American Journal of Biotechnology and Bioinformatics


Molecular Docking and Pharmacophore-Based Virtual Screening of Novel Inhibitors for HCV NS5B RNA-Dependent RNA Polymerase Enzyme from Crude Sesame Essential Oil.

Research Article of American Journal of Biotechnology and Bioinformatics Molecular Docking and Pharmacophore-Based Virtual Screening of Novel Inhibitors for HCV NS5B RNA-Dependent RNA Polymerase Enzyme from Crude Sesame Essential Oil. Lukeman A.J Shittu 1, 2*, Abiodun M. Jinadu 2, Remilekun K. Shittu 3, Solomon A. Shittu2. 1.Department of Anatomical Sciences, University of Abuja, Gwagwalada, Abuja, Nigeria. 2.Research and Development Department, Jireh Laboratories International LLC, P. O. Box 1813, Alief Texas, 77411, USA. 3.Department of Microbiology, Jireh International Laboratory, P. O. Box 882, Gwagwalada, Abuja, Nigeria. Concern has been expressed worldwide about the rising prevalence of HCV induced acute hepatitis and chronic liver diseases with associated cirrhosis and liver cancers. However, the available synthetic drugs are ineffective for all the HCV genotypes especially in genotype-1 patients with about 40% viral response rates and numerous side effects. Besides, the availability of veritable bioinformatics tools which includes molecular docking and virtual screening studies have shown that computational generated models nowadays assists in modern drug design and development of novel and more potent inhibitors through the understanding of protein (receptors) -ligand (drugs) interaction mechanisms. Non-structural proteins especially the 5B (NS5B) is an RNA-dependent RNA polymerase implicated in the synthesis and replication of the HCV RNA; and has been a potential target for its inhibitory activities. Due to the paucity of knowledge, we aimed to determine the differential inhibitory activity of essential oils present in the crude Sesame leaves extracts on HCV-NS5B RNA dependent RNA polymerase. Using in-silico studies- a Microsoft pharmacophore-based virtual screening and molecular docking tools on the iGEMDOCK vs 2.0 software was used to dock the essential oil ligands on the generated HCV NS5B (PDB ID: 4EO6) RNA-dependent RNA polymerase protein. GC-MS of the leaves confirmed carboxylic acids and phenolic groups in the essential oils especially some potent antioxidants like alpha-linolenic acid, ...

Comparison of Sequence with Cluster based analysis for molecular properties and composition of Glutathione Peroxidase family proteins

Research Article of American Journal of Biotechnology and Bioinformatics Comparison of Sequence with Cluster based analysis for molecular properties and composition of Glutathione Peroxidase family proteins Shailesh Kumar1*, Sumit Govil2, Vikram Kumar1 ICMR-National Institute of Cholera and Enteric Diseases, Indian Council of Medical Research, P 33 CIT Road, Scheme XM< Beliaghata, Kolkata 700010, West Bengal, India Glutathione peroxidase (GPx) is very important protein helps in eradication of exogenous materials from the body of human reported to do the same work in other organisms. The selenocysteine amino acid contributes to the structure of this protein. Here a comparative study on sequence based methods and property based methods is carried out on all curated sequences of Glutathione Peroxidase for Human. Swiss Prot database was explored and only 65 protein of GPx family was obtained out of which 18 curated sequences were used for further analysis. Sequence based Distance method of Multiple Sequence Analysis is used for finding similar groups. Then all 18 sequences were studied for number of cleavage sites analysis followed by hierarchical clustering which represents cleavage sites based similar groups. Further, these sequences were computed to find amino acid composition and various properties like theoretical PI, Instability Index, Alipahtic Index and Hydropathy, followed by Hierarchical clustering. The interesting fact obtained in this study is that on comparison with the cleavage sites based clustering and amino acid composition with properties based clustering is having similar type of groups. These similar groups are having no relation sequence based methods groups. Hence, we conclude that for finding functional similarity between various sequences clustering of property based methods are more reliable as compared to sequence based methods phylogenetic methods. Keywords: Glutathione Peroxidase; computational analysis; hierarchical clustering; curated; hydropathy ...

Surveillance of enteric parasites in an infectious diseases hospital, Kolkata, India

Research Article of American Journal of Biotechnology and Bioinformatics Surveillance of enteric parasites in an infectious diseases hospital, Kolkata, India Sumallya Karmakar, Shanta Dutta and Sandipan Ganguly* ICMR-National Institute of Cholera and Enteric Diseases, Indian Council of Medical Research, P 33 CIT Road, Scheme XM< Beliaghata, Kolkata 700010, West Bengal, India A hospital-based laboratory surveillance was conducted to study the prevalence and intensity of enteric parasites in India, with a special emphasis on West Bengal. The survey was conducted among the patients admitted between January 2010 and December 2015 to the Infectious Diseases (ID) Hospital with diarrhoeal complaints. The present study reports the occurrence and prevalence of 3 most abundant enteric parasites, viz. Giardia lamblia, Entamoeba histolytica and Cryptosporadium sp. in Kolkata and surrounding. Of the 4208 samples screened during the study period from ID Hospital, 297 (7.05%) were positive for Giardia lamblia, 20 (0.475%) were positive for Entamoeba histolytica and 94 (2.23%) were positive for Cryptosporidium sp. Keywords: Surveillance, enteric parasites, infectious diseases hospital, Kolkata, India ...

