Intron size and genome size in plants [8]

Molecular Biology and Evolution

Volumn 19, Issue 12, 2002, Pages 2346-2352

  Wendel, Jonathan F ^a   Cronn, Richard C ^a,b   Alvarez, Ines ^a   Liu, Bao ^a,c   Small, Randall L ^a,d   Senchina, David S ^a  

^a IOWA STATE UNIVERSITY   (United States)

^b PACIFIC NORTHWEST RESEARCH STATION   (United States)

^c NORTHEAST NORMAL UNIVERSITY   (China)

^d UNIVERSITY OF TENNESSEE   (United States)

Author keywords

C value; DNA content variation; Gossypium; Molecular evolution

Indexed keywords

GENOME SIZE; INTRON; LETTER; NONHUMAN; NUCLEOTIDE SEQUENCE; PHYLOGENY; PLANT; PLANT GENETICS; POLYMERASE CHAIN REACTION; GENOME;

EMBRYOPHYTA; GOSSYPIUM;

GENOME, PLANT; INTRONS;

EID: 0036897696     PISSN: 07374038     EISSN: None     Source Type: Journal    
DOI: 10.1093/oxfordjournals.molbev.a004062     Document Type: Letter

References (41)

1. Arabidopsis Genome Initiative. 2000. Analysis of the genome sequence of the flowering plant Arabidopsis thaliana. Nature 408:796-815.
2. Bennett, M. D., A. V. Cox, and I. J. Leitch. 1997. Angiosperm DNA c-Values Database. http://www.rbgkew.org.uk/cva1/database1.html.
3. Bennetzen, J. L. 1998. The structure and evolution of angiosperm nuclear genomes. Curr. Opin. Plant Biol. 1:103-108.
4. -. 2000. Transposable element contributions to plant gene and genome evolution. Plant Mol. Biol. 42:251-269.
5. Brubaker, C. L., A. H. Paterson, and J. F. Wendel. 1999. Comparative genetic mapping of allotetraploid cotton and its diploid progenitors. Genome 42:184-203.
6. Carvalho, A. B., and A. G. Clark. 1999. Intron size and natural selection. Nature 401:344.
7. Cedroni, M. L., R. C. Cronn, K. L. Adams, T. A. Wilkins, and J. F. Wendel. 2002. Evolution and expression of MYB genes in diploid and polyploid cotton. Plant Mol. Biol. (in press).
8. Comeron, J. M., and M. Kreitman. 2000. The correlation between intron length and recombination in Drosophila. Dynamic equilibrium between mutational and selective forces. Genetics 156:1175-1190.
9. Cronn, R. C., M. Cedroni, T. Haselkorn, C. Grover, and J. E Wendel. 2002b. PCR-mediated recombination in amplification products derived from polyploid cotton. Theor. Appl. Genet. 104:482-489.
10. Cronn, R. C., R. L. Small, T. Haselkorn, and J. F. Wendel. 2002a. Rapid diversification of the cotton genus (Gossypium: Malvaceae) revealed by analysis of sixteen nuclear and chloroplast genes. Am. J. Bot. 84:707-725.
11. Cronn, R., R. L. Small, and J. F. Wendel. 1999. Duplicated genes evolve independently following polyploid formation in cotton. Proc. Natl. Acad. Sci. USA 96:14406-14411.
12. Deutsch, M., and M. Long. 1999. Intron-exon structure of eukaryotic model organisms. Nucleic Acids Res. 27:3219-3228.
13. Endrizzi, J. E., E. L. Turcotte, and R. J. Kohel. 1985. Genetics, cytogenetics, and evolution of Gossypium. Adv. Genet. 23:271-375.
14. Goff, S. A., D. Ricke, T.-H. Lan et al. (52 co-authors). 2002. A draft sequence of the rice genome (Oryza sativa L. ssp. japonica). Science 296:92-100.
15. Gregory, T. R. 2001. Animal genome size database. http://www.genomesize.com.
16. Hall, T. A. 1999. BioEdit: A user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT Nucleic Acids Symp. Ser. 41:95-98.
17. Hughes, A. L., and M. K. Hughes. 1995. Small genomes for better flyers. Nature 377:391.
18. Lynch, M. 2002. Intron evolution as a population-genetic process. Proc. Natl. Acad. Sci. USA 99:6118-6123.
19. McLysaght, A., A. J. Enright, L. Skrabanek, and K. H. Wolfe. 2000. Estimation of synteny conservation and genome compaction between pufferfish (Fugu) and human. Yeast 17:22-36.
