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Comparative analysis of codon usage pattern and its influencing factors in Schistosoma japonicum and Ascaris suum

  • Gulshana A. Mazumder , Arif Uddin and Supriyo Chakraborty EMAIL logo
Published/Copyright: October 15, 2017
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Acta Parasitologica
From the journal Acta Parasitologica Volume 62 Issue 4

Abstract

Schistosoma japonicum and Ascaris suum are considered as the major parasites of human which cause various life threatening diseases such as schistomiasis and ascariasis. The codon usage bias (CUB) is known as the phenomenon of more usage of a specific codon than the other synonymous codons for an amino acid. The factors that influence the codon usage bias are mutation pressure, natural selection, gene expression, gene length, GC content, RNA stability, recombination rates, codon position etc. Here we had used various bioinformatic tools and statistical analyses to understand the compositional features, expression level and codon usage bias in the genes of these two species.After estimating the effective number of codon (ENC) in both the species, codon usage bias was found to be low and gene expression was high. The nucleobase A and T were used most often than C and G. From neutrality plot and correspondence analysis it was found that both natural selection and mutation pressure played an important role in shaping the codon usage pattern of both species. Moreover, natural selection played a major role while mutation pressure played a minor role in shaping the codon usage bias in S. japonicum and A.suum. This is the first report on the codon usage biology in S. japonicum and A.suum, and the factors influencing their codon usage bias. These results are expected to be useful for genetic engineering and evolutionary studies.

Keywords: Schistosoma japonicum; Ascaris suum; codon usage bias; compositional properties; expression level; neutrality plot

  1. Conflict of interest: There is no conflict of interest in this research work.

Acknowledgements

We are thankful to Assam University, Silchar, Assam for providing the necessary facilities for this research work.

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Received: 2017-2-4
Revised: 2017-7-20
Accepted: 2017-7-21
Published Online: 2017-10-15
Published in Print: 2017-12-20

© 2017 W. Stefański Institute of Parasitology, PAS

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https://doi.org/10.1515/ap-2017-0090
Keywords for this article
Schistosoma japonicum; Ascaris suum; codon usage bias; compositional properties; expression level; neutrality plot

Articles in the same Issue

  2. Apparent isocitrate lyase activity in Leishmania amazonensis
  4. Anti-angiogenic and anti-lymphangiogenic role of praziquantel and artemether in experimental mansoniasis
  6. Oxidative stress and cytotoxicity elicited lipid peroxidation in hemocytes of Bombyx mori larva infested with dipteran parasitoid, Exorista bombycis
  8. The molecular identification of Calodium hepaticum in the wild brown rat (Rattus norvegicus) in Poland
  10. Detection of small number of Giardia in biological materials prepared from stray dogs
  12. Abundance and species composition of Culicoides spp. biting midges near cattle and horse in South-Eastern Poland
  14. Comparative analysis of codon usage pattern and its influencing factors in Schistosoma japonicum and Ascaris suum
  16. The gastrointestinal nematodes of Paramelomys lorentzii and Mammelomys spp. (Rodentia: Muridae) with descriptions of a new genus and three new species (Heligmonellidae) from Papua New Guinea and Indonesia
  18. Prevalence and molecular characterization of bovine Cryptosporidium from dairy cows in Northern Thailand
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  32. Humoral response of mice infected with Toxocara canis following different infection schemes
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  34. Transovarial persistence of Babesia ovata DNA in a hard tick, Haemaphysalis longicornis, in a semi-artificial mouse skin membrane feeding system
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