Evolution of genome size in the angiosperms

American Journal of Botany

Volumn 90, Issue 11, 2003, Pages 1596-1603

  Soltis, Douglas E ^a   Soltis, Pamela S ^b   Bennett, Michael D ^c   Leitch, Ilia J ^c  

^a UNIVERSITY OF FLORIDA   (United States)

^b UNIVERSITY OF FLORIDA   (United States)

^c JODRELL LABORATORY   (United Kingdom)

Author keywords

Angiosperms; C values; Character evolution; Genome size; Phylogeny

Indexed keywords

ANGIOSPERM; EVOLUTION; GENOME;

AMBORELLA; ASTERIDS; AUSTROBAILEYA; CARYOPHYLLALES; CORE EUDICOTS; EMBRYOPHYTA; GYMNOSPERMAE; LILIOPSIDA; MAGNOLIOPHYTA; SANTALALES; SAXIFRAGALES; SCHISANDRACEAE;

EID: 0344961935     PISSN: 00029122     EISSN: None     Source Type: Journal    
DOI: 10.3732/ajb.90.11.1596     Document Type: Article

References (63)

1. ALBACH, D. C., P. S. SOLTIS, D. E. SOLTIS, AND R. G. OLMSTEAD. 2001. Phylogenetic analysis of the Asteridae s. 1. based on sequences of four genes. Annals of the Missouri Botanical Garden 88: 163-212.
2. ANTONIUS, K., AND H. AHOKAS. 1996. Flow cytometric determination of polyploidy level in spontaneous clones of strawberries. Hereditas 124: 285.
3. APG [ANGIOSPERM PHYLOGENY GROUP]. 1998. An ordinal classification for the families of flowering plants. Annals of the Missouri Botanical Garden 85: 531-553.
4. APG II [ANGIOSPERM PHYLOGENY GROUP II]. 2003. An updated classification of the angiosperms. Botanical Journal of the Linnean Society 141: 399-436.
5. ARABIDOPSIS GENOME INITIATIVE. 2000. Analysis of the genome sequence of the flowering plant Arabidopsis thaliana. Nature 408: 796-815.
6. BENNETT, M. D., AND I. J. LEITCH. 2003. Angiosperm DNA C-values Database (release 3.1, September 2001). Website: http://www.rbgkew.org.uk/cval/homepage. html.
7. BENNETT, M. D., I. J. LEITCH, AND L. HANSON. 1998. DNA amounts in two samples of angiosperm weeds. Annals of Botany 82(Supplement A): 121-134.
8. BENNETT, M. D., AND J. B. SMITH. 1976. Nuclear DNA amounts in angiosperms. Philosophical Transactions of the Royal Society of London B 274: 227-274.
9. BENNETT, M. D., AND J. B. SMITH. 1991. Nuclear DNA amounts in angiosperms. Philosophical Transactions of the Royal Society of London B 334: 309-345.
10. BENNETZEN, J. L. 1996. The contributions of retroelements to plant genome organization, function, and evolution. Trends in Microbiology 4: 347-353.
11. BENNETZEN, J. L. 2000. Transposable element contributions to plant gene and genome evolution. Plant Molecular Biology 42: 251-269.
12. BENNETZEN, J. L. 2002. Mechanisms and rates of genome expansion and contraction in flowering plants. Genetica 115: 29-36.
13. BENNETZEN, J. L., AND E. A. KELLOGG. 1997. Do plants have a one-way ticket to genomic obesity? Plant Cell 9: 1509-1514.
14. BOWE, L. M., G. COAT, AND C. W. DEPAMPHILIS. 2000. Phylogeny of seed plants based on all three genomic compartments: extant gymnosperms are monophyletic and Gnetales' closest relatives are conifers. Proceedings of the National Academy of Sciences, USA 97: 4092-4097.
15. BOWERS, J. E., B. A. CHAPMAN, J. RONG, AND A. H. PATERSON. 2003. Unravelling angiosperm genome evolution by phylogenetic analysis of chromosomal duplication events. Nature 422: 433-438.
16. BREMER, B., K. BREMER, N. HEIDARI, P. ERIXON, R. G. OLMSTEAD, A. A. ANDERBERG, M. KÄLLERSJÖ, AND E. BARKHORDARIAN. 2002. Phylogenetics of asterids based on 3 coding and 3 non-coding chloroplast DNA markers and the utility of non-coding DNA at higher taxonomic levels. Molecular Phylogenetics and Evolution 24: 274-301.
17. CHASE, M. W., D. E. SOLTIS, P. S. SOLTIS, P. J. RUDALL, M. F. FAY, W. H. HAHN, S. SULLIVAN, J. JOSEPH, T. GIVNISH, K. J. SYTSMA, AND C. PIRES. 2000. Higher-level systematics of the monocotyledons: an assessment of current knowledge and a new classification. In K. Wilson and D. Morrison, [eds.], Proceedings of Monocots II: The Second International Symposium on the Comparative Biology of the Monocotyledons, Sydney, Australia, 3-16. CSIRO Press, Sydney, Australia.
