Shrinking genomes? Evidence from genome size variation in Crepis (Compositae)

Plant Biology

Volumn 13, Issue 1, 2011, Pages 185-193

  Enke, N ^a   Fuchs, J ^b   Gemeinholzer, B ^a  

^a FREIE UNIVERSITÄT BERLIN   (Germany)

^b LEIBNIZ INSTITUTE OF PLANT GENETICS AND CROP PLANT RESEARCH IPK   (Germany)

Author keywords

Ancestral character state reconstruction; Compositae; Crepis; Flow cytometry; Genome evolution; ITS

Indexed keywords

ANCESTRY; DICOTYLEDON; EVOLUTIONARY BIOLOGY; FLOW CYTOMETRY; GENOMICS; GEOGRAPHICAL DISTRIBUTION; KARYOTYPE; PHYLOGENETICS; PHYLOGENY; POLYPLOIDY; RECONSTRUCTION; SIZE;

ARTICLE; CREPIS; GENETIC VARIABILITY; GENETICS; PHYLOGENY; PLANT GENOME; SPECIES DIFFERENTIATION;

CREPIS; GENETIC SPECIATION; GENETIC VARIATION; GENOME, PLANT; PHYLOGENY;

ASTERACEAE; CREPIS; MAGNOLIOPHYTA;

EID: 78650116447     PISSN: 14358603     EISSN: 14388677     Source Type: Journal    
DOI: 10.1111/j.1438-8677.2010.00341.x     Document Type: Article

References (79)

