On the nature of human housekeeping genes

Trends in Genetics

Volumn 24, Issue 10, 2008, Pages 481-484

  Zhu, Jiang ^a,b   He, Fuhong ^a,b   Hu, Songnian ^a   Yu, Jun ^a  

^a Chinese Academy of Sciences and China National Center for Bioinformation   (China)

^b UNIVERSITY OF CHINESE ACADEMY OF SCIENCES   (China)

Author keywords

[No Author keywords available]

Indexed keywords

CPG ISLAND; EVOLUTIONARY RATE; EXPRESSED SEQUENCE TAG; GENE EXPRESSION; GENE SEQUENCE; GENE STRUCTURE; GENETIC CORRELATION; GENETIC TRANSCRIPTION; GENETIC VARIABILITY; HOUSEKEEPING GENE; HUMAN; INTRON; MOLECULAR DYNAMICS; MOLECULAR EVOLUTION; NONHUMAN; PRIORITY JOURNAL; PROMOTER REGION; REGULATORY MECHANISM; SHORT SURVEY; TATA BOX; TISSUE SPECIFICITY;

ANTIGENS; BASE SEQUENCE; EVOLUTION, MOLECULAR; EXPRESSED SEQUENCE TAGS; HUMANS; PROMOTER REGIONS, GENETIC; SEQUENCE ANALYSIS, DNA;

EID: 52949138674     PISSN: 01689525     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.tig.2008.08.004     Document Type: Short Survey

References (24)

1. Eisenberg E., and Levanon E.Y. Human housekeeping genes are compact. Trends Genet. 19 (2003) 362-365
2. Vinogradov A.E. Compactness of human housekeeping genes: selection for economy or genomic design?. Trends Genet. 20 (2004) 248-253
3. Zhang L., and Li W.H. Mammalian housekeeping genes evolve more slowly than tissue-specific genes. Mol. Biol. Evol. 21 (2004) 236-239
4. Freilich S., et al. Relationship between the tissue-specificity of mouse gene expression and the evolutionary origin and function of the proteins. Genome Biol. 6 (2005) R56
5. Schug J., et al. Promoter features related to tissue specificity as measured by Shannon entropy. Genome Biol. 6 (2005) R33
6. Farre D., et al. Housekeeping genes tend to show reduced upstream sequence conservation. Genome Biol. 8 (2007) R140
7. Zhu J., et al. How many human genes can be defined as housekeeping with current expression data?. BMC Genomics 9 (2008) 172
8. Castillo-Davis C.I., et al. Selection for short introns in highly expressed genes. Nat. Genet. 31 (2002) 415-418
9. Vinogradov A.E. Intron length and codon usage. J. Mol. Evol. 52 (2001) 2-5
10. Duret L., and Mouchiroud D. Expression pattern and, surprisingly, gene length shape codon usage in Caenorhabditis, Drosophila, and Arabidopsis. Proc. Natl. Acad. Sci. U. S. A. 96 (1999) 4482-4487
11. Ren X.Y., et al. In plants, highly expressed genes are the least compact. Trends Genet. 22 (2006) 528-532
12. Wong G.K., et al. Most of the human genome is transcribed. Genome Res. 11 (2001) 1975-1977
13. Wang J., et al. Vertebrate gene predictions and the problem of large genes. Nat. Rev. Genet. 4 (2003) 741-749
14. Vinogradov A.E. 'Genome design' model and multicellular complexity: golden middle. Nucleic Acids Res. 34 (2006) 5906-5914
15. Li S.W., et al. Selection for the miniaturization of highly expressed genes. Biochem. Biophys. Res. Commun. 360 (2007) 586-592
16. Alba M.M., and Castresana J. Inverse relationship between evolutionary rate and age of mammalian genes. Mol. Biol. Evol. 22 (2005) 598-606
17. Butler J.E., and Kadonaga J.T. The RNA polymerase II core promoter: a key component in the regulation of gene expression. Genes Dev. 16 (2002) 2583-2592
18. Gardiner-Garden M., and Frommer M. CpG islands in vertebrate genomes. J. Mol. Biol. 196 (1987) 261-282
19. Smale S.T., and Kadonaga J.T. The RNA polymerase II core promoter. Annu. Rev. Biochem. 72 (2003) 449-479
20. Carninci P., et al. Genome-wide analysis of mammalian promoter architecture and evolution. Nat. Genet. 38 (2006) 626-635
21. Sandelin A., et al. Mammalian RNA polymerase II core promoters: insights from genome-wide studies. Nat. Rev. Genet. 8 (2007) 424-436
22. Muller F., et al. New problems in RNA polymerase II transcription initiation: matching the diversity of core promoters with a variety of promoter recognition factors. J. Biol. Chem. 282 (2007) 14685-14689
23. Rocha E.P. The quest for the universals of protein evolution. Trends Genet. 22 (2006) 412-416
24. Larracuente A.M., et al. Evolution of protein-coding genes in Drosophila. Trends Genet. 24 (2008) 114-123