In-silico comparative analysis of structural and functional levels of ascorbate peroxidase and glutathione peroxidase in chlorophyta

Sarkar Subhamay1, Kumari Archana1


Research Articles | Published:

Print ISSN : 0970-4078.
Online ISSN : 2229-4473.
Website:www.vegetosindia.org
Pub Email: contact@vegetosindia.org
Doi: 10.5958/2229-4473.2018.00080.0
First Page: 101
Last Page: 112
Views: 66


Keywords: Chlorophyta, Ascorbate peroxidise, Glutathione peroxidise, Cytoscape, <I>A rabidopsis thaliana</I>.


Abstract


Chlorophyta is used as a model organism to understand physiological and biological activities of plant cells. Ascorbate peroxidase (APX) and Glutathione peroxidase (GPX) are scavenging enzymes to reduce lipid hydroperoxides and free H2O2 and thus prevent potential H2O2 induced cellular damage. In the present study; we performed in-silico comparative evaluation of GPX and APX of 7 Chlorophytes to analyse their natural and complex regulation.

We analysed the exon/intron organization by Gene Structure Display Server 2.0, physiochemical properties by ProtParam tool, conserved motif signatures by Motif Elicitation tool and phylogenetic relationships by Molecular Evolutionary Genetics Analysis 6.0 tool. We generated 3D models of GPX and APX homolog sequences by Phyre2 server and protein-protein interaction networks among the GPX and APX homolog sequences by Cytoscape. The GPX and APX gene expression profiles were studied by utilizing Genevestigator database.

Out of the 7 species; in 5 species we found 9 GPX homolog sequence. 19 homolog sequences of APX were found in all 7 species. GPX and APX homologs belonged to GSHPx (PF00255.18) and peroxidase (PF00141.22) protein domain families respectively. We found exon in GPX homolog ranging from 1–10 nos. and in APX from 1–11 nos. The sequence length, molecular weight and theoretical isoelectric point (pI) values were determined. The potential expression profile of GPX and APX genes were analysed at 105 anatomical parts and 10 developmental stage levels by comparing with A rabidopsis thaliana. Analysed GPX and APX sequences were expressed in 105 anatomical tissues and 10 developmental stages in A. thaliana.


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References



Acknowledgements



Author Information


Sarkar Subhamay1 Kumari Archana1
1BIF. Bodoland University, Kokrajhar, Assam

2Department of Biotechnology and Coordinator, DBT (Govt. of India) sponsored Bioinformatics Infrastructure Facility, Bodoland University, Kokrajhar, Assam. PIN-783370

*Corresponding author: Department of Biotechnology and Coordinator, Bioinformatics Infrastructure Facility, Bodoland University, Kokrajhar, Assam-783370, Email: jatinsarmahindia@gmail.com