Silico Investigations on Basal Stem Rot Disease and Biocontrol in Elaeis Guineensis. Comput. Biol. Bioinform. 2015, 3(5), 74-80. doi: 10.11648/j.cbb.20150305.12

    Copy | Download

    AMA Style

    Ezebuo Fortunatus Chidolue, Lukong Colin Banboye, Okafor Irene Ngozi, Onuoha Maxwell Chijioke. In Silico Investigations on Basal Stem Rot Disease and Biocontrol in Elaeis Guineensis. Comput Biol Bioinform. 2015;3(5):74-80. doi: 10.11648/j.cbb.20150305.12

    Copy | Download

  • @article{10.11648/j.cbb.20150305.12,
      author = {Ezebuo Fortunatus Chidolue and Lukong Colin Banboye and Okafor Irene Ngozi and Onuoha Maxwell Chijioke},
      title = {In Silico Investigations on Basal Stem Rot Disease and Biocontrol in Elaeis Guineensis},
      journal = {Computational Biology and Bioinformatics},
      volume = {3},
      number = {5},
      pages = {74-80},
      doi = {10.11648/j.cbb.20150305.12},
      url = {https://doi.org/10.11648/j.cbb.20150305.12},
      eprint = {https://article.sciencepublishinggroup.com/pdf/10.11648.j.cbb.20150305.12},
      abstract = {Palm oil is the main vegetable oil produced in Nigeria and Elaeis guineensis's health is crucial in obtaining maximum production of oil. The genus Ganoderma belongs to the family of Ganodermataceae, which causes white rots of hardwoods in many woody plants like E. guineensis by decomposing their lignin with peroxidase and laccase. Introducing endophytic bacteria to the roots of E. guineensis could lead to suppression in the growth of Ganoderma specie. This study investigated microbial natural biocides capable of controlling basal stem rot disease in E. guineensis. Homology modeling of ganodermal manganese dependent peroxidase and laccase was achieved with ModWeb online tool. Secondary metabolites were manually curated and lignin was modeled as guaiacol. Virtual screening was achieved with AutoDockVina® on Linux platform. The result showed that eight (8) compounds had better binding affinities when compared with guaiacol. Catechin and flavanone are lead secondary metabolites with biocontrol potential against G. lucidium and binds to the same site that guaiacol binds on ganodermal manganese dependent peroxidase and laccase while flavanone binds to a different site on laccase. Stem rot disease in E. guineensis could be better controlled with natural biocides in endophytic bacteria such as catechin and flavanone.},
     year = {2015}
    }
    

    Copy | Download

  • TY  - JOUR
    T1  - In Silico Investigations on Basal Stem Rot Disease and Biocontrol in Elaeis Guineensis
    AU  - Ezebuo Fortunatus Chidolue
    AU  - Lukong Colin Banboye
    AU  - Okafor Irene Ngozi
    AU  - Onuoha Maxwell Chijioke
    Y1  - 2015/09/08
    PY  - 2015
    N1  - https://doi.org/10.11648/j.cbb.20150305.12
    DO  - 10.11648/j.cbb.20150305.12
    T2  - Computational Biology and Bioinformatics
    JF  - Computational Biology and Bioinformatics
    JO  - Computational Biology and Bioinformatics
    SP  - 74
    EP  - 80
    PB  - Science Publishing Group
    SN  - 2330-8281
    UR  - https://doi.org/10.11648/j.cbb.20150305.12
    AB  - Palm oil is the main vegetable oil produced in Nigeria and Elaeis guineensis's health is crucial in obtaining maximum production of oil. The genus Ganoderma belongs to the family of Ganodermataceae, which causes white rots of hardwoods in many woody plants like E. guineensis by decomposing their lignin with peroxidase and laccase. Introducing endophytic bacteria to the roots of E. guineensis could lead to suppression in the growth of Ganoderma specie. This study investigated microbial natural biocides capable of controlling basal stem rot disease in E. guineensis. Homology modeling of ganodermal manganese dependent peroxidase and laccase was achieved with ModWeb online tool. Secondary metabolites were manually curated and lignin was modeled as guaiacol. Virtual screening was achieved with AutoDockVina® on Linux platform. The result showed that eight (8) compounds had better binding affinities when compared with guaiacol. Catechin and flavanone are lead secondary metabolites with biocontrol potential against G. lucidium and binds to the same site that guaiacol binds on ganodermal manganese dependent peroxidase and laccase while flavanone binds to a different site on laccase. Stem rot disease in E. guineensis could be better controlled with natural biocides in endophytic bacteria such as catechin and flavanone.
    VL  - 3
    IS  - 5
    ER  - 

    Copy | Download

Author Information
  • Department of Biochemistry, Faculty of Natural Sciences, Chukwuemeka Odumegwu Ojukwu University, Uli, Anambra State, Nigeria

  • Department of Biochemistry, Faculty of Natural Sciences, Chukwuemeka Odumegwu Ojukwu University, Uli, Anambra State, Nigeria

  • Department of Biochemistry, Faculty of Natural Sciences, Chukwuemeka Odumegwu Ojukwu University, Uli, Anambra State, Nigeria

  • Department of Medical Biochemistry, Faculty of Basic Medical Sciences, Federal University Ndufu-Alike Ikwo, Ebonyi State, Nigeria

  • Sections