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Series GSE120571 Query DataSets for GSE120571
Status Public on Nov 22, 2018
Title Mobilization of Pack-CACTA transposons in Arabidopsis suggests the mechanism of gene shuffling
Organism Arabidopsis thaliana
Experiment type Genome variation profiling by high throughput sequencing
Summary Pack-TYPE transposons are a unique class of potentially mobile non-autonomous elements that can capture, merge and relocate fragments of chromosomal DNA. It has been postulated that their activity accelerates the evolution of host genes. However, this important presumption is based only on the sequences of currently inactive Pack-TYPE transposons and the acquisition of chromosomal DNA has not been recorded in real time. Analysing the DNA copy number variation in hypomethylated Arabidopsis lines, we have now for the first time witnessed the mobilization of novel Pack-TYPE elements related to the CACTA transposon family, over several plant generations. Remarkably, these elements can insert into genes as closely spaced direct repeats and they frequently undergo incomplete excisions, resulting in the deletion of one of the end sequences. These properties suggest a mechanism of efficient acquisition of genic DNA residing between neighbouring Pack-TYPE transposons and its subsequent mobilization. Our work documents crucial steps in the formation of in vivo novel Pack-TYPE transposons, and thus the possible mechanism of gene shuffling mediated by this type of mobile element.
Overall design Genome wide sequencing of PCR-free DNA libraries from 67 Arabidopsis met1-derived epigenetic recombinant imbred lines (epiRILs) and parental controls
Contributor(s) Catoni M
Citation(s) 30476196, 37640706
Submission date Sep 27, 2018
Last update date Sep 15, 2023
Contact name Marco Catoni
Organization name University of Birmingham
Department School of Biosciences
Street address Edgbaston
City Birmingham
ZIP/Postal code B15 2TT
Country United Kingdom
Platforms (1)
GPL19580 Illumina NextSeq 500 (Arabidopsis thaliana)
Samples (70)
GSM3403455 epi01
GSM3403456 epi02
GSM3403457 epi03
BioProject PRJNA493616
SRA SRP162754

Download family Format
SOFT formatted family file(s) SOFTHelp
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Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE120571_RAW.tar 640.0 Kb (http)(custom) TAR (of TXT)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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