Profiling Transposable Elements and Their Epigenetic Effects in Non-model Species

Parisod, Christian Gérard (2016). Profiling Transposable Elements and Their Epigenetic Effects in Non-model Species. In: Kovalchuk, Igor (ed.) Plant Epigenetics. Methods in Molecular Biology: Vol. 1456 (pp. 243-250). Boston, MA: Springer US 10.1007/978-1-4899-7708-3_19

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Taking transposable elements into consideration in surveys of genetic and epigenetic variation remains challenging in species lacking a high-quality reference genome. Here, molecular techniques reducing genome complexity and specifically targeting restructuring and methylation changes in TE genome fractions are described. In particular, methyl-sensitive transposon display (MSTD) uses isoschizomers and PCR amplifications to assess the methylation environment of TE insertions. MSTD offers reliable insights into genome-wide epigenetic changes associated with TEs, especially when used together with similar techniques tracking random sequences.

Item Type:

Book Section (Book Chapter)

Division/Institute:

08 Faculty of Science > Department of Biology > Institute of Plant Sciences (IPS)

UniBE Contributor:

Parisod, Christian Gérard

Subjects:

500 Science > 580 Plants (Botany)

ISBN:

978-1-4899-7706-9

Series:

Methods in Molecular Biology

Publisher:

Springer US

Language:

English

Submitter:

Peter Alfred von Ballmoos-Haas

Date Deposited:

30 Jan 2018 08:08

Last Modified:

30 Jan 2018 08:08

Publisher DOI:

10.1007/978-1-4899-7708-3_19

PubMed ID:

27770371

Uncontrolled Keywords:

Transposons; Transposable elements; Epigenetic effects; Plants; Methyl-sensitive transposon display

BORIS DOI:

10.7892/boris.106382

URI:

https://boris.unibe.ch/id/eprint/106382

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