Table 1.
Targeting and signal peptide predictions of 67 Arabidopsis pectin lyases using either TargetP V1.1, PredoTar V1.03 and SignalP 4.0.
Figure 1.
Phylogenetic relationships and exon-intron organization of pectin lyase genes in Arabidopsis.
Phylogeny tree was constructed using full-length pectin lyase protein sequences. Numbers associated with branches showed bootstrap support values for maximum likelihood analyses. Five major groups designated from I to V were marked with different color. Insertion positions of 0 phase intron, 1 phase intron and 2 phase intron were shown in red, blue and emerald green, respectively.
Table 2.
Inference of duplication time in paralogous pairs.
Figure 2.
Chromosomal locations of the pectin lyase genes.
67 pectin lyase genes mapped to the five Arabidopsis chromosomes are shown. Paralogous regions in the putative ancestral constituents of the Arabidopsis genome are depicted using the same colors according to Blanc et al. (2000) [41].
Table 3.
Functional divergence estimated in Arabidopsis pectin lyase paralogs.
Table 4.
Predicted numbers and locations of codons under positive selection within different pectin lyase groups.
Table 5.
Evidence for positive selection in pectin lyase coding sequences.
Figure 3.
Expression profiles of the Arabidopsis pectin lyase genes.
(left panel) Dynamic expression profiles of pectin lyase genes for nine different development tissues (germinated seed, seedling, young rosette, developed rosette, bolting, young flower, developed flower, flowers and siliques, and mature siliques). Expression patterns of pectin lyase genes under several abiotic stresses are shown in the right panel.
Figure 4.
GUS staining of the pBI-P transgenic plants.
(A) Strong GUS expression of the AT1G17150 promoter is observed in floral organs including stigma and receptacle. Moreover, this model of expression can continue during silique development period. (B) Wound can induce the activity of the AT1G17150 promoter. (C) Wound signal can be transported over time to other areas via vein (12h after wound).
Table 6.
Real-time reverse transcriptase-polymerase chain reaction (RT-PCR) for Arabidopsis Group I pectin lyase genes under wound stress.
Figure 5.
Pectin lyase genes interaction network.
Fifteen members of pectin lyase genes are mapped to the protein-protein interaction database. This analysis reveals a total of 235 unique genes (Table S2) that showed 288 interactions, and a network is then assembled based on these interactions.