Intraspecific variation in genome size in angiosperms: identifying its existence.

BACKGROUND The 6 years since the last Angiosperm Genome Size Discussion Meeting in 1997 have experienced the decline of the then widely held idea of the 'plastic' genome. Several published cases of intra-specific variation in cultivated plants have been questioned on re-investigation with an improved technical approach. At the same time, technical problems caused by staining inhibitors present in the plant material have been recognized. In the accumulation of genome size data more critical methods and rules for best practice are urgently needed. INFRA-SPECIFIC VARIATION RE-VISITED: This review is about (a) the basic requirement for repeatability of results and the need for self-criticism on the part of the investigator and (b) the critical points in the technical procedure, particularly the quantitative Feulgen reaction. Case studies are presented on Dasypyrum villosum (refuting a previously reported 'plastic genome' phenomenon), on Glycine max (refuting previously claimed intraspecific variation) and on Arachis hypogaea and A. duranensis, in which reported C-values are too high by roughly two-fold. In A. hypogaea the reported intraspecific genome size variation could not be confirmed. Furthermore, a claimed negative correlation between altitude and genome size in A. duranensis was shown to be based on an arbitrary omission of data points that did not fit the correlation (although a correlation was found). BEST PRACTICE METHODOLOGY The finding of previously published questionable studies was the incentive for a re-consideration of the quantitative Feulgen procedure with regard to best practice in genome size studies. Clarification here of the critical steps of the method should help to improve the data in the literature. It must be stressed that the most important requirement is the need for a self-critical attitude of researchers to their data.

[1]  J. Specht,et al.  Relationships between nuclear DNA content and seed and leaf size in soybean , 1998, Theoretical and Applied Genetics.

[2]  H. Swift The Desoxyribose Nucleic Acid Content of Animal Nuclei , 1950, Physiological Zoology.

[3]  J. Greilhuber,et al.  Genome Size in Chinese Soybean Accessions—Stable or Variable? , 1999 .

[4]  J. Greilhuber,et al.  Genome size and maturity group in Glycine max (soybean) , 1997, Heredity.

[5]  J. Greilhuber Severely distorted Feulgen-DNA amounts in Pinus (Coniferophytina) after nonadditive fixations as a result of meristematic self-tanning with vacuole contents , 1986 .

[6]  D. Laurie,et al.  Nuclear DNA content in the genera Zea and Sorghum. Intergeneric, interspecific and intraspecific variation , 1985, Heredity.

[7]  Ilia J. Leitch,et al.  Comparisons with Caenorhabditis (∼100 Mb) and Drosophila (∼175 Mb) Using Flow Cytometry Show Genome Size in Arabidopsis to be ∼157 Mb and thus ∼25 % Larger than the Arabidopsis Genome Initiative Estimate of ∼125 Mb , 2003 .

[8]  S. S. Jha,et al.  Variability in nuclear DNA content within pigeonpea,Cajanus cajan (Fabaceae) , 1994, Plant Systematics and Evolution.

[9]  P. Cionini,et al.  Redundancy modulation of nuclear DNA sequences in Dasypyrum villosum , 1994, Theoretical and Applied Genetics.

[10]  H. Price,et al.  Sunflower (Helianthus annuus) Leaves Contain Compounds that Reduce Nuclear Propidium Iodide Fluorescence , 2000 .

[11]  J. Greilhuber,et al.  Genome size variation in Arachis hypogaea and A. monticola re-evaluated. , 2000, Genome.

[12]  J. Greilhuber,et al.  Genome size determination in peronosporales (Oomycota) by Feulgen image analysis. , 1998, Fungal genetics and biology : FG & B.

[13]  J. Greilhuber,et al.  Flow cytometric analysis of genome size variation in cultivated and wildPisum sativum (Fabaceae) , 1995, Plant Systematics and Evolution.

[14]  E. D. Earle,et al.  Nuclear DNA content of some important plant species , 2007, Plant Molecular Biology Reporter.

[15]  T. Cavalier-smith Economy, speed and size matter: evolutionary forces driving nuclear genome miniaturization and expansion. , 2005, Annals of botany.

[16]  K. Helander,et al.  Kinetic studies of formaldehyde binding in tissue. , 1994, Biotechnic & histochemistry : official publication of the Biological Stain Commission.

[17]  S. Singh,et al.  Karyotypic and genome size variation in Cajanus cajan (L.) Millsp. (pigeonpea) and some wild relatives , 2002, Genetic Resources and Crop Evolution.

[18]  T. Gregory Variation across amphibian species in the size of the nuclear genome supports a pluralistic, hierarchical approach to the C‐value enigma , 2003 .

