In Silico Identification of Novel Candidate Drug Targets in Haemophilus Influenzae Rd KW20
International Journal of Genetics and Genomics
Volume 2, Issue 4, August 2014, Pages: 62-67
Received: Jul. 21, 2014; Accepted: Aug. 7, 2014; Published: Aug. 20, 2014
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Ranjith Kumavath, Department of Genomic Sciences, School of Biological Sciences, Central University of Kerala, P.O. Central University, Kasaragod- 671314, India
Swaraj Prasad, Department of Genomic Sciences, School of Biological Sciences, Central University of Kerala, P.O. Central University, Kasaragod- 671314, India
Pratap Devarapalli, Department of Genomic Sciences, School of Biological Sciences, Central University of Kerala, P.O. Central University, Kasaragod- 671314, India; Genomics & Molecular Medicine Unit, Institute of Genomics and Integrative Biology Council of Scientific and Industrial Research, Mathura Road, New Delhi-110025, INDIA
Debmalya Barh, Centre for Genomics and Applied Gene Technology, Institute of Integrative Omics and Applied Biotechnology (IIOAB), Nonakuri, PurbaMedinipur, West Bengal-721172, INDIA
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Background: Globally, respiratory diseases cause an estimated 1.9 million deaths per year. One of the most important aetiological organisms of both adult and childhood respiratory disease is Non-Typeable Haemophilus influenzae (NTHi). NTHi is frequently isolated from the respiratory tract during episodes of sinusitis, Otitis Media and pneumonia and is the most common cause of Chronic Obstructive Pulmonary Disease (COPD) and bronchiectasis exacerbations. Methods: The work has been effectively complemented with the compilation of the Database of Essential Genes (DEG) of H. influenzae Rd KW20. Each protein is subjected to BLASTP in NCBI server The candidate drug targets are determined by KAAS (KEGG Automatic Annotation Server), KEGG ORTHOLOGY and KEGG GENES. Results: The given gram negative bacteria H. influenzae Rd KW20 has six distinguished domains i.e., cytoplasmic, cytoplasmic membrane, periplasmic, outer membrane, extracellular and unknown domains. Out of 642 essential genes, the predicted non-human Homologous are 412 in the different domain of given bacteria. With the help of KAAS (KEGG Automatic Annotation Server), KEGG ORTHOLOGY and KEGG GENES, we successfully identified 35 novel drug targets which have common metabolic pathways both in host and pathogen & pathogen specific metabolic pathways. Conclusion: The novel drug targets suggest those genes which are active in both the host and pathogen metabolic pathway and should be a pathogen specific metabolic pathway. The important drug target regions are vacJ, lepB, emrB, MurG & dgkA. vacJ is present in outer membrane while lepB, emrB, MurG&dgkA are present in cytoplasmic membrane. All these genes are fully sequenced and specifically annotated in KEGG PATHWAY.
NTHi (Non-Typeable H. Influenzae), NP (Non-Typeable) , DEG (Database of Essential Genes), Rd (Rough Derivative), ChoP (Phosphorylcholine), COPD (Chronic Obstructive Pulmonary Disease), SVM (Support Vector Machine), SCL (Subcellular Localization)
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Ranjith Kumavath, Swaraj Prasad, Pratap Devarapalli, Debmalya Barh, In Silico Identification of Novel Candidate Drug Targets in Haemophilus Influenzae Rd KW20, International Journal of Genetics and Genomics. Vol. 2, No. 4, 2014, pp. 62-67. doi: 10.11648/j.ijgg.20140204.13
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