Comprehensive analysis of codon usage pattern in Eisenia fetida and its correlation with gene expression

被引：1

作者：

Hassan, Mohd ^{[1
,2
]}

Anal, Jasha Momo H. ^{[1
,2
]}

Singh, Ravail ^{[1
,2
,3
]}

机构：

[1] Indian Inst Integrat Med IIIM, CSIR, Jammu 180001, Jammu & Kashmir, India

[2] Acad Sci & Innovat Res AcSIR, Ghaziabad 201002, India

[3] DZMB Senckenberg Meer, Wilhelmshaven, Germany

来源：

BIOCATALYSIS AND AGRICULTURAL BIOTECHNOLOGY | 2023年 / 52卷

关键词：

Gene expression; Mutation; Selection; Favored codon; AMINO-ACID USAGE; ESCHERICHIA-COLI; SELECTION INTENSITY; SECONDARY STRUCTURE; NATURAL-SELECTION; BIAS; DROSOPHILA; EVOLUTION; LENGTH; DNA;

D O I：

10.1016/j.bcab.2023.102810

中图分类号：

Q81 [生物工程学（生物技术）]; Q93 [微生物学];

学科分类号：

071005 ; 0836 ; 090102 ; 100705 ;

摘要：

Every individual gene or genome follows the phenomenon of codon bias, where the usage among synonymous codons is not equal. The present study was conducted to understand the CUB in E. fetida and its impact on gene expression. The genes of E. fetida were G/Cbiased, where mean of C% was highest followed by G%, T%, and A% at the third codon position. ENC plot, Neutrality plot and Parity plot analysis revealed the codon usage pattern in E. fetida was largely influenced by natural selection. Further, it was observed that CUB had a substantial negative relationship with the gene expression levels (FPKM) at p < 0.05. Altogether, these findings indicate that translational efficiency and accuracy might have modulated the choice of codon selection in the studied earthworm genome.

引用

页数：11

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