Skip to main content
Log in

Molecular evolution of cdc2 pseudogenes in spruce (Picea)

  • Published:
Plant Molecular Biology Aims and scope Submit manuscript

Abstract

The p34cdc2 protein and other cyclin-dependent protein kinases (CDK) are important regulators of eukaryotic cell cycle progression. We have previously cloned a functional cdc2 gene from Picea abies and found it to be part of a family of related sequences, largely consisting of pseudogenes. We now report on the isolation of partial cdc2 pseudogenes from Picea engelmannii and Picea sitchensis, as well as partial functional cdc2 sequences from P. engelmannii, P. sitchensis and Pinus contorta. A high level of conservation between species was detected for these sequences. Phylogenetic analyses of pseudogene and functional cdc2 sequences, as well as the presence of shared insertions or deletions, support the division of most of the cdc2 pseudogenes into two subfamilies. New cdc2 pseudogenes appear to have been formed in Picea at a much higher rate than they have been obliterated by neutral mutations. The pattern of nucleotide changes in the cdc2 pseudogenes, as compared to a presumed ancestral functional cdc2 gene, was similar to that previously found in mammalian pseudogenes, with a strong bias for the transitions C to T and G to A, and the transversions C to A and G to T.

This is a preview of subscription content, log in via an institution to check access.

Access this article

Price excludes VAT (USA)
Tax calculation will be finalised during checkout.

Instant access to the full article PDF.

Institutional subscriptions

Similar content being viewed by others

References

  1. Chase MW et al.: Phylogenetics of seed plants: an analysis of nucleotide sequences from the plastid gene rbcL. Ann Mo Bot Gard 80: 528–580

  2. Colasanti J, Tyers M, Sundaresan V: Isolation and characterization of cDNA clones encoding a functional p34cdc2 homologue from Zea mays. Proc Natl Acad Sci USA 88: 3377–3381 (1991).

    Google Scholar 

  3. Derr LK, Strathern JN: A role for reverse transcripts in gene conversion. Nature 361: 170–173 (1993).

    Google Scholar 

  4. Devereux JP, Haeberli P, Smithies O: A comprehensive set of sequence programs for the VAX. Nucl Acids Res 12: 387–395 (1984).

    Google Scholar 

  5. Devey ME, Fiddler TA, Liu BH, Knapp SJ, Neale DB: An RFLP linkagemap for loblolly pine based on a threegeneration outbred pedigree. Theor Appl Genet 88: 273–278 (1994).

    Google Scholar 

  6. Drouin G, Dover GA: A plant processed pseudogene. Nature 328: 557–558 (1987).

    Google Scholar 

  7. Farris JS: Methods for computing Wagner trees. Syst Zool 19: 83–92 (1970).

    Google Scholar 

  8. Felsenstein J: Phylip: phylogeny inference package, version 3.4. University of Washington, Seattle (1991).

    Google Scholar 

  9. Garcia-Meunier P, Etienne-Julan M, Fort Ph, Piechaczyk M, Bonhomme F: Conserted evolution in the GAPDH family of retrotransposed pseudogenes. Mamm Genome 4: 695–703 (1993).

    Google Scholar 

  10. Gojobori T, Li WH, Graur D: Patterns of nucleotide substitution in pseudogenes and functional genes. J Mol Evol 18: 360–369 (1982).

    Google Scholar 

  11. Govindaraju DR: Life histories, neighbourhood sizes, and variance structure in some North American conifers. Biol J Linn Soc 35: 69–78 (1988).

    Google Scholar 

  12. Graur D, Shuali Y, Li WH: Deletions in processed pseudogenes accumulate faster in rodents than in humans. J Mol Evol 28: 279–285 (1989).

    Google Scholar 

  13. Hart JA: A cladistic analysis of conifers: preliminary results. J Arnold Arbor 68: 269–307 (1987).

    Google Scholar 

  14. Hashimoto J, Hirabayashi T, Hayano Y, Hata S, Ohashi Y, Suzuka I, Utsugi T, Toh E A, Kikuchi Y: Isolation and characterization of cDNA clones encoding cdc2 homologues from Oryza sativa: a functional homologue and cognate variants. Mol Gen Genet 233: 10–16 (1992).

    Google Scholar 

  15. Imajuku Y, Hirayama T, Endoh H, Oka A: Exonintron organization of the Arabidopsis thaliana protein kinase genes CDC2a and CDC2b. FEBS Lett 304: 73–77 (1992).

