Limits...
Enrichment of H3K9me2 on Unsynapsed Chromatin in Caenorhabditis elegans Does Not Target de Novo Sites.

Guo Y, Yang B, Li Y, Xu X, Maine EM - G3 (Bethesda) (2015)

Bottom Line: Loss of the SET domain protein, MET-2, greatly reduces H3K9me2 abundance and results in germline mortality.These results suggest that MET-2 activity is elevated in him-8 mutants generally as well as targeted preferentially to the unsynapsed X.We hypothesize H3K9me2 may have a structural function critical for germline immortality, and a greater abundance of these marks may be required when a chromosome does not synapse.

View Article: PubMed Central - PubMed

Affiliation: Department of Biology, Syracuse University, Syracuse, New York 13244.

No MeSH data available.


Related in: MedlinePlus

Meta-gene analysis of the adult hermaphrodite histone H3 lysine 9 dimethylation (H3K9me2) profile across gonad-expressed genes and predicted Argonaute targets. Gene expression data are from our RNA-seq analysis of him-8 gonads. The meta-gene includes 1 kb of sequence upstream of the transcription start site (0), a 3 kb averaged coding region, and 1 kb downstream of the transcription termination site (3000). (A) The average H3K9me2 enrichment signals of the top 10%, middle 10%, and bottom 10% of expressed genes in the him-8 adult hermaphrodite gonad. (B) The average H3K9me2 enrichment of predicted CSR-1, WAGO-1, and ALG-3/4 target genes (Claycomb et al. 2009; Conine et al. 2010; Gu et al. 2009). The 96 most highly represented WAGO-1 targets, used in this analysis, are substantially enriched for H3K9me2 across the entire meta-gene.
© Copyright Policy - open-access
Related In: Results  -  Collection

License
getmorefigures.php?uid=PMC4555223&req=5

fig8: Meta-gene analysis of the adult hermaphrodite histone H3 lysine 9 dimethylation (H3K9me2) profile across gonad-expressed genes and predicted Argonaute targets. Gene expression data are from our RNA-seq analysis of him-8 gonads. The meta-gene includes 1 kb of sequence upstream of the transcription start site (0), a 3 kb averaged coding region, and 1 kb downstream of the transcription termination site (3000). (A) The average H3K9me2 enrichment signals of the top 10%, middle 10%, and bottom 10% of expressed genes in the him-8 adult hermaphrodite gonad. (B) The average H3K9me2 enrichment of predicted CSR-1, WAGO-1, and ALG-3/4 target genes (Claycomb et al. 2009; Conine et al. 2010; Gu et al. 2009). The 96 most highly represented WAGO-1 targets, used in this analysis, are substantially enriched for H3K9me2 across the entire meta-gene.

Mentions: We performed meta-gene analysis (Shin et al. 2009) to evaluate the distribution of H3K9me2 marks with respect to transcript level in him-8 gonads. H3K9me2 levels were relatively low within a 2-kb window flanking transcription start and stop sites and higher in introns (Figure 8A) as observed previously for whole embryos and L3 larvae (Figure 8A) (Gerstein et al. 2010; Liu et al. 2011). In addition, H3K9me2 levels were lowest at genes with a relatively high transcript level (Figure 8A) and were present at a similar level on genes expressed at a moderate or low level. This pattern is consistent with other studies reporting that H3K9me2 marks do not strictly correlate with transcriptional inactivity and are often present within the body of genes located within heterochromatic regions (Yasuhara and Wakimoto 2008; Ho et al. 2014; West et al. 2014).


Enrichment of H3K9me2 on Unsynapsed Chromatin in Caenorhabditis elegans Does Not Target de Novo Sites.

Guo Y, Yang B, Li Y, Xu X, Maine EM - G3 (Bethesda) (2015)

Meta-gene analysis of the adult hermaphrodite histone H3 lysine 9 dimethylation (H3K9me2) profile across gonad-expressed genes and predicted Argonaute targets. Gene expression data are from our RNA-seq analysis of him-8 gonads. The meta-gene includes 1 kb of sequence upstream of the transcription start site (0), a 3 kb averaged coding region, and 1 kb downstream of the transcription termination site (3000). (A) The average H3K9me2 enrichment signals of the top 10%, middle 10%, and bottom 10% of expressed genes in the him-8 adult hermaphrodite gonad. (B) The average H3K9me2 enrichment of predicted CSR-1, WAGO-1, and ALG-3/4 target genes (Claycomb et al. 2009; Conine et al. 2010; Gu et al. 2009). The 96 most highly represented WAGO-1 targets, used in this analysis, are substantially enriched for H3K9me2 across the entire meta-gene.
© Copyright Policy - open-access
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4555223&req=5

fig8: Meta-gene analysis of the adult hermaphrodite histone H3 lysine 9 dimethylation (H3K9me2) profile across gonad-expressed genes and predicted Argonaute targets. Gene expression data are from our RNA-seq analysis of him-8 gonads. The meta-gene includes 1 kb of sequence upstream of the transcription start site (0), a 3 kb averaged coding region, and 1 kb downstream of the transcription termination site (3000). (A) The average H3K9me2 enrichment signals of the top 10%, middle 10%, and bottom 10% of expressed genes in the him-8 adult hermaphrodite gonad. (B) The average H3K9me2 enrichment of predicted CSR-1, WAGO-1, and ALG-3/4 target genes (Claycomb et al. 2009; Conine et al. 2010; Gu et al. 2009). The 96 most highly represented WAGO-1 targets, used in this analysis, are substantially enriched for H3K9me2 across the entire meta-gene.
Mentions: We performed meta-gene analysis (Shin et al. 2009) to evaluate the distribution of H3K9me2 marks with respect to transcript level in him-8 gonads. H3K9me2 levels were relatively low within a 2-kb window flanking transcription start and stop sites and higher in introns (Figure 8A) as observed previously for whole embryos and L3 larvae (Figure 8A) (Gerstein et al. 2010; Liu et al. 2011). In addition, H3K9me2 levels were lowest at genes with a relatively high transcript level (Figure 8A) and were present at a similar level on genes expressed at a moderate or low level. This pattern is consistent with other studies reporting that H3K9me2 marks do not strictly correlate with transcriptional inactivity and are often present within the body of genes located within heterochromatic regions (Yasuhara and Wakimoto 2008; Ho et al. 2014; West et al. 2014).

Bottom Line: Loss of the SET domain protein, MET-2, greatly reduces H3K9me2 abundance and results in germline mortality.These results suggest that MET-2 activity is elevated in him-8 mutants generally as well as targeted preferentially to the unsynapsed X.We hypothesize H3K9me2 may have a structural function critical for germline immortality, and a greater abundance of these marks may be required when a chromosome does not synapse.

View Article: PubMed Central - PubMed

Affiliation: Department of Biology, Syracuse University, Syracuse, New York 13244.

No MeSH data available.


Related in: MedlinePlus