1. Albach D.C., Greilhuber J. (2004) Genome size variation and evolution in Veronica. Annals of Botany, 94, 897-911.
2. Avdulov N.P. (1931) Karyo-Systematische Untersuchungen der Familie Gramineen. Bulletin Applied Botany Genetics and Plant Breeding, 44, 1-428.
3. Babcock E.B. (1947a) The genus Crepis I. The taxonomy, phylogeny, distribution and evolution of Crepis. University of California Press, Berkeley, USA.
4. Babcock E.B. (1947b) The genus Crepis II. Systematic treatment. University of California Press, Berkeley, USA.
5. Bennett M.D. (1972) Nuclear DNA content and minimum generation time in herbaceous plants. Proceedings of the Royal Society of London B, 181, 109-135.
6. Bennett M.D., Leitch I.J. (1995) Nuclear DNA amounts in angiosperms. Annals of Botany, 76, 113-176.
7. Bennett M.D., Leitch I.J. (2005) Genome size evolution in plants. In: Gregory T.R. (Ed.), The evolution of the genome. Elsevier Academic Press, Amsterdam, The Netherlands: 89-162.
8. Bennett M.D., Smith J.B. (1976) Nuclear DNA amounts in angiosperms. Philosophical Transactions of the Royal Society of London B, 274, 227-274.
9. Bennett M.D., Leitch I.J., Hanson L. (1998) DNA amounts in two samples of angiosperm weeds. Annals of Botany. 82 (Suppl. A), 121-234.
10. Bennett M.D., Johnston S., Hodnett G.L., Price H.J. (2000) Allium cepa L. cultivars from four continents compared by flow cytometry show nuclear DNA constancy. Annals of Botany, 85, 351-357.
11. Bennetzen J.L., Kellogg E.A. (1997) Do plants have a one-way ticket to genomic obesity? The Plant Cell, 9, 1509-1514.
12. Cavalier-Smith T. (1978) Nuclear volume control by nucleoskeletal dna, selection for cell volume and cell growth rate, and the solution of the C-value paradox. Journal of Cell Science, 34, 247-278.
13. Cerbah M., Souza-Chies T., Jubier M.F., Lejeune B., Siljak-Yakovlev S. (1998) Molecular phylogeny of the genus Hypochaeris using internal transcribed spacers of nuclear rDNA: inference for chromosomal evolution. Molecular Biology and Evolution, 15, 345-354.
14. Cheptou P.O., Berger A., Blanchard A., Collin C., Escarre J. (2000) The effect of drought stress on inbreeding depression in four populations of the Mediterranean outcrossing plant Crepis sancta (Asteraceae). Heredity, 85, 294-302.
15. Dart S., Kron P., Mable B.K. (2004) Characterizing polyploidy in Arabidopsis lyrata using chromosome counts and flow cytometry. Canadian Journal of Botany, 82, 185-197.
16. Devos K.M., Brown J.K.M., Bennetzen J.L. (2002) Genome size reduction through illegitimate recombination counteracts genome expansion in Arabidopsis. Genome Research, 12, 1075-1079.
17. Dimitrova D., Greilhuber J. (2000) Karyotype and DNA-content evolution in ten species of Crepis (Asteraceae) distributed in Bulgaria. Botanical Journal of the Linnean Society, 132, 281-297.
18. Dimitrova D., Greilhuber J. (2001) C-Banding patterns and quantitative karyotype characteristics of Bulgarian species of Crepis (Asteraceae). Plant Biology, 3, 88-97.
19. Enke N., Gemeinholzer B. (2008) Babcock revisited: new insights into generic delimitation and character evolution in Crepis L. (Compositae: Cichorieae) from ITS and MatK sequence data. Taxon, 57, 756-768.
20. Flavell R.B. (1980) The molecular characterization and organization of plant chromosomal DNA sequences. Annual Review of Plant Physiology, 31, 569-596.
21. Flavell R.B. (1986) Repetitive DNA and chromosome evolution in plants. Philosophical Transactions of the Royal Society of London B, 312, 227-242.
22. Garnatje T., Vallès J., Garcia S., Hidalgo O., Sanz M., Canela M.A., Siljak-Yakovlev S. (2004) Genome size in Echinops L. and related genera (Asteraceae, Cardueae): karyological, ecological and phylogenetic implications. Biology of the Cell, 96, 117-124.
23. Govindaraju D.R., Cullis C.A. (1991) Modulation of genome size in plants: the influence of breeding systems and neighbourhood size. Evolutionary Trends in Plants, 5, 43-51.
24. Grant V. (1982) Periodicities in the chromosome numbers of the angiosperm. Botanical Gazette, 143, 379-389.
