Analysis of codon usage of Horseshoe Bat Hepatitis B virus and its host

被引：7
作者：
Deb, Bornali [1 ]
Uddin, Arif [2 ]
Chakraborty, Supriyo [1 ]
机构：
[1] Assam Univ, Dept Biotechnol, Silchar 788150, Assam, India
[2] Moinul Hoque Choudhury Mem Sci Coll, Dept Zool, Hailakandi 788150, Assam, India
来源：
VIROLOGY | 2021年 / 561卷
关键词：
Codon usage bias; Horseshoe bat hepatitis B virus; Rhinolophus sinicus; Mutation pressure; Natural selection; DNA-BASE COMPOSITION; COLI TRANSFER-RNAS; ESCHERICHIA-COLI; RESPECTIVE CODONS; BIAS; SELECTION; TRANSLATION; MUTATION; GENES; PATTERNS;
D O I：
10.1016/j.virol.2021.05.008
中图分类号：
Q93 [微生物学];
学科分类号：
071005 ; 100705 ;
摘要：
In the present analysis, codon usage strategies and base distribution of Horseshoe bat hepatitis B virus (HBHBV) were analyzed and compared with its host Rhinolophus sinicus, as no work was yet reported. The magnitude of synonymous codon usage bias (CUB) in the virus and its host was low with higher proportion of the base C. Notably, 21 more frequently used codons, 19 less frequently used codons and 3 underrepresented codons (TCG, ACG and GCG) were found to be similar in both virus and its host coding sequences. Neutrality plot analysis reported greater role of natural selection in HBHBV (67.84%) and R. sinicus (76.90%) over mutation pressure. Base skewness and protein properties also influenced the CUB of genes. Further, codon usage analysis depicted, HBHBV and R. sinicus had many similarities in codon usage patterns that might reflect viral adaptation to its host.
引用
收藏
页码：69 / 79
页数：11
相关论文
共 107 条
[21]   Genome-wide analysis of codon usage pattern in herpesviruses and its relation to evolution [J].
Deb, Bornali ;
Uddin, Arif ;
Chakraborty, Supriyo .
VIRUS RESEARCH, 2021, 292
[22]   Codon usage pattern and its influencing factors in different genomes of hepadnaviruses [J].
Deb, Bornali ;
Uddin, Arif ;
Chakraborty, Supriyo .
ARCHIVES OF VIROLOGY, 2020, 165 (03) :557-570
[23]   Analysis of codon usage pattern of mitochondrial protein-coding genes in different hookworms [J].
Deb, Bornali ;
Uddin, Arif ;
Mazumder, Gulshana Akthar ;
Chakraborty, Supriyo .
MOLECULAR AND BIOCHEMICAL PARASITOLOGY, 2018, 219 :24-32
[24]   A functional significance for codon third bases [J].
Epstein, RJ ;
Lin, K ;
Tan, TW .
GENE, 2000, 245 (02) :291-298
[25]   Synonymous codon bias is related to gene length in Escherichia coli: Selection for translational accuracy? [J].
EyreWalker, A .
MOLECULAR BIOLOGY AND EVOLUTION, 1996, 13 (06) :864-872
[26]   Regularities of context-dependent codon bias in eukaryotic genes [J].
Fedorov, A ;
Saxonov, S ;
Gilbert, W .
NUCLEIC ACIDS RESEARCH, 2002, 30 (05) :1192-1197
[27]  
Gatherer D, 1997, BIOCHEM MOL BIOL INT, V43, P107
[28]   CODON USAGE IN BACTERIA - CORRELATION WITH GENE EXPRESSIVITY [J].
GOUY, M ;
GAUTIER, C .
NUCLEIC ACIDS RESEARCH, 1982, 10 (22) :7055-7074
[29]  
GRANTHAM R, 1981, NUCLEIC ACIDS RES, V9, pR43
[30]   The relationship between synonymous codon usage and protein structure in Escherichia coli and Homo sapiens [J].
Gu, WJ ;
Zhou, T ;
Ma, JM ;
Sun, XA ;
Lu, ZH .
BIOSYSTEMS, 2004, 73 (02) :89-97
12345678910