18. CHASE, M. W., ET AL. 1993. Phylogenetics of seed plants: an analysis of nucleotide sequences from the plastid gene rbcL. Annals of the Missouri Botanical Garden 80: 528-580.
19. CHAW, S.-M., C. L. PARKINSON, Y. CHENG, T. M. VINCENT, AND J. D. PALMER. 2000. Seed plant phylogeny inferred from all three plant genomes: monophyly of extant gymnosperms and origin of Gnetales from conifers. Proceedings of the National Academy of Sciences, USA 97: 4086-4091.
20. COX, A. V., G. J. ABDELNOUR, M. D. BENNETT, AND I. J. LEITCH. 1998. Genome size and karyotype evolution in the slipper orchids (Cypripedioideae: Orchidaceae). American Journal of Botany 85: 681-687.
21. CUÉNOUD, P., V. SAVOLAINEN, L. W. CHATROU, M. POWELL, R. J. GRAYER, AND M. W. CHASE. 2002. Molecular phylogenetics of Caryophyllales based on nuclear 18S rDNA and plastid rbcL, atpB, and matK DNA sequences. American Journal of Botany 89: 132-144.
22. DRINNAN, A. N., P. R. CRANE, AND S. B. HOOT. 1994. Patterns of floral evolution in the early diversification of non-magnoliid dicotyledons (eudicots). Plant Systematics and Evolution, Supplement 8: 93-122.
23. EHRENDORFER, F., F. KRENDL, E. HABELER, AND W. SAUDER. 1968. Chromosome numbers and evolution in primitive angiosperms. Taxon 17: 337-468.
24. ELSIK, C. G., AND C. G. WILLIAMS. 2000. Retroelements contribute to the excess low-copy-number DNA in pine. Molecular and General Genetics 264: 47-55.
25. FISHBEIN, M., C. HIBSCH-JETTER, D. E. SOLTIS, AND L. HUFFORD. 2001. Phylogeny of Saxifragales (angiosperms, eudicots): analysis of a rapid, ancient radiation. Systematic Biology 50: 817-847.
26. FRANK, A. C., H. AMIRI, AND S. G. E. ANDERSSON. 2002. Genome deterioration: loss of repeated sequences and accumulation of junk DNA. Genetica 115: 1-12.
27. GRANT, D., P. CREGAN, AND R. C. SHOEMAKER. 2000. Genome organization in dicots: genome duplication in Arabidopsis and synteny between soybean and Arabidopsis. Proceedings of the National Academy of Sciences, USA 97: 4168-4173.
28. GRANT, V. 1981. Plant speciation. Columbia University Press, New York, New York, USA.
29. HANCOCK, J. M. 2002. Genome size and the accumulation of simple sequence repeats: implications of new data from genome sequencing projects. Genetica 115: 93-103.
30. HANSON, L. K., A. MCMAHON, M. A. T. JOHNSON, AND M. D. BENNETT. 2001a. First nuclear DNA C-values for 25 angiosperm families. Annals of Botany 87: 251-258.
31. HANSON, L., K. A. MCMAHON, M. A. T. JOHNSON, AND M. D. BENNETT. 2001b. First nuclear DNA C-values for another 25 angiosperm families. Annals of Botany 88: 851-858.
32. HOOT, S. B., J. W. KADEREIT, F. R. BLATTNER, K. B. JORK, A. E. SCHWARZBACH, AND P. R. CRANE. 1997. Data congruency and phylogeny of the Papaveraceae s. 1. based on four data sets: atpB and rbcL sequences, trnK restriction sites, and morphological characters. Systematic Botany 22: 575-590.
33. HOOT, S. B., S. MAGALLÓN, AND P. R. CRANE. 1999. Phylogeny of basal eudicots based on three molecular data sets: atpB, rbcL, and 18S nuclear ribosomal DNA sequences. Annals of the Missouri Botanical Garden 86: 1-32.
34. KIDWELL, M. G. 2002. Transposable elements and the evolution of genome size in eukaryotes. Genetica 115: 49-63.
35. KIRIK, A., S. SALOMON, AND H. PUCHTA. 2000. Species-specific double-strand break repair and genome evolution in plants. EMBO Journal 19: 5562-5566.
36. LEITCH, I. J., AND M. D. BENNETT. 1997. Polyploidy in angiosperms. Trends in Plant Science 2: 470-476.
37. LEITCH, I. J., M. W. CHASE, AND M. D. BENNETT. 1998. Phylogenetic analysis of DNA C-values provides evidence for a small ancestral genome size in flowering plants. Annals of Botany 82: 85-94.
38. LEITCH, I. J., AND L. HANSON. 2002. DNA C-values in seven families fill phylogenetic gaps in the basal angiosperms. Botanical Journal of the Linnean Society 140: 175-179.
39. LEITCH, I. J., L. HANSON, M. WINFIELD, J. PARKER, AND M. D. BENNETT. 2001. Nuclear DNA C-values complete familial representation in gymnosperms. Annals of Botany 88: 843-849.
