DNA transposon activity is associated with increased mutation rates in genes of rice and other grasses

Thomas Wicker, Yeisoo Yu, Georg Haberer, Klaus F X Mayer, Pradeep Reddy Marri, Steve Rounsley, Mingsheng Chen, Andrea Zuccolo, Olivier Panaud, Rod A Wing, Stefan Roffler

Research output: Contribution to journalArticle

16 Citations (Scopus)

Abstract

DNA (class 2) transposons are mobile genetic elements which move within their host genome through excising and re-inserting elsewhere. Although the rice genome contains tens of thousands of such elements, their actual role in evolution is still unclear. Analysing over 650 transposon polymorphisms in the rice species Oryza sativa and Oryza glaberrima, we find that DNA repair following transposon excisions is associated with an increased number of mutations in the sequences neighbouring the transposon. Indeed, the 3,000 bp flanking the excised transposons can contain over 10 times more mutations than the genome-wide average. Since DNA transposons preferably insert near genes, this is correlated with increases in mutation rates in coding sequences and regulatory regions. Most importantly, we find this phenomenon also in maize, wheat and barley. Thus, these findings suggest that DNA transposon activity is a major evolutionary force in grasses which provide the basis of most food consumed by humankind.

Original languageEnglish (US)
Article number12790
JournalNature Communications
Volume7
DOIs
StatePublished - Sep 7 2016

Fingerprint

grasses
DNA Transposable Elements
rice
Mutation Rate
mutations
Poaceae
genes
genome
deoxyribonucleic acid
Genes
Genome
barley
Interspersed Repetitive Sequences
Mutation
wheat
Nucleic Acid Regulatory Sequences
DNA
polymorphism
Hordeum
inserts

ASJC Scopus subject areas

  • Chemistry(all)
  • Biochemistry, Genetics and Molecular Biology(all)
  • Physics and Astronomy(all)

Cite this

DNA transposon activity is associated with increased mutation rates in genes of rice and other grasses. / Wicker, Thomas; Yu, Yeisoo; Haberer, Georg; Mayer, Klaus F X; Marri, Pradeep Reddy; Rounsley, Steve; Chen, Mingsheng; Zuccolo, Andrea; Panaud, Olivier; Wing, Rod A; Roffler, Stefan.

In: Nature Communications, Vol. 7, 12790, 07.09.2016.

Research output: Contribution to journalArticle

Wicker, T, Yu, Y, Haberer, G, Mayer, KFX, Marri, PR, Rounsley, S, Chen, M, Zuccolo, A, Panaud, O, Wing, RA & Roffler, S 2016, 'DNA transposon activity is associated with increased mutation rates in genes of rice and other grasses', Nature Communications, vol. 7, 12790. https://doi.org/10.1038/ncomms12790
Wicker, Thomas ; Yu, Yeisoo ; Haberer, Georg ; Mayer, Klaus F X ; Marri, Pradeep Reddy ; Rounsley, Steve ; Chen, Mingsheng ; Zuccolo, Andrea ; Panaud, Olivier ; Wing, Rod A ; Roffler, Stefan. / DNA transposon activity is associated with increased mutation rates in genes of rice and other grasses. In: Nature Communications. 2016 ; Vol. 7.
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abstract = "DNA (class 2) transposons are mobile genetic elements which move within their host genome through excising and re-inserting elsewhere. Although the rice genome contains tens of thousands of such elements, their actual role in evolution is still unclear. Analysing over 650 transposon polymorphisms in the rice species Oryza sativa and Oryza glaberrima, we find that DNA repair following transposon excisions is associated with an increased number of mutations in the sequences neighbouring the transposon. Indeed, the 3,000 bp flanking the excised transposons can contain over 10 times more mutations than the genome-wide average. Since DNA transposons preferably insert near genes, this is correlated with increases in mutation rates in coding sequences and regulatory regions. Most importantly, we find this phenomenon also in maize, wheat and barley. Thus, these findings suggest that DNA transposon activity is a major evolutionary force in grasses which provide the basis of most food consumed by humankind.",
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AU - Rounsley, Steve

AU - Chen, Mingsheng

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