Saved in:
| Main Authors: | , , |
|---|---|
| Format: | Preprint |
| Published: |
2025
|
| Subjects: | |
| Online Access: | https://arxiv.org/abs/2511.01834 |
| Tags: |
Add Tag
No Tags, Be the first to tag this record!
|
| _version_ | 1866914132931903488 |
|---|---|
| author | Harputluoglu, Eylul Gokce Grossniklaus, Ueli Tanwar, Deepak Kumar |
| author_facet | Harputluoglu, Eylul Gokce Grossniklaus, Ueli Tanwar, Deepak Kumar |
| contents | DNA methylation can be associated with phenotypic plasticity, yet how temperature shapes DNA methylation diversity in natural populations is unclear. Analyzing whole-genome bisulfite sequencing from 1075 Arabidopsis thaliana accessions grown at 10°C, 16°C, and 22°C, we quantified single-cytosine diversity using Jensen-Shannon Divergence (JSD). Diversity consistently peaked at intermediate methylation levels across the CpG, CHG, and CHH sequence contexts. Temperature modulated this diversity, primarily impacting intermediately methylated sites, with non-CG contexts (CHG and CHH) exhibiting increased diversity at warmer temperatures. Notably, at 22°C, CHH diversity patterns indicated altered balance between the RdDM and CMT2 pathways that regulate specific transposable element (TE) superfamilies. Furthermore, accessions from Southern Europe displayed higher non-CG diversity at 22°C compared to Northern European accessions. Our findings reveal that temperature influences the epigenomic diversity landscape, highlighting context-dependent plasticity, a dynamic interplay between silencing pathways, and potential geographic adaptation in response to environmental cues. |
| format | Preprint |
| id |
arxiv_https___arxiv_org_abs_2511_01834 |
| institution | arXiv |
| publishDate | 2025 |
| record_format | arxiv |
| spellingShingle | Temperature reshapes epigenomic diversity in Arabidopsis thaliana -- JSD and Methylator reveal RdDM-CMT2 plasticity Harputluoglu, Eylul Gokce Grossniklaus, Ueli Tanwar, Deepak Kumar Genomics DNA methylation can be associated with phenotypic plasticity, yet how temperature shapes DNA methylation diversity in natural populations is unclear. Analyzing whole-genome bisulfite sequencing from 1075 Arabidopsis thaliana accessions grown at 10°C, 16°C, and 22°C, we quantified single-cytosine diversity using Jensen-Shannon Divergence (JSD). Diversity consistently peaked at intermediate methylation levels across the CpG, CHG, and CHH sequence contexts. Temperature modulated this diversity, primarily impacting intermediately methylated sites, with non-CG contexts (CHG and CHH) exhibiting increased diversity at warmer temperatures. Notably, at 22°C, CHH diversity patterns indicated altered balance between the RdDM and CMT2 pathways that regulate specific transposable element (TE) superfamilies. Furthermore, accessions from Southern Europe displayed higher non-CG diversity at 22°C compared to Northern European accessions. Our findings reveal that temperature influences the epigenomic diversity landscape, highlighting context-dependent plasticity, a dynamic interplay between silencing pathways, and potential geographic adaptation in response to environmental cues. |
| title | Temperature reshapes epigenomic diversity in Arabidopsis thaliana -- JSD and Methylator reveal RdDM-CMT2 plasticity |
| topic | Genomics |
| url | https://arxiv.org/abs/2511.01834 |