40. MADDISON, W. P., AND D. R. MADDISON. 1992. MacClade: analysis of phylogeny and character evolution. Sinauer, Sunderland, Massachusetts, USA.
41. MATHEWS, S., AND M. J. DONOGHUE. 1999. The root of angiosperm phylogeny inferred from duplicate phytochrome genes. Science 286: 947-950.
42. NICKRENT, D. L., AND V. MALÉCOT. 2001. A molecular phylogeny of Santalales. In A. Fer, P. Thalouarn, D. M. Joel, L. J. Musselman, C. Parker, and J. A. C. Verkleij [eds.], Proceedings of the Seventh International Parasitic Weed Symposium, 69-74. Faculté des Sciences, Université de Nantes, Nantes, France.
43. OTTO, S. P., AND J. WHITTON. 2000. Polyploidy incidence and evolution. Annual Review of Genetics 34: 401-437.
44. PETROV, D. A. 2002. DNA loss and evolution of genome size in Drosophila. Genetica 115: 81-91.
45. PLUNKETT, G. M., AND S. R. DOWNIE. 1999. Major lineages within Apiaceae subfamily Apioideae: a comparison of chloroplast restriction site and DNA sequence data. American Journal of Botany 86: 1014-1026.
46. QIU, Y.-L., J. LEE, F. BERNASCONI-QUADRONI, D. E. SOLTIS, P. S. SOLTIS, M. ZANIS, E. A. ZIMMER, Z. CHEN, V. SAVOLAINEN, AND M. W. CHASE. 1999. The earliest angiosperms: evidence from mitochondrial, plastid and nuclear genomes. Nature 402: 404-407.
47. RABINOWICZ, P. D. 2000. Are obese plant genomes on a diet? Genome Research 10: 893-894.
48. RAVEN, P. H. 1975. The basis of angiosperm phylogeny: cytology. Annals of the Missouri Botanical Garden 62: 724-764.
49. SANMIGUEL, P. A., A. TIKHONOV, Y. K. JIN, N. MOTCHOULSKAIA, D. ZAKHAROV, A. MELAKE-BERHAN, P. S. SPRINGER, K. J. EDWARDS, M. LEE, Z. AVRAMOVA, AND J. L. BENNETZEN. 1996. Nested retrotransposons in the intergenic regions of the maize genome. Science 274: 765-768.
50. SMISSEN, R. D., J. C. CLEMENT, P. J. GARNOCK-JONES, AND G. K. CHAMBERS. 2002. Subfamilial relationships within Caryophyllaceae as inferred from 5′ ndhF sequences. American Journal of Botany 89: 1336-1341.
51. SOLTIS, D. E., A. E. SENTERS, M. J. ZANIS, S. KIM, J. D. THOMPSON, P. S. SOLTIS, L. RONSE DE CRAENE, P. K. ENDRESS, AND J. S. FARRIS. 2003. Gunnerales are sister to other core eudicots, and exhibit floral features of early-diverging eudicots. American Journal of Botany 90: 461-470.
52. SOLTIS, D. E., AND P. S. SOLTIS. 1990. Isozyme evidence for ancient polyploidy in primitive angiosperms. Systematic Botany 15: 328-337.
53. SOLTIS, D. E., P. S. SOLTIS, AND M. J. ZANIS. 2002. Phylogeny of seed plants based on evidence from eight genes. American Journal of Botany 89: 1670-1681.
54. SOLTIS, D. E., ET AL. 2000. Angiosperm phylogeny inferred from a combined data set of 18S rDNA, rbcL and atpB sequences. Botanical Journal of the Linnean Society 133: 381-461.
55. SOLTIS, P. S., AND D. E. SOLTIS. 2000. The role of genetic and genomic attributes in the success of polyploids. Proceedings of the National Academy of Sciences, USA 97: 7051-7057.
56. STEBBINS, G. L. 1971. Chromosomal evolution in higher plants. Addison-Wesley, London, UK.
57. THOMAS, C. A. 1971. The genetic organization of chromosomes. Annual Review of Genetics 5: 237-256.
58. VICIENT, C. M., A. SUONIEMI, K. ANAMTHAMAT-JONSSON, J. TANSKANEN, A. BEHARAV, E. NEVO, AND A. H. SCHULMAN. 1999. Retrotransposon BARE-1 and its role in genome evolution in the genus Hordeum. Plant Cell 11: 1769-1784.
59. WALBOT, V. 2000. A green chapter in the book of life. Nature 408: 794-795.
60. WENDEL, J. F. 2000. Genome evolution in polyploids. Plant Molecular Biology 42: 225-249.
61. WENDEL, J. F., R. C. CRONN, J. S. JOHNSTON, AND H. J. PRICE. 2002. Feast and famine in plant genomes. Genetica 115: 37-47.
62. ZANIS, M. J., D. E. SOLTIS, P. S. SOLTIS, S. MATHEWS, AND M. J. DONOGHUE. 2002. The root of the angiosperms revisited. Proceedings of the National Academy of Sciences, USA 99: 6848-6853.
63. ZUCKERKANDL, E. 2002. Why so many noncoding nucleotides? The eukaryote genome as an epigenetic machine. Genetica 115: 105-129.