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Codon usage preference and the highly expressed genes have strong correlations occur in many organisms. Codon usage preference of viruses may evolve much similar with its infected host to increase the fitness. In this study we investigated differences in codon usage preferences among influenza A H1N1 viruses which infected avian, swine and human, and may cause major pandemic around world. The relative...
In the study, we calculated the codon usage bias in the newly identified UL38 gene of Duck Enteritis Virus (DEV) and performed a correlation analysis of codon bias of DEV UL38 gene and its host animal. There was a strong bias in the DEV UL38 gene towards the synonymous codons with A and T at the third codon position. The amino acids codon usage bias in the DEV UL38 gene was compared with other 15...
We determined the nucleotide sequence of a portion of the duck enteritis virus (DEV) strain CHv which was suspected to be the UL10 gene(GenBank accession no EU195100.), encoding glycoprotein M(gM). The UL10 gene was cloned and sequenced, which was composed of 1230 nucleotides encoding 409 amino acids, with a predicted molecular mass of 45.752 kDa. We calculated the codon usage bias in the newly identified...
Glycoprotein K encoded by the DEV-UL53 gene is one of the DEV envelope glycoproteins. Like most members of the alphaherpesvirinae, the genes in the UL region of its genome are well conserved, which means that the major DEV envelope glycoprotein K possessing similar functions of envelope glycoprotein K of alphaherpesvirinae plays an essential role in viral replication and cell fusion. Glycoprotein...
In order to understand the relevant mechanism for biased usage of synonymous codons and the evolution and pathogenesis of DEV better, as well as for selecting appropriate expression systems to improve the expression of the target genes, we performed a comparative analysis of the codon usage bias in the UL47 gene of the duck enteritis virus (DEV) and the 26 reference herpesviruses. The results indicated...
Cystathionine β-synthase deficiency is an inborn error of metabolism that is biochemically characterized by severe hyperhomocysteinemia and homocystinuria. Numerous cystathionine β-synthase mutants have so far been found in patients with cystathionine β-synthase deficiency. In this study, we use the cross-impact analysis to model the cystathionine βsynthase mutants with their clinical endpoints, and...
Lipoprotein lipase (LPL) of Tianfu meat goose was cloned and sequenced using a RT-PCR approach. The nucleotide sequence covered 468 bp with an open reading frame of 155 amino acids. Alignment analysis indicated that the nucleotide sequences are highly conserved to other species studied including chicken, domestic guinea pig, house mouse, Norway rat, cattle, cow and goat, and the homologies are 92...
The analysis on codon usage bias of Us4 gene of Duck Plague Virus (DPV) may provide a basis for understanding the evolution and pathogenesis of DPV and for selecting appropriate host expression systems to improve the expression of target genes in vivo and in vitro. In this study, the synonymous codon usage in the Us4 gene of DPV and 17 reference herpesviruses have been investigated . The results reveals...
Alpha-fetoprotein (AFP) is a major serum protein (Mr, =70,000) synthesized during fetal life. Reappearance of AFP in adult serum often signals pathological conditions, particularly hepatocarcinomas and teratocarcinomas. To obtain monoclonal antibodies against AFP for further study of the structure and biological function of AFP, a novel method for making hybridoma cell lines producing monoclonal antibodies...
Codon usage bias in UL53 gene of DEV was analyzed in this paper, the results indicated that it had strong bias towards to the synonymous codons with A or T at the third codon position. The codon usage bias of DEV UL53 gene and 26 reference herpesviruses were analyzed by EMBOSS program and RSCU. In addition, Phylogenetic tree indicated DEV was evolutionarily closer to CaHV-2, CaHV-3, MeHV-1. The ENC-GC...
Alignment analysis indicated that the nucleotide sequences of Liver X receptors α (LXRα) of Landes goose are highly conserved to other species including chicken, human, rat, mouse and cattle, and the homologies are 95.2%, 76.3%, 74.5%, 74.3% and 74.9%, respectively. Furthermore, molecular phylogeny analyses have shown that LXRα were divided into two main evolution branches, one was the mammals branch,...
Myogenesis in skeletal muscle is a cascade of developmental events, whose initiation involves the MRFs family of the myogenic regulatory factors. Comparing the characterization of MRFs family members and their deduced proteins is necessary to know the reasons of their different role in muscle development. In order to investigate the reasons why MRFs members have different roles in duck myogenesis,...
The UL27 open reading frame of the Duck Plague virus encodes glycoprotein B, the molecular characteristic of this gene was analyzed with bioinformatics software. The results indicated that this gene encodes an estimated 1000 putative proteins, contains the conserved domain of the Herpesvirus UL27-like protein. Similarity comparisons of DPV CHv strain gB protein sequences with those of 20 known herpesviruses...
A series of specially designed agarose-based HIC adsorbents were examined using human immunoglobulin G (IgG) and human serum albumin (HSA) as model proteins, to investigate the effects of structural properties of both proteins and stationary phases on the adsorption behavior in HIC. The adsorbents examined differ from each other in terms of ligand density, spacer arm and ligand type. Dynamic binding...
LEF-1, lymphocyte enhancer-binding factor-1, is a member of the LEF-1/TCF (T cell-specific transcription factor) family of high mobility group (HMG) transcription factors. LEF-1/TCF is downstream of the Wnt/β-catenin signaling pathway. LEF-1 requires Wnt signaling and stabilized β-catenin to express the hair-specific keratin genes and control hair differentiation. Tcf3/LEF-1 complex has a key role...
Functioning as an “address tag” that directs nascent proteins to their proper sub-cellular localizations, signal peptides have become a crucial tool in finding new drugs or reprogramming cells for gene therapy. In the past twenty years, many algorithms have been proposed for predicting signal peptides. In spite of pioneering algorithms based on “scaled window” or “benchmark window”, similarity as...
The Us4 gene homologue of duck enteritis virus (DEV) was cloned by degenerate polymerase chain reaction (PCR) and sequenced. DEV Us4 gene open reading frame (ORF) was 1380 bp in length and its primary translation product was a polypeptide of 459 amino acids long. Phylogenetic tree of the nucleotide sequences showed this gene had a close evolutionary relationship with GaHV-1 and PsHV-1, but the DEV...
A 1296-bp open reading frame (ORF) of duck plague virus (DPV) was cloned and sequenced. Nucleotide sequence analysis revealed that the complete ORF was supposed to be the DPV gC gene (GenBank accession no EU076811), which theoretically encoded a protein comprising 431 amino acids with a putative molecular mass of 45 kDa. Multiple sequence alignment and phylogenetic analysis showed that the DPV gC...
The Duck Plague Virus (DPV) gE gene was identified by constructing the DPV genomic library, and we analyzed the codon usage of DPV gE gene by using CAI, CHIPS and CUSP program of EMBOSS. The results showed that codon usage bias in the DPV gE gene was strong bias towards the synonymous codons with A and T at the third codon position. The amino acids codon usage bias in the DPV gE gene was compared...
The analysis on codon usage bias of UL26.5 gene of duck enteritis virus (DEV) may provide a basis for understanding the evolution and pathogenesis of DEV and for selecting appropriate host expression systems to improve the expression of target genes in vivo and in vitro. In this study, the synonymous codon usage in the UL26.5 gene of DEV and 27 reference herpesviruses have been investigated . The...
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