25. Gregory T.R. (2001) Coincidence, coevolution, or causation? DNA content, cell size, and the C-value enigma Biological Reviews, 76, 65-101.
26. Greilhuber J. (1998) Intraspecific variation in genome size in angiosperms: a critical reassessment. Annals of Botany 82 (Suppl. A), 27-35.
27. Greilhuber J. (2005) Intraspecific variation in genome size in angiosperms: identifying its existence. Annals of Botany, 95, 91-98.
28. Greilhuber J., Ebert I. (1994) Genome size variation in Pisum sativum. Genome, 37, 646-655.
29. Greilhuber J., Doležel J., Lysák M., Bennett M.D. (2005) The origin, evolution, and proposed stabilisation of the terms "genome size" and "C-value" to describe nuclear DNA contents. Annals of Botany, 95, 255-260.
30. Greilhuber J., Borsch T., Müller K., Worberg A., Porembski S., Barthlott W. (2006) Smallest angiosperm genomes found in lentibulariaceae, with chromosomes of bacterial size. Plant Biology, 8, 770-777.
31. 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.
32. Hollingshead L. (1930) Cytological investigations of hybrids and hybrid derivative Crepis capillaris and Crepis tectorum. University of California Publications in Agricultural Sciences, 6, 55-94.
33. Hughes M.B., Babcock E.B. (1950) Self-incompatibility in Crepis foetida (L.) subsp. rhoeadifolia (Bieb.) Schinz et Keller. Genetics, 35, 570-588.
34. Jakob S.S., Meister A., Blattner F.R. (2004) The considerable genome size variation of Hordeum species (Poaceae) is linked to phylogeny, life form, ecology, and speciation rates. Molecular Biology and Evolution, 21, 860-869.
35. Jones R.N., Brown L.M. (1976) Chromsome evolution and DNA variation in Crepis. Heredity, 36, 91-104.
36. Kamari G. (1976) Cytotaxonomic study of the Crepis neglecta complex in Greece. Publication of the Botanical Institute, University of Patras, Greece.
37. Kamari G. (1992) Karyosystematic studies on three Crepis species (Asteraceae) endemic to Greece. Plant Systematics and Evolution, 182, 1-19.
38. Kellogg E.A. (1998) Relationships of cereals, crops and other grasses. Proceeding of the National Academy of Science USA, 95, 2005-2010.
39. Kilian N., Gemeinholzer B., Lack H.W. (2009) Tribe Cichorieae. In: Funk V., Susanna A., Stuessy T., Bayer R. (Eds), Systematics and evolution of the Compositae. IAPT, Vienna, Austria, pp. 343-383.
40. Kirik A., Salomon S., Puchta H. (2000) Species-specific doublestrand break repair and genome evolution in plants. EMBO Journal, 19, 5562-5566.
41. Knight C.A., Ackerley D.D. (2002) Variation in nuclear content across environmental gradients: a quantile regression analysis. Ecology Letters, 5, 66-76.
42. Knight C.A., Beaulieu J.M. (2008) Genome size scaling through phenotype space. Annals of Botany, 101, 759-766.
43. Knight C.A., Molinari N.A., Petrov D.A. (2005) The large genome constraint hypothesis: evolution, ecology and phenotype. Annals of Botany, 95, 177-190.
44. Kubis K., Schmidt T., Heslop-Harrison J.S. (1998) Repetitive DNA elements as a major component of plant genomes. Annals of Botany. 82 (Suppl. A), 45-55.
45. Leitch I.J., Bennett M.D. (2004) Genome downsizing in polyploid plants. Biological Journal of the Linnean Society, 82, 651-663.
46. Leitch I.J., Chase M.W., Bennett M.D. (1998) Phylogenetic analysis of C-DNA values provides evidence for a small ancestral genome size in flowering plants. Annals of Botany, 82, 85-94.
47. Levin D.A. (2002) The role of chromosomal change in plant evolution. Oxford University Press, New York, USA.
48. Levin D.A., Funderburg S.W. (1979) Genome size in angiosperms: temperate versus tropical species. American Naturalist, 114, 784-795.
49. Loureiro J., Rodriguez E., Doležel J., Conceição S. (2007) Two new nuclear isolation buffers for plant DNA flow cytometry: a test with 37 species. Annals of Botany, 100, 875-888.
50. Ma J., Devos K.M., Bennetzen J.L. (2004) Analysis of LTR-retrotransposon structures reveal recent and rapid genomic dna loss in rice. Genome Research, 14, 860-869.
51. Maddison W.P., Maddison D.R. (2008) Mesquite: a modular system for evolutionary analysis. Version 2.5.
