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Distinct patterns of the histone marks associated with recruitment of the methionine chain-elongation pathway from leucine biosynthesis.

Xue M, Long J, Jiang Q, Wang M, Chen S, Pang Q, He Y - J. Exp. Bot. (2014)

Bottom Line: In general, genes involved in leucine biosynthesis were robustly associated with H3k4me2 and H3K4me3.This H3K4m3-depleted pattern had no effect on gene transcription, whereas it seemingly co-evolved with the entire pathway of aliphatic GLS biosynthesis.The results reveal a novel association of the epigenetic marks with plant secondary metabolism, and may help to understand the recruitment of the methionine chain-elongation pathway from leucine biosynthesis.

View Article: PubMed Central - PubMed

Affiliation: National Maize Improvement Center of China, Beijing Key Laboratory of Crop Genetic Improvement, China Agricultural University, Beijing 100193, China.

No MeSH data available.


The composite plot shows the distribution of histone marks around the transcription start site (TSS; ±1kb). The red line depicts genes specifically involved in the methionine chain-elongation pathway, including MAM1, MAM3, LeuD1, LeuD2, IPMDH1, and BCAT3. The blue line depicts genes functional in leucine biosynthesis, including IPMS1, IPMS2, LeuC, LeuD3, IPMDH2, IPMDH3, and BCAT3.
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Figure 2: The composite plot shows the distribution of histone marks around the transcription start site (TSS; ±1kb). The red line depicts genes specifically involved in the methionine chain-elongation pathway, including MAM1, MAM3, LeuD1, LeuD2, IPMDH1, and BCAT3. The blue line depicts genes functional in leucine biosynthesis, including IPMS1, IPMS2, LeuC, LeuD3, IPMDH2, IPMDH3, and BCAT3.

Mentions: Post-translational modifications of histone play crucial roles in maintaining normal transcription levels and patterns by directly or indirectly shaping the structural properties of the chromatin. To explore the distinct association with certain types of histone modification at the pathway level, occurrences of six chromatin marks representing the active chromatin state (H3K4me, H3K4me2, and H3K4me3) and the repressed chromatin state (H3K9me2, H3K27me1, and H3K27me3) were examined and the results were compiled into two sets, with the first focusing on methionine chain elongation and the second on leucine biosynthesis. Data on histone modifications were obtained from publically available Arabidopsis data sets (Supplementary Table S1 at JXB online). The intensity of histone marks was counted using a 50bp sliding window around the TSS (± 1kb). As shown in Fig. 2, of the investigated marks, the patterns of two active marks, H3K4me2 and H3K4me3, exhibited striking differences, with a substantial presence in leucine biosynthesis and a low occurrence in the methionine chain-elongation pathway. In contrast, none of the repressed marks showed significant differences between the two pathways.


Distinct patterns of the histone marks associated with recruitment of the methionine chain-elongation pathway from leucine biosynthesis.

Xue M, Long J, Jiang Q, Wang M, Chen S, Pang Q, He Y - J. Exp. Bot. (2014)

The composite plot shows the distribution of histone marks around the transcription start site (TSS; ±1kb). The red line depicts genes specifically involved in the methionine chain-elongation pathway, including MAM1, MAM3, LeuD1, LeuD2, IPMDH1, and BCAT3. The blue line depicts genes functional in leucine biosynthesis, including IPMS1, IPMS2, LeuC, LeuD3, IPMDH2, IPMDH3, and BCAT3.
© Copyright Policy - creative-commons
Related In: Results  -  Collection

License 1 - License 2
Show All Figures
getmorefigures.php?uid=PMC4321544&req=5

Figure 2: The composite plot shows the distribution of histone marks around the transcription start site (TSS; ±1kb). The red line depicts genes specifically involved in the methionine chain-elongation pathway, including MAM1, MAM3, LeuD1, LeuD2, IPMDH1, and BCAT3. The blue line depicts genes functional in leucine biosynthesis, including IPMS1, IPMS2, LeuC, LeuD3, IPMDH2, IPMDH3, and BCAT3.
Mentions: Post-translational modifications of histone play crucial roles in maintaining normal transcription levels and patterns by directly or indirectly shaping the structural properties of the chromatin. To explore the distinct association with certain types of histone modification at the pathway level, occurrences of six chromatin marks representing the active chromatin state (H3K4me, H3K4me2, and H3K4me3) and the repressed chromatin state (H3K9me2, H3K27me1, and H3K27me3) were examined and the results were compiled into two sets, with the first focusing on methionine chain elongation and the second on leucine biosynthesis. Data on histone modifications were obtained from publically available Arabidopsis data sets (Supplementary Table S1 at JXB online). The intensity of histone marks was counted using a 50bp sliding window around the TSS (± 1kb). As shown in Fig. 2, of the investigated marks, the patterns of two active marks, H3K4me2 and H3K4me3, exhibited striking differences, with a substantial presence in leucine biosynthesis and a low occurrence in the methionine chain-elongation pathway. In contrast, none of the repressed marks showed significant differences between the two pathways.

Bottom Line: In general, genes involved in leucine biosynthesis were robustly associated with H3k4me2 and H3K4me3.This H3K4m3-depleted pattern had no effect on gene transcription, whereas it seemingly co-evolved with the entire pathway of aliphatic GLS biosynthesis.The results reveal a novel association of the epigenetic marks with plant secondary metabolism, and may help to understand the recruitment of the methionine chain-elongation pathway from leucine biosynthesis.

View Article: PubMed Central - PubMed

Affiliation: National Maize Improvement Center of China, Beijing Key Laboratory of Crop Genetic Improvement, China Agricultural University, Beijing 100193, China.

No MeSH data available.