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. 2019 Jan 31;31(2):537–554. doi: 10.1105/tpc.18.00689

Figure 2.

Figure 2.

SME1 Promotes the Accumulation of U1, U2, U3, and U5 snRNAs and Controls Constitutive and Alternative Splicing in Arabidopsis.

(A) Accumulation of SME2 transcripts in 2-week-old wild-type (WT), sme1-1, and sme1-2 plants grown under control (20°C) or cold conditions (6 h, 4°C).

(B) Levels of U1, U2, U4, and U5 snRNAs in 2-week-old wild-type, sme1-1, and sme1-2 plants grown under control conditions.

(C) Quantification of altered splicing events (IR, ES, A5′SS, A3′SS) identified in sme1-1 with respect to wild-type plants grown under control conditions. Black bars represent exons, and gray bars represent intron regions retained in some events. The number of different genes affected in each case is also shown.

(D) Percentage of constitutively (CS) and alternatively (AS) spliced introns with increased retention in sme1-1 plants relative to the total number of the corresponding introns identified in wild-type plants.

(E) Validation of different IR events identified in sme1-1 mutants. In each case, the name of the gene containing the corresponding constitutively or alternatively spliced intron is indicated.

(F) Validation of constitutively and alternatively spliced introns not affected in sme1-1 mutants. The names of the genes containing the corresponding introns are indicated.

In (A) and (B), transcript levels, determined by qPCR, are represented as relative to wild-type values. In (E) and (F), a diagram of the pre-mRNA regions, including the considered introns (gray lines) with their relative positions in the representative gene model and the flanking exons (black bars), together with the captures of the corresponding read coverage tracks obtained from the IGV software, is shown in the left. The quantification of considered introns in wild-type, sme1-1, and sme1-2 plants by qPCR assays is displayed in the right. In (A), (B), (E), and (F), data represent the mean of three independent experiments. Asterisks indicate significant differences (*P < 0.01, **P < 0.001, ***P < 0.0001) between sme1 mutants and wild-type plants, as determined by one-way ANOVA (Dunnett’s post-hoc test). Error bars indicate the SD.