Fig 1: Examination of visible phenotypes and the accumulation of major chloroplast protein complexes in the analysed transplastomic lines. (a) Wild-type-like phenotypes of the analysed transplastomic lines. Transplastomic and wild-type control plants (denominations given below each plant) were grown in standard growth conditions (see Experimental procedures) to the four-true-leaf stage at which the aerial parts were harvested for ribosome and transcriptome profiling. Note that a previously unnoticed (Schöttler et al., 2007b), very mild pale green phenotype was repeatedly observed for ?psaJ mutants in early developmental stages (disappearing in later growth stages), whereas all other transplastomic lines were completely indistinguishable from the wild type. (b) Accumulation of proteins of the photosynthetic machinery and the ribosome in the transplastomic lines. Immunoblot analyses of PsbA (photosystem II), PetB (cytochrome b 6 f complex), PSAD (photosystem I), AtpB (ATP synthase) and Rps15 (small subunit of the chloroplast ribosome) protein accumulation in transplastomic and wild-type plants. The experiment was performed with three independent biological replicates and a representative examination is shown (all replicate results are provided in Figure S1). A dilution series of the wild-type sample is loaded on the left (dilutions as indicated on top of the blots). (c) Quantification of immunoblot signal intensities shown in (b) and Figure S1. The band intensities were quantified for three independent biological replicates using Image Lab software (Bio-Rad) and normalized to the intensity of the undiluted wild-type sample. Error bars indicate the standard deviation of results obtained from three independent biological replicates. Asterisk marks a statistically significant difference (P <0.01, two-sided Student's t-test).