Comparitve Effects of Moringa Oleifera Pods, Probiotics and Vitamin E/selenium on Body Weight Gain of Abor- Acre Broiler Chickens

Research Article of American Journal of Biotechnology and Bioinformatics Comparitve Effects of Moringa Oleifera Pods, Probiotics and Vitamin E/selenium on Body Weight Gain of Abor- Acre Broiler Chickens 1*MUSA, I.W., 1BELLO, Y.M. and 2ANDAMIN, A.D. 1Department of Veterinary Medicine, Ahmadu Bello University, Zaria 2Department of Animal Health and Production Technology, Federal College of Horticultural Technology, Dadin-kowa, Gombe State. Phytonutrients are reliable solutions to public health concerns on antibiotic resistance and adverse effects of synthetic growth promoters. This study evaluated the effects of Moringa oleifera pods and probiotic on the growth performance of broiler chickens. A total of 100-day-old ABOR-ACRE broiler chicks with average weight of 38 grams were purchased from a hatchery in Ibadan and used for this study. The chicks were randomly divided into 4 groups (A, B, C and D). Group A was fed basal diet supplemented with air dried Moringa oleifera pods powder at inclusion rate of 50g/kg, group B fed basal diet supplemented with a commercial probiotic (Bactofort®) at 0.5g/kg, group C that was fed commercial feed and supplemented vit E/Selenium in drinking water while group D fed only commercial feed served as control. Chickens in all groups were served same quantities of feed and water ad-libitum. Birds were vaccinated against Newcastle disease (B1 and la Sota live vaccines-IZOVAC®) on days 7, 14 and 28. The birds were weighed weekly and feed intake evaluated. Data were analyzed using simple descriptive statistics and two-way ANOVA. Results showed significant difference (p<0.05) of weight gain of birds fed M. oleifera and probiotic. M. oleifera pods powder significantly improved live weight gain thus serving as alternative to commercial growth promoters in broilers. Keywords: Moringa oleifera, Probiotics, Vitamin E, Growth performance, Broilers ...

Dr. Yousif Mohamed Y. Abdallah
Professor (Assistant), Radiological Science and Medical Imaging Department, College of Applied Medical Sciences, Majmaah University, Majmaah, Saudi Arabia

Dr. Indrasena R Kummetha
University of California San Diego (UCSD), Department of Pediatrics, 9500 Gilman Drive, MC 0762, BRF-11, Room NO:2220, San Diego, California, 92093, USA

Dr. Ayman EL Sabagh
Assistant professor, agronomy department, faculty of agriculture, kafresheikh university, Egypt; visiting scientist at Field Crops Department ,Faculty of Agriculture , Cukurova University, Turkey

Dr. Moustafa M. Zeitoun
Professor, Department of Animal Production, Faculty of Agriculture, University of Alexandria, El-Shatby, Alexandria, Egypt; Department of Animal Production and Breeding, College of Agriculture and Veterinary Medicine, Qassim University

Dr. Zhiqiang Hou
Senior Research Associate, Center for Alzheimer’s and Neurodegenerative Diseases, UT Southwestern Medical Center, Dallas, TX 75390

Dr. Suban K Sahoo
Assistant Professor, Department of Applied Chemistry, S.V. National Institute of Technology (SVNIT) Ichchanath, Surat, Gujrat-395 007, INDIA

Dr. Elsayed Ibrahim Elagamy
Professor of Immunology, Department of Applied Medical Sciences, College of Community (Unaizah), Qassim University, Kingdom of Saudi Arabia.

Dr. Mustafa SEVINDIK
Institute of Science and Technology, Akdeniz University

Dr. Celal Bal
Gaziantep University Oguzeli Vocaitonal School and Higher Education

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1.Lukeman A.J Shittu, Abiodun M Jinadu, Remilekun K. Shittu, Solomon A. Molecular Docking and Pharmacophore-Based Virtual Screening of Novel Inhibitors for HCV NS5B RNA-Dependent RNA Polymerase Enzyme from Crude Sesame Essential Oil. American Journal of Biotechnology and Bioinformatics, 2018; 2:7. DOI: 10.28933/ajobb-2018-04-1601 
2.Sumallya Karmakar et al.,. Surveillance of enteric parasites in an infectious diseases hospital, Kolkata, India. American Journal of Biotechnology and Bioinformatics, 2017; 1:5 . DOI: 10.28933/ajobb-2017-09-2805 

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American Journal of Biotechnology and Bioinformatics

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