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OJBTM

Online Journal of Bioinformatics

Established 1995

ISSN  1443-2250

 

Volume 23 (2):146-161, 2022.


In silico anoxia tolerance gene sequence residues.

 

TK Sahu MSc1, AR Rao PhD1, Alka BG MSc1, BK Behera PhD2,T Mohapatra PhD3.

 

1Indian Agricultural Statistics Research Institute, New Delhi, 2Central Inland Fishery Research Institute, Barrackpore, Kolkata, 3National Research Centre on Plant Biotechnology, New Delhi, India

 

ABSTRACT

Sahu TK, Rao AR, Alka BG, Behera BK, Mohapatra T., In silico anoxia tolerance gene sequence residues, Onl J Bioinfo., 23 (2):146-161, 2022. Vitellogenin (VTG) anoxia tolerant gene exists in fish and oviparous species whereas submergence 1 gene is found in plants such as rice. Due to function, both genes probably have a common evolution. We identify conserved and key residues for anoxia tolerance gene residues across species. Key residues of vitellogenin protein domain gene for Danio rerio were extracted for similarity search in mammals, amphibians, birds and insects. A similar search was done for submergence 1 gene with the plant Oryza spp. Both genes were subjected to multiple sequence alignment. Structure conservation of residues was determined by in silico proteomic analysis. Results suggest that arginine was conserved at a defined position in final alignment identified as key residue responsible for reduced oxygen tolerance across species. By evolution, proteins for submergence tolerance in aquatic plants are very close to proteins for anoxia tolerance in fishes.

 

Keywords: Anoxia, Zebrafish, Vitellogenin, Apolipophorin, Apolipoprotein, Submergence, Oryza sativa, Oryza rufipogon, Oryza nivara, abiotic stress.


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