A Comparative Analysis of Synonymous Codon Usage Bias Pattern in Human Albumin Superfamily
Synonymous codon usage bias is an inevitable phenomenon in organismic taxa across the three domains of life. Though the frequency of codon usage is not equal across species and within genome in the same species, the phenomenon is non random and is tissue-specific. Several factors such as GC content,...
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| Format: | Article |
| Language: | English |
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Wiley
2014-01-01
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| Series: | The Scientific World Journal |
| Online Access: | http://dx.doi.org/10.1155/2014/639682 |
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| author | Hoda Mirsafian Adiratna Mat Ripen Aarti Singh Phaik Hwan Teo Amir Feisal Merican Saharuddin Bin Mohamad |
| author_facet | Hoda Mirsafian Adiratna Mat Ripen Aarti Singh Phaik Hwan Teo Amir Feisal Merican Saharuddin Bin Mohamad |
| author_sort | Hoda Mirsafian |
| collection | DOAJ |
| description | Synonymous codon usage bias is an inevitable phenomenon in organismic taxa across the three domains of life. Though the frequency of codon usage is not equal across species and within genome in the same species, the phenomenon is non random and is tissue-specific. Several factors such as GC content, nucleotide distribution, protein hydropathy, protein secondary structure, and translational selection are reported to contribute to codon usage preference. The synonymous codon usage patterns can be helpful in revealing the expression pattern of genes as well as the evolutionary relationship between the sequences. In this study, synonymous codon usage bias patterns were determined for the evolutionarily close proteins of albumin superfamily, namely, albumin, α-fetoprotein, afamin, and vitamin D-binding protein. Our study demonstrated that the genes of the four albumin superfamily members have low GC content and high values of effective number of codons (ENC) suggesting high expressivity of these genes and less bias in codon usage preferences. This study also provided evidence that the albumin superfamily members are not subjected to mutational selection pressure. |
| format | Article |
| id | doaj-art-078bc76c2689471ea01d4cd90da1b6db |
| institution | Kabale University |
| issn | 2356-6140 1537-744X |
| language | English |
| publishDate | 2014-01-01 |
| publisher | Wiley |
| record_format | Article |
| series | The Scientific World Journal |
| spelling | doaj-art-078bc76c2689471ea01d4cd90da1b6db2025-08-20T03:55:28ZengWileyThe Scientific World Journal2356-61401537-744X2014-01-01201410.1155/2014/639682639682A Comparative Analysis of Synonymous Codon Usage Bias Pattern in Human Albumin SuperfamilyHoda Mirsafian0Adiratna Mat Ripen1Aarti Singh2Phaik Hwan Teo3Amir Feisal Merican4Saharuddin Bin Mohamad5Institute of Biological Sciences, Faculty of Science, University of Malaya, 50603 Kuala Lumpur, MalaysiaAllergy and Immunology Research Centre, Institute for Medical Research, Jalan Pahang, Kuala Lumpur, MalaysiaInstitute of Biological Sciences, Faculty of Science, University of Malaya, 50603 Kuala Lumpur, MalaysiaInstitute of Biological Sciences, Faculty of Science, University of Malaya, 50603 Kuala Lumpur, MalaysiaInstitute of Biological Sciences, Faculty of Science, University of Malaya, 50603 Kuala Lumpur, MalaysiaInstitute of Biological Sciences, Faculty of Science, University of Malaya, 50603 Kuala Lumpur, MalaysiaSynonymous codon usage bias is an inevitable phenomenon in organismic taxa across the three domains of life. Though the frequency of codon usage is not equal across species and within genome in the same species, the phenomenon is non random and is tissue-specific. Several factors such as GC content, nucleotide distribution, protein hydropathy, protein secondary structure, and translational selection are reported to contribute to codon usage preference. The synonymous codon usage patterns can be helpful in revealing the expression pattern of genes as well as the evolutionary relationship between the sequences. In this study, synonymous codon usage bias patterns were determined for the evolutionarily close proteins of albumin superfamily, namely, albumin, α-fetoprotein, afamin, and vitamin D-binding protein. Our study demonstrated that the genes of the four albumin superfamily members have low GC content and high values of effective number of codons (ENC) suggesting high expressivity of these genes and less bias in codon usage preferences. This study also provided evidence that the albumin superfamily members are not subjected to mutational selection pressure.http://dx.doi.org/10.1155/2014/639682 |
| spellingShingle | Hoda Mirsafian Adiratna Mat Ripen Aarti Singh Phaik Hwan Teo Amir Feisal Merican Saharuddin Bin Mohamad A Comparative Analysis of Synonymous Codon Usage Bias Pattern in Human Albumin Superfamily The Scientific World Journal |
| title | A Comparative Analysis of Synonymous Codon Usage Bias Pattern in Human Albumin Superfamily |
| title_full | A Comparative Analysis of Synonymous Codon Usage Bias Pattern in Human Albumin Superfamily |
| title_fullStr | A Comparative Analysis of Synonymous Codon Usage Bias Pattern in Human Albumin Superfamily |
| title_full_unstemmed | A Comparative Analysis of Synonymous Codon Usage Bias Pattern in Human Albumin Superfamily |
| title_short | A Comparative Analysis of Synonymous Codon Usage Bias Pattern in Human Albumin Superfamily |
| title_sort | comparative analysis of synonymous codon usage bias pattern in human albumin superfamily |
| url | http://dx.doi.org/10.1155/2014/639682 |
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