20. Moriyama, E. N., D. A. Petrov, and D. L. Hartl. 1998. Genome size and intron size in Drosophila. Mol. Biol. Evol. 15:770-773.
21. Ogata, H., W. Fujibuchi, and M. Kanehisa. 1996. The size differences among mammalian introns are due to the accumulation of small deletions. FEBS Lett. 390:99-103.
22. Paterson, A. H., C. L. Brubaker, and J. F. Wendel. 1993. A rapid method for extraction of cotton (Gossypium spp.) genomic DNA suitable for RFLP or PCR analysis. Plant Mol. Biol. Rep. 11:122-127.
23. Petrov, D. A. 2001. Evolution of genome size: New approaches to an old problem. Trends Genet. 17:23-28.
24. Petrov, D. A., T. A. Sangster, J. S. Johnston, D. L. Hartl, and K. L. Shaw. 2000. Evidence for DNA loss as a determinant of genome size. Science 287:1060-1062.
25. Reinisch, A. J., J. Dong, C. L. Brubaker, D. M. Stelly, J. F. Wendel, and A. H. Paterson. 1994. A detailed RFLP map of cotton, Gossypium hirsutum x G. barbadense: Chromosome organization and evolution in a disomic polyploid genome. Genetics 138:829-847.
26. Rozas, J., and R. Rozas. 1999. DnaSP version 3: An integrated program for molecular population genetics and molecular evolution analysis. Bioinformatics 15:174-175.
27. SanMiguel, P., A. Tikhonov, Y. K. Jin et al. (11 co-authors). 1996. Nested retrotransposons in the intergenic regions of the maize genome. Science 274:765-768.
28. Seelanan, T., A. Schnabel, and J. F. Wendel. 1997. Congruence and consensus in the cotton tribe. Syst. Bot. 22:259-290.
29. Small, R. L., and J. F. Wendel. 2000. Copy number lability and evolutionary dynamics of the Adh gene family in diploid and tetraploid cotton (Gossypium). Genetics 155:1913-1926.
30. Tel-zur, N. 1999. Modified CTAB procedure for DNA isolation from epiphytic cacti of the genera Hylocereus and Selenicerus (Cactaceae). Plant Mol. Biol. Rep. 17:249-254.
31. Tomkins, J. P., D. G. Peterson, T. J. Yang, D. Main, T. A. Wilkins, A. H. Paterson, and R. A. Wing. 2001. Development of genomic resources for cotton (Gossypium hirsutum L.): BAC library construction, preliminary STC analysis, and identification of clones associated with fiber development. Mol. Breed. 8:255-261.
32. Vinogradov, A. E. 1999. Intron-genome size relationship on a large evolutionary scale. J. Mol. Evol. 49:376-384.
33. -. 2002. Growth and decline of introns. Trends Genet. 18:232-236.
34. Wendel, J. F. 1989. New World tetraploid cottons contain Old World cytoplasm. Proc. Natl. Acad. Sci. USA 86:4132-4136.
35. -. 1995. Cotton. Pp. 358-366 in N. Simmonds and J. Smartt, eds. Evolution of Crop Plants. Longman, London.
36. Wendel, J. F., and V. A. Albert. 1992. Phylogenetics of the cotton genus (GossypiumL.): Character-state weighted parsimony analysis of chloroplast DNA restriction site data and its systematic and biogeographic implications. Syst. Bot. 17:115-143.
37. Wendel, J. F., and R. C. Cronn. 2002. Polyploidy and the evolutionary history of cotton. Adv. Agron. (in press).
38. Wendel, J. F., R. C. Cronn, J. S. Johnston, and H. J. Price. 2002. Feast and famine in plant genomes. Genetica 115:37-47.
39. Wong, G. K.-S., D. A. Passey, Y.-Z. Huang, Z. Yang, and J. Yu. 2000. Is "junk" DNA mostly intron DNA? Genome Res. 10:1672-1678.
40. Wong, G. K.-S., D. A. Passey, and J. Yu. 2001. Most of the human genome is transcribed. Genome Res. 11: 1975-1977.
41. Yu, J., S. Hu, J. Wang et al. (97 co-authors). 2002. A draft sequence of the rice genome (Oryza sativa L. ssp. indica). Science 296:79-91.