1 Dr. Julia Weiss Genetics Institute of Plant ... - Plant Physiology

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crassulacean acid metabolism-induced leaves of the common ice plant. Plant Physiol 123: 1471-1482 Uemura M, Takata N, Saito S, Saito CT (2010) Phylogenetic footprint of the plant clock system in angiosperms: evolutionary processes of Pseudo-Response Regulators. BMC Evol Biol 10 Vandesompele J, De Preter K, Pattyn F, Poppe B, Van Roy N, De Paepe A, F. S (2002) Accurate normalization of realtime quantitative RT-PCR data by geometric averaging of multiple internal control genes. Genome Biology 3:RESEARCH0034 Vidal J, Chollet R (1997) Regulatory phosphorylation of C4 PEP carboxylase. Trends Plant Sci 2: 230-237 Weiss J, Nerd A, Mizrahi Y (1993) Vegetative Parthenocarpy in the Cactus Pear Opuntia-Ficus-Indica (L) Mill. Ann Bot 72: 521-526 Winter K, Garcia M, Holtum JAM (2008) On the nature of facultative and constitutive CAM: environmental and developmental control of CAM expression during early growth of Clusia, Kalanchoe, and Opuntia. J Exp Bot 59: 1829-1840 Wu J, Mao X, Cai T, Luo J, Wei L (2006) KOBAS server: a web-based platform for automated annotation and pathway identification. Nucleic Acids Res 34: W720 Wyka TP, Bohn A, Duarte HM, Kaiser F, Luttge UE (2004) Perturbations of malate accumulation and the endogenous rhythms of gas exchange in the Crassulacean acid metabolism plant Kalanchoe daigremontiana: testing the tonoplast-asoscillator model. Planta 219: 705-713 Ye J, Fang L, Zheng H, Zhang Y, Chen J, Zhang Z, Wang J, Li S, Li R, Bolund L (2006) WEGO: a web tool for plotting GO annotations. Nucleic acids research 34: W293 28
FIGURE LEGENDS Figure 1. Organs and developmental stages used for RNA extraction prior to EST sequencing and quantitative real-time PCR. A, 3-month-old seedling. B, young cladode. C, fully grown cladode. D, young flower bud. E and F, flower bud at anthesis. G and H, fruit. Scale bars: 1 cm except for that in C, which is 5 cm. Figure 2. Reference gene expression analysis. Organ types are: YC, young cladodes; CD, cladodes sampled during day; CD, cladodes sampled at night; OV, ovule tissue of fully developed flowers before anthesis; FR, ripe fruits. A, Reference gene expression stability heat map. geNorm's M and qBasePlus' M and CV expression stability values are shown for single and mixed organs. Each heat map spot represents a reference gene - organ or organ mix combination; spots with values below a stability threshold are represented in green (meaning reference gene suitability), whereas those above that threshold are plotted in magenta (not suitable). Specific thresholds are 0.2 for qBase Plus' CV values and 0.5 for geNorm's and qBase Plus' M values. A superposed heatmap, combining results from the three previous layers, is labelled as 'Global': green reflects combinations which had three out of three suitable stability measures; yellow,two out of three; orange, one out of three; and magenta, none. B, Minimum number of genes necessary for reliable and accurate normalization. GeNorm pairwise variation values (PV values) are computed by an algorithm which measures pairwise variation (Vn/n + 1) between two sequential normalization factors NFn and NFn + 1, where n is the number of genes involved in the normalization factor. A PV threshold of 0.15 is plotted. Figure 3. Phylogenetic analysis of A, PPCK; B, PEPC; C, MDH; D, NADP-ME and E PPDK. Bootstrapping values (percentage from 10000 sampled trees) are shown at the branch points. O. ficus-indica clones labeled with ‘contig’ or ‘F+letter/number code´ are 29
Page 1 and 2: Plant Physiology Preview. Published
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1 Dr. Julia Weiss Genetics Institute of Plant ... - Plant Physiology

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