title: The ambiguous boundary between genes and pseudogenes: the dead rise up, or do they?
abstract: Pseudogenes have long been considered to be 'dead', nonfunctional by-products of genome evolution. However, several lines of evidence now show that some pseudogenes are transcriptionally 'alive', and a few might even have biochemical roles. Therefore, the boundary between genes (often considered to be 'living') and pseudogenes (often considered to be 'dead') might be ambiguous and difficult to define. Here, we examine the evidence for and against pseudogene functionality, and we argue that the time is ripe for revising the definition of a pseudogene. Furthermore, we suggest a classification system to accommodate pseudogenes with various levels of functionality.
authors: Department of Molecular Biophysics and Biochemistry, Yale University, 266 Whitney Avenue, New Haven, CT 06520, USA. deyou.zheng@yale.edu
authors: Deyou
authors: D
authors: Zheng
authors: Mark B
authors: MB
authors: Gerstein
mesh_terms: D000818:Animals; D005796:Genes; D016678:Genome; D006801:Humans; D051379:Mice; D008969:Molecular Sequence Data; D009154:Mutation; D011401:Promoter Regions, Genetic; D011544:Pseudogenes / Q000235:genetics* / Q000502:physiology*; D009626:Terminology as Topic; D014158:Transcription, Genetic