On the quest for selective constraints shaping the expressivity of the genes casting retropseudogenes in human

BMC Genomics

Research Article

Kamalika Sen¹  Tapash C Ghosh¹  Soumita Podder¹ 

[1] Bioinformatics Centre, Bose Institute, P 1/12, C.I.T. Scheme VII M, Kolkata- 700 054, India;

关键词: Expressivity;    Protein intrinsic disorder;    Connectivity;    Alternative splicing;    Protein stability;    mRNA decay rate;    Evolutionary rate;   

DOI  :  10.1186/1471-2164-12-401

 received in 2010-12-31, accepted in 2011-08-08,  发布年份 2011

来源: Springer

【 摘 要 】

BackgroundPseudogenes, the nonfunctional homologues of functional genes are now coming to light as important resources regarding the study of human protein evolution. Processed pseudogenes arising by reverse transcription and reinsertion can provide molecular record on the dynamics and evolution of genomes. Researches on the progenitors of human processed pseudogenes delved out their highly expressed and evolutionarily conserved characters. They are reported to be short and GC-poor indicating their high efficiency for retrotransposition. In this article we focused on their high expressivity and explored the factors contributing for that and their relevance in the milieu of protein sequence evolution.ResultsWe here, analyzed the high expressivity of these genes configuring processed or retropseudogenes by their immense connectivity in protein-protein interaction network, an inclination towards alternative splicing mechanism, a lower rate of mRNA disintegration and a slower evolutionary rate. While the unusual trend of the upraised disorder in contrast with the high expressivity of the proteins encoded by processed pseudogene ancestors is accredited by a predominance of hub-protein encoding genes, a high propensity of repeat sequence containing genes, elevated protein stability and the functional constraint to perform the transcription regulatory jobs. Linear regression analysis demonstrates mRNA decay rate and protein intrinsic disorder as the influential factors controlling the expressivity of these retropseudogene ancestors while the latter one is found to have the most significant regulatory power.ConclusionsOur findings imply that, the affluence of disordered regions elevating the network attachment to be involved in important cellular assignments and the stability in transcriptional level are acting as the prevailing forces behind the high expressivity of the human genes configuring processed pseudogenes.

【 授权许可】

Unknown   
© Sen et al; licensee BioMed Central Ltd. 2011. This article is published under license to BioMed Central Ltd. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.