Year: 2021 | Month: February | Volume 11 | Issue 1
In Silico Characterization of β-Defensin-1 Complementary Deoxyribonucleic Acid from Osmanabadi Goat
Vipul
Abhijit K Barate
Tejas C Shende
DOI:10.30954/2277-940X.01.2021.16
Abstract:
Beta-defensins are cationic antimicrobial peptides (AMPs) involved in resistance against microbial colonization. In this study total RNA was extracted from tongue of Osmanabadi goats and used to synthesize β-Defensin-1 complementary deoxyribonucleic Acid (cDNA) using reverse transcriptase. In this study in silico characterization of Osmanabadi goat β-Defensin-1 cDNA and its deduced peptide was carried out using PCR, Sequencing and DNAstar programme. CDS of Osmanabadi goat β-Defensin-1 consists of 195 nucleotides encoding a protein of 64 amino acids. Multiple alignment at nucleotide level revealed that Osmanabadi goat β-Defensin-1 had high homology with goat bD1-Y17679, Assam Hill goat Defensin, goat XM_018042143, and goat bD2-AJ009877 sequence. Similarly, multiple alignment at the amino acid level revealed that Osmanabadi goat β-Defensin-1 had high identity with goat bD1- O97946, Assam Hill goat-AST23025, goat- XP_017897632 and goat bD2- 097942 peptides. Phylogenetic tree analysis revealed that β-Defensin-1 of Osmanabadi goat, both at nucleotide and amino acid level, is closely related to goat, sheep and Reindeer sequences. The Osmanabadi goat β-Defensin-1 cDNA sequence is identical to goat β-Defensin-1 reported from USA. No nucleotide substitution/ change was observed in Osmanabadi goat β-Defensin-1 compared to β-Defensin-1 of goat from USA. It also showed high percentage of identity with goat defensin-1 related molecules. Structure prediction using Phyre2 revealed goat β-Defensin-1 had structural similarity with bovine neutrophil beta-defensin 12.
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