Use of Combined MSAP and NGS Techniques to Identify Differentially Methylated Regions in Somaclones: A Case Study of Two Stable Somatic Wheat Mutants

doi:10.1371/journal.pone.0165749

	Use of Combined MSAP and NGS Techniques to Identify Differentially Methylated Regions in Somaclones: A Case Study of Two Stable Somatic Wheat Mutants
	Baranek, Miroslav 1; Cechova, Jana 1; Kovacs, Tamas 2; Eichmeier, Ales 1; Wang, Shunli 3; Raddova, Jana 1; Necas, Tomas 4; Ye, Xingguo 3
刊名	PLOS ONE
	2016
卷号	11 期号:10 页码:-
ISSN号	1932-6203
DOI	10.1371/journal.pone.0165749
通讯作者	Baranek, Miroslav
英文摘要	The appearance of somaclonal variability induced by in vitro cultivation is relatively frequent and can, in some cases, provide a valuable source of new genetic variation for crop improvement. The cause of this phenomenon remains unknown; however, there are a number of reports suggesting that epigenetics, including DNA methylations, are an important factor. In addition to the non-heritable DNA methylation changes caused by transient and reversible stress-responsive gene regulation, recent evidence supports the existence of mitotically and meiotically inherited changes. The induction of phenotypes via stable DNA methylation changes has occasionally great economical value; however, very little is known about the genetic or molecular basis of these phenotypes. We used a novel approach consisting of a standard MSAP analysis followed by deep amplicon sequencing to better understand this phenomenon. Our models included two wheat genotypes, and their somaclones induced using in vitro cultivation with a changed heritable phenotype (shortened stem height and silenced high molecular weight glutenin). Using this novel procedure, we obtained information on the dissimilarity of DNA methylation landscapes between the standard cultivar and its respective somaclones, and we extracted the sequences and genome regions that were differentially methylated between subjects. Transposable elements were identified as the most likely factor for producing changes in somaclone properties. In summary, the novel approach of combining MSAP and NGS is relatively easy and widely applicable, which is a rather unique feature compared with the currently available techniques in the epigenetics field.
学科主题	Multidisciplinary Sciences
语种	英语
出版者	PUBLIC LIBRARY SCIENCE
WOS记录号	WOS:000389537000048
内容类型	期刊论文
源URL	[http://111.203.20.206/handle/2HMLN22E/105302]
专题	作物科学研究所_分子生物学系
作者单位	1.Mendel Univ Brno, Fac Hort, Mendeleum Dept Genet, Lednice, Czech Republic 2.Enviroinvest Co, Pecs, Hungary 3.Chinese Acad Agr Sci, Inst Crop Sci, Beijing, Peoples R China 4.Mendel Univ Brno, Fac Hort, Dept Fruit Growing, Lednice, Czech Republic
推荐引用方式 GB/T 7714	Baranek, Miroslav,Cechova, Jana,Kovacs, Tamas,et al. Use of Combined MSAP and NGS Techniques to Identify Differentially Methylated Regions in Somaclones: A Case Study of Two Stable Somatic Wheat Mutants[J]. PLOS ONE,2016,11(10):-.
APA	Baranek, Miroslav.,Cechova, Jana.,Kovacs, Tamas.,Eichmeier, Ales.,Wang, Shunli.,...&Ye, Xingguo.(2016).Use of Combined MSAP and NGS Techniques to Identify Differentially Methylated Regions in Somaclones: A Case Study of Two Stable Somatic Wheat Mutants.PLOS ONE,11(10),-.
MLA	Baranek, Miroslav,et al."Use of Combined MSAP and NGS Techniques to Identify Differentially Methylated Regions in Somaclones: A Case Study of Two Stable Somatic Wheat Mutants".PLOS ONE 11.10(2016):-.