New insights into the codon usage patterns of the bactericidal/permeability-increasing (BPI) gene across nine species.
Bactericidal/permeability-increasing (BPI) protein is a member of a new generation of proteins known as super-antibiotics that are implicated as endotoxin neutralising agents. Non-uniform usage of synonymous codons for a specific amino acid during translation of a protein is known as codon usage bias (CUB). Analysis of CUB and compositional dynamics of coding sequences could contribute to a better understanding of the molecular mechanism and the evolution of a particular gene. In this study, we performed CUB analysis of the complete coding sequences of the BPI gene from nine different species. The codon usage patterns of BPI across different species were found to be influenced by GC bias, particularly GC3s, with a moderate bias in the codon usage of BPI. We found significant similarities in the codon usage patterns in BPI gene among closely related species, such as Sus_scrofa and Bos_taurus. Moreover, we observed evolutionary conservation of the most over-represented codon CUG for the amino acid leucine in the BPI gene across all species. In conclusion, our analysis provides a novel insight into the codon usage patterns of BPI. This information facilitates an improved understanding of the structural, functional and evolutionary significance of BPI gene among species, and provides a theoretical reference for developing antiseptic drug proteins with high efficiency across species.
Key Laboratory for Animal Genetics, Breeding, Reproduction and Molecular Design of Jiangsu Province, College of Animal Science and Technology, Yangzhou University, Yangzhou, Jiangsu, PR China.
Wei-Yun
WY
Qin
Key Laboratory for Animal Genetics, Breeding, Reproduction and Molecular Design of Jiangsu Province, College of Animal Science and Technology, Yangzhou University, Yangzhou, Jiangsu, PR China.
Li-Na
LN
Gan
Key Laboratory for Animal Genetics, Breeding, Reproduction and Molecular Design of Jiangsu Province, College of Animal Science and Technology, Yangzhou University, Yangzhou, Jiangsu, PR China.
Ri-Wei
RW
Xia
Key Laboratory for Animal Genetics, Breeding, Reproduction and Molecular Design of Jiangsu Province, College of Animal Science and Technology, Yangzhou University, Yangzhou, Jiangsu, PR China.
Shou-Yong
SY
Sun
College of Veterinary Medicine, Yangzhou University, Yangzhou, Jiangsu, PR China.
Guo-Qiang
GQ
Zhu
Key Laboratory for Animal Genetics, Breeding, Reproduction and Molecular Design of Jiangsu Province, College of Animal Science and Technology, Yangzhou University, Yangzhou, Jiangsu, PR China; Joint International Research Laboratory of Agriculture & Agri-Product Safety, Yangzhou University, Yangzhou, Jiangsu, PR China.
Sheng-Long
SL
Wu
Key Laboratory for Animal Genetics, Breeding, Reproduction and Molecular Design of Jiangsu Province, College of Animal Science and Technology, Yangzhou University, Yangzhou, Jiangsu, PR China; Joint International Research Laboratory of Agriculture & Agri-Product Safety, Yangzhou University, Yangzhou, Jiangsu, PR China. Electronic address: wbbao@yzu.edu.cn.
Wen-Bin
WB
Bao
D000465:Algorithms; D000818:Animals; D023181:Antimicrobial Cationic Peptides / Q000235:genetics*; D001482:Base Composition; D001798:Blood Proteins / Q000235:genetics*; D003062:Codon / Q000235:genetics*; D019143:Evolution, Molecular; D006801:Humans; D007930:Leucine / Q000235:genetics; D017422:Sequence Analysis, DNA / Q000379:methods*; D013045:Species Specificity
D023181:Antimicrobial Cationic Peptides; D001798:Blood Proteins; D003062:Codon; C021623:bactericidal permeability increasing protein; D007930:Leucine
BPI gene; Bioinformatics; Codon usage bias; GC bias