52. Marie D., Brown S.C. (1993) A cytometric exercise in plant DNA histograms, with 2C values for 70 species. Biology of the Cell, 78, 41-51.
53. Masterson J. (1994) Stomatal size in fossil plants: evidence for polyploidy in the majority of angiosperms. Science, 264, 421-424.
54. Murray B.G. (2005) When does intraspecific C-value variation become taxonomically significant? Annals of Botany, 95, 119-125.
55. Ohri D. (1998) Genome size variation and plant systematics. Annals of Botany. 82 (Suppl.A), 75-83.
56. Ohri D. (2005) Climate and growth form: the consequences for genome size in plants. Plant Biology, 7, 449-458.
57. Petrov D.A. (2002) DNA loss and evolution of genome size in Drosophila. Genetica, 115, 81-91.
58. Raina S.N., Rees H. (1983) DNA variation between and within chromosome complements of Vicia species. Heredity, 51, 335-346.
59. Ronquist F., Huelsenbeck J.P. (2003) MrBayes 3: Bayesian phylogenetic inference under mixed models. Bioinformatics, 19, 1572-1574.
60. Schmidt T., Heslop-Harrison J.S. (1998) Genomes, genes, and junk: the large scale organization of plant chromosomes. Trends in Plant Science, 3, 195-199.
61. Sherman M. (1946) Karyotype evolution: a cytogenetic study of seven species and six intraspecific hybrids of Crepis. University of California Publications in Botany, 18, 369-408.
62. Siljak-Yakovlev S., Cartier D. (1982) Comparative analysis of C-band karyotypes in Crepis praemorsa subsp. praemorsa and subsp. dinarica. Plant Systematics and Evolution, 141, 85-90.
63. Sims L.E., Price H.J. (1985) Nuclear DNA content variation in Helianthus (Asteraceae). American Journal of Botany, 72, 1213-1219.
64. Soltis D.E., Soltis P.S., Bennett M.D., Leitch I.J. (2003) Evolution of genome size in the angiosperms. American Journal of Botany, 90, 1596-1603.
65. Swofford D.L. (2002) PAUP*: Phylogenetic Analyses Using Parsimony (* and Other Methods), version 4.0 Beta. Sinauer, Sunderland, UK.
66. Temsch E.M., Greilhuber J. (2001) Genome size in Arachis duranensis: a critical study. Genome, 44, 826-830.
67. Thomas C.A. (1971) The genetic organizations of chromosomes. Annual Review of Genetics, 5, 237-256.
68. Tobgy H.A. (1943) A cytological study of Crepis fuliginosa, C. neglecta and their F1 hybrid, and its bearing on the mechanism of phylogenetic reduction in chromosome number. Journal of Genetics, 45, 67-111.
69. Torrell M., Vallès J. (2001) Genome size in 21 Artemisia species (Asteraceae, Anthemideae): systematic, evolutionary, and ecological implications. Genome, 44, 231-238.
70. Turpeinen T., Kulmala J., Nevo E. (1999) Genome size variation in Hordeum spontaneum populations. Genome, 42, 1094-1099.
71. Vicient C.N., Suoniemi A., Anamthamat-Jonsson K., Tanskanene J., Beharav A., Nevo E., Schulman A.H. (1999) Retrotransposon BARE-1 and its role in genome evolution in the genus Hordeum. The Plant Cell, 11, 1769-1784.
72. Vinogradov A.E. (1998) Buffering: a possible passive-homeostasis role for redundant DNA. Journal of Theoretical Biology, 193, 197-199.
73. Vitte C., Bennetzen J.L. (2006) Analysis of retrotransposon structural diversity uncovers properties and propensities in angiosperm genome evolution. Proceedings of the National Academy of Science, USA, 103, 17638-17643.
74. Wallace H., Sparkes C.A., Maden M. (1972) Nuclear DNA content of three Crepis species. Heredity, 29, 267-373.
75. Watanabe K., Yahara T., Denda T., Kosuge K. (1999) Chromosomal evolution in the genus Brachyscome (Asteraceae, Asterae): statistical tests regarding correlation between changes in karyotype and habit using phylogenetic information. Journal of Plant Research, 112, 145-161.
76. Wendel J.F. (2000) Genome evolution in polyploids. Plant Molecular Biology, 42, 225-249.
77. Wendel J.F., Cronn R.C., Johnston J.S., Price H.J. (2002) Feast and famine in plant genomes. Genetica, 115, 37-47.
78. Yan G., Yao J., Ferguson A.R., McNeilage M.A., Seal A.G., Murray B.G. (1997) New reports of chromosome numbers in Actinidia (Actinidiaceae). New Zealand Journal of Botany, 35, 181-186.
79. Zuckerkandl E. (2002) Why so many noncoding nucleotides? The eukaryote genome as an epigenetic machine Genetica, 115, 105-129.