Gametophytic selection in Arabidopsis thaliana supports the selective model of intron length reduction

PLoS Genetics

Volumn 1, Issue 2, 2005, Pages 0154-0158

  Seoighe, Cathal ^a   Gehring, Chris ^b   Hurst, Laurence D ^c  

^a UNIVERSITY OF CAPE TOWN   (South Africa)

^b UNIVERSITY OF THE WESTERN CAPE   (South Africa)

^c University of Bath   (United Kingdom)

Author keywords

[No Author keywords available]

Indexed keywords

ARABIDOPSIS; ARTICLE; BIOLOGICAL MODEL; GENE; GENE EXPRESSION REGULATION; GENETIC SELECTION; GENETICS; GERM CELL; INTRON; POLLEN;

ARABIDOPSIS; GENE EXPRESSION REGULATION, PLANT; GENES, PLANT; GERM CELLS; INTRONS; MODELS, GENETIC; POLLEN; SELECTION (GENETICS);

EID: 33745638358     PISSN: 15537390     EISSN: 15537404     Source Type: Journal    
DOI: 10.1371/journal.pgen.0010013     Document Type: Article

References (30)

1. Hurst LD, McVean G, Moore T (1996) Imprinted genes have few and small introns. Nat Genet 12: 234-237.
2. Urrutia AO, Hurst LD (2003) The signature of selection mediated by expression on human genes. Genome Res 13: 2260-2264.
3. Castillo-Davis CI, Mekhedov SL, Hartl DL, Koonin EV, Kondrashov FA (2002) Selection for short introns in highly expressed genes. Nat Genet 31: 415-418.
4. Eisenberg E, Levanon EY (2003) Human housekeeping genes are compact. Trends Genet 19: 362-365.
5. Comeron JM (2004) Selective and mutational patterns associated with gene expression in humans: Influences on synonymous composition and intron presence. Genet 167: 1293-1304.
6. Ucker D, Yamamoto K (1984) Early events in the stimulation of mammary tumor virus RNA synthesis by glucocorticoids. Novel assays of transcription rates. J Biol Chem 259: 7416-7420.
7. Vinogradov AE (2004) Compactness of human housekeeping genes: Selection for economy or genomic design? Trends Genet 20: 248-253.
8. Versteeg R, van Schaik BD, van Batenburg MF, Roos M, Monajemi R, et al. (2003) The human transcriptome map reveals extremes in gene density, intron length, GC content, and repeat pattern for domains of highly and weakly expressed genes. Genome Res 13: 1998-2004.
9. Fullerton SM, Bernardo Carvalho A, Clark AG (2001) Local rates of recombination are positively correlated with GC content in the human genome. Mol Biol Evol 18: 1139-1142.
10. Mascarenhas JP (1993) Molecular mechanisms of pollen tube growth and differentiation. Plant Cell 5: 1303-1314.
11. Lord EM, Russell SD (2002) The mechanisms of pollination and fertilization in plants. Annu Rev Cell Dev Biol 18: 81-105.
12. McCormick S (2004) Control of male gametophyte development. Plant Cell 16: 142-153.
13. Walbot V, Evans MM (2003) Unique features of the plant life cycle and their consequences. Nat Rev Genet 4: 369-379.
14. Bernasconi G, Ashman TL, Birkhead TR, Bishop JD, Grossniklaus U, et al. (2004) Evolutionary ecology of the prezygotic stage. Science 303: 971-975.
15. Majewski J, Ott J (2002) Distribution and characterization of regulatory elements in the human genome. Genome Res 12: 1827-1836.
16. Robinson SJ, Cram DJ, Lewis CT, Parkin IA (2004) Maximizing the efficiency of SAGE analysis identifies novel transcripts in Arabidopsis. Plant Physiol 136: 3223-3233.
17. Schmid M, Davison TS, Henz SR, Pape UJ, Demar M, et al. (2005) A gene expression map of Arabidopsis thaliana development. Nat Genet 37: 501-506.
18. Becker JD., Boavida LC, Carneiro J, Haury M, Feijo J (2003) A. Transcriptional profiling of Arabidopsis tissues reveals the unique characteristics of the pollen transcriptome. Plant Physiol 133: 713-725.
19. Mourier T, Jeffares DC (2003) Eukaryotic intron loss. Science 300: 1393.
20. Marais G, Charlesworth B, Wright SI (2004) Recombination and base composition: The case of the highly self-fertilizing plant Arabidopsis thaliana. Genome Biol 5: R45.
21. Charlesworth D, Vekemans X (2005) How and when did Arabidopsu thaliana become highly self-fertilising. Bioessays 27: 472-476.
22. Saitou N, Ueda S (1994) Evolutionary rates of insertion and deletion in noncoding nucleotide sequences of primates. Mol Biol Evol 11: 504-512.
23. Ophir R, Graur D (1997) Patterns and rates of indel evolution in processed pseudogenes from humans and murids. Gene 205: 191-202.
24. Izban MG, Luse DS (1991) Transcription on nucleosomal templates by RNA polymerase-Ii in vitro - Inhibition of elongation with enhancement of sequence-specific pausing. Genes Dev 5: 683-696.
25. Hawley DK, Roeder RG (1987) Functional steps in transcription initiation and reinitiation from the major late promoter in a HeLa nuclear extract. J Biol Chem 262: 3452-3461.
26. Femino AM, Fay FS, Fogarty K, Singer RH (1998) Visualization of single RNA transcripts in situ. Science 280: 585-590.
27. Lee JY, Lee D (2003) H. Use of serial analysis of gene expression technology to reveal changes in gene expression in Arabidopsis pollen undergoing cold stress. Plant Physiol 132: 517-529.
28. Du Z, Scott AD, May GD (2003) Amplification of high-quantity serial analysis of gene expression ditags and improvement of concatamer cloning efficiency. Biotech 35: 70-72.
29. Ekman DR, Lorenz WW, Przybyla AE, Wolfe NL, Dean JF (2003) SAGE analysis of transcriptome responses in Arabidopsis roots exposed to 2,4,6- trinitrotoluene. Plant Physiol 133: 1397-1406.
30. Munos S, Cazettes C, Fizames C, Gaymard F, Tillard P, et al. (2004) Transcript profiling in the chll-5 mutant of Arabidopsis reveals a role of the nitrate transporter NRT1 in the regulation of another nitrate transporter, NRT2. Plant Cell 16: 2433-2447.