Whole-Genome Bisulfite Sequencing Reveals a Role for DNA Methylation in Variants from Callus Culture of Pineapple (Ananas comosus L.)
| Autor: | Sun Weisheng, Qing-Song Wu, Hong-Na Zhang, Wenqiu Lin, Sheng-Hui Liu, Li Yunhe, Zhang Xiumei, Xi-ou Xiao |
|---|---|
| Jazyk: | angličtina |
| Rok vydání: | 2019 |
| Předmět: |
0106 biological sciences
0301 basic medicine lcsh:QH426-470 Bisulfite sequencing Biology 01 natural sciences Genome Somaclonal variation pineapple 03 medical and health sciences Genetics Gene Genetics (clinical) DNA methylation callus culture fungi food and beverages Methylation Molecular biology Phenotype somaclonal variation lcsh:Genetics 030104 developmental biology Callus bisulfite sequencing 010606 plant biology & botany |
| Zdroj: | Genes Volume 10 Issue 11 Genes, Vol 10, Iss 11, p 877 (2019) |
| ISSN: | 2073-4425 |
| DOI: | 10.3390/genes10110877 |
| Popis: | DNA methylation changes can occur in some loci during callus culture, resulting in somaclonal variations (SVs). In the present study, we applied whole genome bisulfite sequencing to analyze context-specific DNA methylation changes in the pineapple genome between the cutting seedings and 5 SV plants. In general, SV plants exhibited methylation patterns analogous to those of cutting seedlings (CK). A total of 27.98% of the genomic cytosines of CK were methylcytosines, which was higher than that of 5 SV plants. Moreover, mCG and mCHG was hypermethylated, whereas mCHH was hypomethylated among the 5 SV plants genomic when compared with the CK. Most of the variation of DNA methylation was distributed in gene bodies, thus suggesting that phenotypic differences are probably perturbed by genes methylated from callus culture. In addition, the methylated genes were highly enriched for the Gene Ontology (GO) categories of binding and catalytic activity, cell part and organelle, cellular process, abiotic stimulus, and DNA modification. These results suggest that methylation mediates these pathways in the callus culture of pineapple. The results also suggested that the callus culture induced DNA methylation may result in the SV. |
| Databáze: | OpenAIRE |
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