Article thumbnail
Location of Repository

Alternative Splicing of Transcription Factors' Genes: Beyond the Increase of Proteome Diversity

By David Talavera, Modesto Orozco and Xavier de la Cruz

Abstract

Functional modification of transcription regulators may lead to developmental changes and phenotypical differences between species. In this work, we study the influence of alternative splicing on transcription factors in human and mouse. Our results show that the impact of alternative splicing on transcription factors is similar in both species, meaning that the ways to increase variability should also be similar. However, when looking at the expression patterns of transcription factors, we observe that they tend to diverge regardless of the role of alternative splicing. Finally, we hypothesise that transcription regulation of alternatively spliced transcription factors could play an important role in the phenotypical differences between species, without discarding other phenomena or functional families

Topics: Research Article
Publisher: Hindawi Publishing Corporation
OAI identifier: oai:pubmedcentral.nih.gov:2709715
Provided by: PubMed Central

Suggested articles

Citations

  1. (2004). A gene atlas of the mouse and human protein-encoding transcriptomes,”
  2. (1998). A.J.Lopez,“Alternativesplicingofpre-mRNA:developmental consequences and mechanisms of regulation,”
  3. (2004). Alternative splice variants encoding unstable protein domains exist in the human brain,”
  4. (2008). Alternative splicing and expression of human and mouse
  5. (2002). Alternative splicing and genome complexity,”
  6. (2006). Alternative splicing in human transcriptome: functional and structural influence on proteins,”
  7. (2004). Alternative splicing mechanisms for the modulation of protein function: conservation between human and other6 Comparative and Functional Genomics species,”
  8. (2004). Alternative splicing of mouse transcription factors affects their DNA-binding domain architecture and is tissue specific,”
  9. (2003). Alternative splicing of the human estrogen receptor alpha primary transcript: mechanisms of exon skipping,”
  10. (2005). Alternative splicing removes an Ets interaction domain from
  11. (2006). An alternatively spliced transcript of the PHD3 gene retains prolyl hydroxylase activity,”
  12. (2004). Assessing the impact of alternative splicing on domain interactions in the human proteome,”
  13. (2007). Characterization of alternative splicing products of bZIP transcription factors
  14. (2001). Clustering of highly homologous sequences to reduce the size of large protein databases,”
  15. (2007). Combinatorial effects of splice variants modulate function of
  16. (2005). Creation and disruption of protein features by alternative splicing—a novel mechanism to modulate function,”
  17. (1998). Crystal structure of p50/p65 heterodimer of transcription factor NFκB bound to
  18. (2004). D.Ram,E.Ziv,F.Lantner,V.Lardans,andI.Schechter,“Stagespecific alternative splicing of the heat-shock transcription factorduringthelife-cycleofSchistosomamansoni,”Parasitology,
  19. (1995). Developmental role of transcription factor isoforms generated by alternative splicing,”
  20. (1997). Differential transactivation by two isoforms of the orphan nuclear hormone receptor CAR,”
  21. (2004). Divergence of spatial gene expression profiles following species-specific gene duplications in human and mouse,”
  22. (2004). Estimating rates of alternative splicing in mammals and invertebrates,”
  23. (1975). Evolution at two levels in humans and chimpanzees,”
  24. (2005). Evolution at two levels: on genes and form,”
  25. (2003). Evolution of alternative splicing: deletions, insertions and origin of functional parts of proteins from intron sequences,”
  26. (2006). Evolutionary conservation of expression profiles between human and mouse orthologous genes,”MolecularBiologyandEvolution,vol.23,no.3,pp.530– 540,
  27. (2005). Evolutionary significance of gene expression divergence,”
  28. (1997). Gapped BLAST and PSI-BLAST: a new generation of protein database search programs,”
  29. (2009). Genome and proteome annotation: organization, interpretation and integration,”
  30. (2002). Genome-wide detection of tissue-specific alternative splicing in the human transcriptome,”
  31. (2006). Genomewide review of transcriptional complexity in mouse protein kinases and phosphatases,”
  32. (1998). Homeobox genes: a link between development, cell cycle, and cancer?”
  33. (2003). How well is enzyme function conservedasafunctionofpairwisesequenceidentity?”Journal of
  34. (2004). Human Pax-5 C-terminal isoforms possess distinct transactivation properties and are differentiallymodulatedinnormalandmalignantBcells,”
  35. (2003). Identification and analysis of chromodomain-containing proteins encoded in the mouse transcriptome,”
  36. (2008). Identification and correctionofabnormal,incompleteandmispredictedproteins in public databases,”
  37. (2004). Incongruent expression profiles between human and mouse orthologous genes suggest widespread neutral evolution of transcription control,”
  38. (2003). Increase of functional diversity by alternative splicing,”
  39. (2002). Initial sequencing and comparative analysis of the mouse genome,”
  40. (2003). Large scale study of protein domain distribution in the context of alternative splicing,”
  41. (2006). Multiple glucocorticoid receptor isoforms and mechanisms of posttranslational modification,”
  42. (1965). On simultaneous confidence intervals for multinomial proportions,”
  43. (2004). Regulation of the MiTF/TFE bHLHLZ transcription factors through restricted spatial expression and alternative splicing of functional domains,”
  44. (1992). s u ,J .A .G o g o s ,S .A .K i r s h ,a n dF .C .K a f a t o s ,“ M u l t i p l e zinc finger forms resulting from developmentally regulated alternative splicing of a transcription factor gene,”
  45. (2005). Structural and functional diversity generated by alternative mRNA splicing,”
  46. (2009). Studying alternative splicing regulatory networks through partial correlation analysis,”
  47. (2009). SUMOylation of the transcription factor NFATc1 leads to its subnuclear relocalization and IL2 repression by HDAC,”
  48. (2003). T.A.Thanaraj,F.Clark,andJ.Muilu,“Conservationofhuman alternative splice events in mouse,”
  49. (2007). The (in)dependence of alternative splicing and gene duplication,”
  50. (2007). The functional modulation of epigenetic regulators by alternative splicing,”
  51. (1993). The functional versatility of CREM is determined by its modular structure,”
  52. (2008). The metazoan history of the COE transcription factors. Selection of a variant HLH motif by mandatory inclusion of a duplicated exon in vertebrates,”
  53. (1996). The Oct-2 transcription factor,”
  54. (2004). The Pfam protein families database,”
  55. (1986). The relation between the divergence of sequence and structure in proteins,”
  56. The SWISSPROT protein knowledgebase and its supplement TrEMBL
  57. (2006). The types and prevalence of alternative splice forms,”
  58. (2008). Tissue- and cell-specific alternative splicing
  59. (2002). Two isoforms of serpent containing either one or two

To submit an update or takedown request for this paper, please submit an Update/Correction/Removal Request.