[19]  R. Nelson,et al.  Nuclear DNA Content Diversity in Chinese Soybean Introductions , 1997 .

[20]  J. Greilhuber,et al.  Flow cytometric and Feulgen densitometric analysis of genome size variation in Pisum , 1996, Theoretical and Applied Genetics.

[21]  J. Greilhuber,et al.  Genome size variation inCajanus cajan (Fabaceae): A reconsideration , 1998, Plant Systematics and Evolution.

[22]  M. Bennett,et al.  Nuclear DNA content and minimum generation time in herbaceous plants , 1972, Proceedings of the Royal Society of London. Series B. Biological Sciences.

[23]  M. B. Bitonti,et al.  Different Duration of the Mitotic Cycle in Seedlings from Brown and Black Caryopses of Haynaldia Villosa Schur. , 1983 .

[24]  Jaroslav Dolezel,et al.  Plant DNA flow cytometry and estimation of nuclear genome size. , 2005, Annals of botany.

[25]  I. Leitch,et al.  DNA Amounts in Two Samples of Angiosperm Weeds , 1998 .

[26]  Jennifer J. Smith,et al.  C BAND HETEROCHROMATIN AND DNA CONTENT IN ZEA MAYS , 1985 .

[27]  J. S. Heslop-Harrison,et al.  Nuclear dna amounts in angiosperms. , 1976, Philosophical transactions of the Royal Society of London. Series B, Biological sciences.

[28]  A. Sharma,et al.  Chromosome Techniques: Theory and Practice , 1973 .

[29]  J. Doležel,et al.  Nuclear DNA content and genome size of trout and human. , 2003, Cytometry. Part A : the journal of the International Society for Analytical Cytology.

[30]  L Nardi,et al.  Plant Genome Size Estimation by Flow Cytometry: Inter-laboratory Comparison , 1998 .

[31]  J. Greilhuber,et al.  Plant Genome Size Measurement with DNA Image Cytometry , 2001 .

[32]  C. D. Nickell,et al.  Relationship between genome size and maturity group in soybean , 1994, Theoretical and Applied Genetics.

[33]  H. T. Stalker,et al.  Genetic diversity within the species Arachis duranensis Krapov. &W.C. Gregory, a possible progenitor of cultivated peanut. , 1995, Genome.

[34]  P. Barre,et al.  Investigation on the causes of stoichiometric error in genome size estimation using heat experiments: consequences on data interpretation. , 2005, Annals of botany.

[35]  C. De Pace,et al.  Genome size variations within Dasypyrum villosum: correlations with chromosomal traits, environmental factors and plant phenotypic characteristics and behaviour in reproduction , 1998, Theoretical and Applied Genetics.

[36]  S. Hamon,et al.  Nucleus–Cytosol Interactions—A Source of Stoichiometric Error in Flow Cytometric Estimation of Nuclear DNA Content in Plants , 2000 .

[37]  J. Greilhuber,et al.  Genome Size inAllium: In Quest of Reproducible Data , 1999 .

[38]  T. Cavalier-smith The Evolution of genome size , 1985 .

[39]  Johann Greilhuber,et al.  Intraspecific Variation in Genome Size: A Critical Reassessment , 1998 .

[40]  J. Suda,et al.  Nuclear DNA amounts in Macaronesian angiosperms. , 2003, Annals of botany.

[41]  J. Greilhuber “Self-tanning”—a new and important source of stoichiometric error in cytophotometric determination of nuclear DNA content in plants , 2004, Plant Systematics and Evolution.

[42]  A. F. Garcia A ONE-WAVELENGTH, TWO-AREA METHOD IN MICROSPECTROPHOTOMETRY FOR PURE AMPLITUDE OBJECTS , 1965, The journal of histochemistry and cytochemistry : official journal of the Histochemistry Society.

[43]  H. Price,et al.  Mitotic cycle time and DNA content in annual and perennialMicroseridinae (Compositae, Cichoriaceae) , 1976, Plant Systematics and Evolution.

[44]  J. Greilhuber,et al.  Feulgen densitometry: some observations relevant to best practice in quantitative nuclear DNA content determination , 2001 .

[45]  J. Greilhuber,et al.  Genome size in Arachis duranensis: a critical study. , 2001, Genome.

[46]  D. P. Fox SOME CHARACTERISTICS OF THE COLD HYDROLYSIS TECHNIQUE FOR STAINING PLANT TISSUES BY THE FEULGEN REACTION , 1969, The journal of histochemistry and cytochemistry : official journal of the Histochemistry Society.

[47]  K. Singh,et al.  Variation in chromosomal DNA associated with the evolution of Arachis species. , 1996, Genome.