Investigation on the Causes of Stoichiometric Error in Genome Size Estimation Using Heat Experiments: Consequences on Data Interpretation

摘要

• Background and Aims In microdensitometry and flow cytometry, estimation of nuclear DNA content in a sample requires a standard with a known nuclear DNA content. It is assumed that dye accessibility to DNA is the same in the sample and standard nuclei. Stoichiometric error arises when dye accessibility is not proportional between the sample and standard. The aim of the present study was to compare the effects of standardization (external–internal) on nuclear fluorescence of two Coffea species and petunia when temperature increases, and the consequences on genome size estimation.• Methods Two coffee tree taxa, C. liberica subsp dewevrei (DEW) and C. pseudozanguebarieae (PSE), and Petunia hybrida were grown in a glasshouse in Montpellier, France. Nuclei were extracted by leaf chopping and at least 2 h after nuclei extraction they were stained with propidium iodide for approx. 3 min just before cytometer processing. In the first experiment, effects of heat treatment were observed in mixed (DEW + petunia) and unmixed extracts (petunia and DEW in separate extracts). Nine temperature treatments were carried out (21, 45, 55, 60, 65, 70, 75, 80 and 85 °C). In a second experiment, effects of heating on within-species genome size variations were investigated in DEW and PSE. Two temperatures (21 and 70 °C) were selected as representative of the maximal range of chromatin decondensation.• Key Results and Conclusions In coffee trees, sample and standard nuclei reacted differently to temperature according to the type of standardization (pseudo-internal vs. external). Cytosolic compounds released in the filtrate would modify chromatin sensitivity to decondensation. Consequently, the ‘genome size’ estimate depended on the temperature. Similarly, intraspecific variations in genome size changed between estimations at 21 °C and 70 °C. Consequences are discussed and stoichiometric error detection methods are proposed, along with proposals for minimizing them.