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Table 1 RNA editing patterns in the chloroplast ndhD gene of the selected early branching angiosperms Amborella trichopoda, Calycanthus floridus, Ceratophyllum demersum, Chloranthus spicatus, Illicium oligandrum, Liriodendron tulipifera, Magnolia kwangsiensis, Nuphar advena and Zingiber spectabile in comparison to the ones of Arabidopsis thaliana and Cucumis sativus

From: Frequent chloroplast RNA editing in early-branching flowering plants: pilot studies on angiosperm-wide coexistence of editing sites and their nuclear specificity factors

  Amborella trichopoda Calycanthus floridus Ceratophyllum demersum Chloranthus spicatus Illicium oligandrum Liriodendron tulipifera Magnolia kwangsiensis Nuphar advena Zingiber spectabile Arabidopsis thaliana Cucumis sativus
eU2TM ed ed ed ed ed ed ed ed ed ed ed
eU59SL ed ed ed ed ed ed ed p C p p
eU145HY p p p p p p p p ed p p
eU239PL p ed p p p p p p p M p
eU305SL ed p p p p p p ed p p p
eU313RW p ed p ed p ed ed ed p F p
eU383SL ed ed p ed ed ed ed p ed ed ed
eU548SL p ed p ed ed ed ed p p p p
eU599SL ed p ed ed p ed ed p p p ed
eU668AV ed p p p ed p p p p p p
eU674SL* ed ed p ed ed ed p ed p ed ed
eU878SL ed ed ed ed ed ed ed ed ed ed ed
eU887PL* p p p ed ed ed ed p ed ed ed
eU944SF ed p p p p p p p p p p
eU947TI ed ed p p p ed ed p ed p p
eU1163SL ed p p p p p p p p p p
eU1193SL F p p ed ed ed ed p ed p p
eU1298SL p ed ed ed ed ed ed ed p p p
eU1310SL ed p p ed ed ed ed ed p p p
eU1424TI p p p p p p p p ed p p
18+ 2 12 10 5 12 11 13 12 7 8 5 6
  1. A ‘p’ indicates a pre-edited status, i.e. a thymidine on DNA level. Editing nearly always restores universally conserved amino acids except for a cysteine (C) in Zingiber corresponding to ndhDeU59SL, a methionine (M) in Arabidopsis in position ndhDeU239PL and phenylalanines (F) in Arabidopsis in position ndhDeU313RW and in Amborella in position ndhDeU1193SL. Editing (ed in bold) has been investigated in this study except for Ceratophyllum and Zingiber (predictions only) and for Arabidopsis and Cucumis where it was analyzed previously. Editing events eU674SL and eU887PL labelled with asterisks may cause alternative codon changes (PL, SL, SF) in some taxa