    Google Scholar 

  16. Jacobs TW: Cell cycle control. Annu Rev Plant Physiol Plant Mol Biol 46: 317–339 (1995).

    Google Scholar 

  17. Jansson S, Meyer-Gauen G, Cerff R, Martin W: Nucleotide distribution in gymnosperm nuclear sequences suggests a model for GCcontent change in landplant nuclear genomes. J Mol Evol 39: 34–46 (1994).

    Google Scholar 

  18. Kiss T, Abel S, Solymosy F: a plant pseudogene for U1 RNA. Plant Mol Biol 12: 709–711 (1989).

    Google Scholar 

  19. Kumar S, Tamura K, Nei K: MEGA: Molecular Evolutionary Genetics Analysis, version 1.0. The Pennsylvania State University, University Park (1993).

    Google Scholar 

  20. Kvarnheden A: The nuclear genome of Norway spruce. Organization and variation. Ph.D. thesis, Uppsala University (1994).

  21. Kvarnheden A, Tandre K, Engstr öm P: A cdc2 homologue and closely related processed retropseudogenes from Norway spruce. Plant Mol Biol 27: 391–403 (1995).

    Google Scholar 

  22. Li WH, Wu CI, Luo CC: Nonrandomness of point mutation as reflected in nucleotide substitutions in pseudogenes and its evolutionary implications. J Mol Evol 21: 58–71 (1984).

    Google Scholar 

  23. Li WH, Graur D: Fundamentals of Molecular Evolution. Sinauer, Sunderland (1991).

  24. Loomis WF, Gilpin ME: Multigene families and vestigial sequences. Proc Natl Acad Sci USA 83: 2143–2147 (1986).

    Google Scholar 

  25. Maddison WP, Maddison DR: MacClade 3.03. Sinauer, Sunderland (1992).

  26. Marchuk D, Drumm M, Saulino A, Collins FS: Construction of Tvectors, a rapid and general system for direct cloning of unmodified PCR products. Nucl Acids Res 19: 1154 (1991).

    Google Scholar 

  27. Miksche JP: Recent advances of biotechnology and forest trees. For Chron 61: 449–453 (1985).

    Google Scholar 

  28. Miller Jr CN: A new species of Picea based on silicified seed cones from the Oligocene of Washington. Am J Bot 76: 747–754 (1989).

    Google Scholar 

  29. Norbury C, Nurse P: Animal cell cycles and their control. Annu Rev Biochem 61: 441–470 (1992).

    Google Scholar 

  30. Sanger F, Nicklen S, Coulsen AR: DNAsequencing with chainterminating inhibitors. Proc Natl Acad Sci USA74: 5463–5467 (1977).

    Google Scholar 

  31. Schmidt PA: Beitrag zur Systematik und Evolution der Gattung Picea A. DIETR. Flora 182: 435–461 (1989).

    Google Scholar 

  32. Sigurgeirsson A, Szmidt AE: Phylogenetic and biographic implications of chloroplast DNA variation in Picea. Nord J Bot 13: 233–246 (1993).

    Google Scholar 

  33. Stebbins GL: Coevolution of grasses and herbivores. Ann Mo Bot Gard 68: 75–86 (1981).

    Google Scholar 

  34. Swofford DL: PAUP: Phylogenetic Analysis Using Parsimony, version 3.1s. Illinois Natural History Survey, Champaign (1993).

  35. Wagner DB, Furnier GR, Saghai-Maroof MA, Williams SM, Dancik BP, Allard RW: Chloroplast DNA polymorphisms in lodgepole and jack pines and their hybrids. Proc Natl Acad Sci USA 84: 2097–2100 (1987).

    Google Scholar 

  36. Weiner AM, Deininger PL, Efstratiadis A: Nonviral retroposons: genes, pseudogenes, and transposable elements generated by the reverse flow of genetic information. Annu Rev Biochem 55: 631–661 (1986).

    Google Scholar 

Download references

Author information

Authors and Affiliations

Authors

Rights and permissions

Reprints and permissions

About this article

Cite this article

Kvarnheden, A., Albert, V.A. & Engström, P. Molecular evolution of cdc2 pseudogenes in spruce (Picea). Plant Mol Biol 36, 767–774 (1998). https://doi.org/10.1023/A:1005901413475

Download citation

  • Issue Date:

  • DOI: https://doi.org/10.1023/A:1005901413475

Navigation