Transposable elements generate population-specific insertional patterns and allelic variation in genes of wild emmer wheat (Triticum turgidum ssp. dicoccoides)

BMC Plant Biology
Katherine DombKhalil Kashkush

Abstract

Natural populations of the tetraploid wild emmer wheat (genome AABB) were previously shown to demonstrate eco-geographically structured genetic and epigenetic diversity. Transposable elements (TEs) might make up a significant part of the genetic and epigenetic variation between individuals and populations because they comprise over 80% of the wild emmer wheat genome. In this study, we performed detailed analyses to assess the dynamics of transposable elements in 50 accessions of wild emmer wheat collected from 5 geographically isolated sites. The analyses included: the copy number variation of TEs among accessions in the five populations, population-unique insertional patterns, and the impact of population-unique/specific TE insertions on structure and expression of genes. We assessed the copy numbers of 12 TE families using real-time quantitative PCR, and found significant copy number variation (CNV) in the 50 wild emmer wheat accessions, in a population-specific manner. In some cases, the CNV difference reached up to 6-fold. However, the CNV was TE-specific, namely some TE families showed higher copy numbers in one or more populations, and other TE families showed lower copy numbers in the same population(s). Furthermore, we ...Continue Reading

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Citations

Feb 3, 2019·The Plant Journal : for Cell and Molecular Biology·Valentina KlymiukTzion Fahima
Sep 10, 2020·Frontiers in Plant Science·Danielle Keidar-FriedmanKhalil Kashkush
Mar 12, 2021·Plant Science : an International Journal of Experimental Plant Biology·Juan B AlvarezCarlos Guzmán

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Datasets Mentioned

BETA
FJ640556.1

Methods Mentioned

BETA
PCR
X-ray
Fluorescence-Activated Cell Sorting
FACS

Software Mentioned

7500
EmsemblPlants
Primer3
Primer Express
EnsemblPlants
Ensembl
MAK
STATISTICA
BLAST +
Primer6

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