BACK TO CONTENTS   |    PDF   |    PREVIOUS   |    NEXT

Title

Computational analysis of common bean (Phaseolus vulgaris L., genotype BAT93) lycopene -cyclase and -carotene hydroxylase genes cDNA

 

Authors

Subhash Janardhan Bhore1, 2*, Kassim Amelia1, 2, Edina Wang2, Sindhuja Priyadharsini2 & Farida Habib Shah1, 3

 

Affiliation

1Molecular Biology Division, Melaka Institute of Biotechnology, Lot 7, Melaka International Trade Centre City, 75450 Ayer Keroh, Melaka, Malaysia; 2Department of Biotechnology, Faculty of Applied Sciences, AIMST University, Bedong-Semeling Road, Bedong, 08100, Kedah, Malaysia; 3Novel Plants Sdn. Bhd., 27C Jln Petaling Utama 12, 7.5 miles Old Klang Road, 46000 Petaling Jaya, Malaysia.

 

Email

subhashbhore@gmail.com; *Corresponding author

 

Article Type

Hypothesis

 

Date

Received December 09, 2012; Accepted December 21, 2012; Published February 21, 2013

 

Abstract

The identification of genes and understanding of genes expression and regulation in common bean (Phaseolus vulgaris L.) is necessary in order to strategize its improvement using genetic engineering techniques. Generation of expressed sequence tags (ESTs) is useful in rapid isolation, identification and characterization of the genes. To study the gene expression in P. vulgaris pods tissue, ESTs generation work was initiated. Early stage and late stage bean-pod-tissues cDNA libraries were constructed using CloneMiner cDNA library construction kit. In total, 5972 EST clones were isolated using random method of gene isolation. While processing ESTs, we found lycopene -cyclase (PvLCY-) and -carotene hydroxylase (PvCHY-) genes cDNA. In carotenoid biosynthesis pathway, PvLCY- catalyzes the production of carotene; and PvCHY- is known to function as a catalyst in the production of lutein and zeaxanthin. To understand more about PvLCY- and PvCHY-, both strands of both cDNA clones were sequenced using M13 forward and reverse primers. Nucleotide and deduced protein sequences were analyzed and annotated using online bioinformatics tools. Results showed that PvLCY- and PvCHY- cDNAs are 1639 and 1107 bp in length, respectively. Analysis results showed that PvLCY- and PvCHY- genes cDNA contains an open reading frame (ORF) that encodes for 502 and 305 amino acid residues, respectively. The deduced protein sequence analysis results also showed the presence of conserved domains needed for PvLCY- and PvCHY- functions. The phylogenetic analysis of both PvLCY- and PvCHY- proteins showed its closeness with the LCY- and CHY- proteins from Glycine max, respectively. The nucleotide sequence of PvLCY- and PvCHY- genes cDNA and its annotation is reported in this paper.

 

Keywords

Expressed sequence tags, Genetic engineering, Health, Human population, Malaysia, Natural products, Nutrition, Phaseomics, Proteins, Vegetables.

 

Citation

Bhore et al.   Bioinformation 9(4): 197-206 (2013)

 

Edited by

P Kangueane

 

ISSN

0973-2063

 

Publisher

Biomedical Informatics

 

License

This is an Open Access article which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly credited. This is distributed under the terms of the Creative Commons Attribution License.