Analysis of synonymous codon usage patterns of HPRT1 gene across twelve mammalian species

Genomics
Surajit De MandalFengliang Jin

Abstract

Genetic changes in Hypoxanthine guanine phosphoribosyltransferace (HPRT1) gene can alter the expression of the dopamine neurotransmitter leads to abnormal neuron function, a disease called Lesch-Nyhan syndrome (LNS). Although different studies were conducted on LNS, information on codon usage bias (CUB) of HPRT1 gene is limited. The present study examines the genetic determinants of CUB in HPRT1 gene using twelve mammalian species. In the coding sequence of HPRT1 genes, A/T ending codons was most frequently used. A higher ENC value was observed indicating lower HPRT1 gene expression in the selected mammalian species. Correlation analysis indicates that compositional constraints under mutation pressure can involve in CUB of HPRT1 genes among the selected mammalian species. Relative synonymous codon usage (RSCU) value revealed that the codons such as ACT, AGG, ATT and AGC were over-represented in each of the mammalian species. Result from the analysis of the RSCU indicates that compositional constraint is a key driver for the variation in codon usage. Ratio of nonsynonymous (dN) and synonymous (dS) substitution further suggested that purifying selection occurs among the HPRT1 gene of studied mammals to maintain its protein functi...Continue Reading

References

Apr 1, 1988·Proceedings of the National Academy of Sciences of the United States of America·N Sueoka
Apr 14, 1999·Proceedings of the National Academy of Sciences of the United States of America·L Duret, D Mouchiroud
Nov 5, 2003·Bioinformatics·A CarboneF Képès
Feb 19, 2005·Nucleic Acids Research·Gila Lithwick, Hanah Margalit
Jul 11, 2006·Extremophiles : Life Under Extreme Conditions·Marx Gomes Van der Linden, Sávio Torres de Farias
Feb 10, 2007·BMC Evolutionary Biology·Huai-Chun Wang, Donal A Hickey
Feb 26, 2008·Cell·Chunmei ZhaoFred H Gage
Mar 29, 2008·Briefings in Bioinformatics·Kazutaka Katoh, Hiroyuki Toh
Sep 18, 2008·Biology Direct·Pere PuigbòSantiago Garcia-Vallve
Nov 26, 2008·Archives of Virology·Yue JiangZhihong Hu
May 11, 2010·DNA Research : an International Journal for Rapid Publication of Reports on Genes and Genomes·Jesse M Fox, Ivan Erill
May 18, 2010·BMC Genomics·Tatiana V TatarinovaKenneth A Feldmann
Aug 21, 2010·BMC Evolutionary Biology·Emily H M WongLeo L M Poon
Sep 1, 2011·Nature Reviews. Genetics·Zuben E Sauna, Chava Kimchi-Sarfaty
Oct 18, 2013·Molecular Biology and Evolution·Koichiro TamuraSudhir Kumar
Mar 10, 2015·Annual Review of Biophysics·Julie L Chaney, Patricia L Clark
Mar 26, 2015·PloS One·Tarikul Huda Mazumder, Supriyo Chakraborty
Dec 7, 2016·Molecular Syndromology·Scott BellCarl Ernst

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Citations

Sep 30, 2020·Biochemical Genetics·Supriyo ChakrabortyArif Uddin
May 11, 2021·International Journal of Biological Macromolecules·Jianke YangXianzhao Kan

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