Heat-induced transposition increases drought tolerance in <i>Arabidopsis</i>

Thieme, Michael; Brêchet, Arthur; Bourgeois, Yann; Keller, Bettina; Bucher, Etienne; Roulin, Anne

doi:10.1101/2021.11.25.469987

Cited by 3 publications

(1 citation statement)

References 71 publications

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“…Transposable elements are a significant source of mutation in plants, with transposon insertion mutations often having large functional effects (Baduel et al ., 2021; Thieme et al ., 2021; Cai et al ., 2022; Catlin & Josephs, 2022; Hannan Parker et al ., 2022). Transposon insertion sites are correlated to chromatin states.…”

Section: How Chromatin Can Affect Mutation Ratementioning

confidence: 99%

Potential and limits of (mal)adaptive mutation rate plasticity in plants

Monroe

2022

New Phytologist

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Summary Genetic mutations provide the heritable material for plant adaptation to their environments. At the same time, the environment can affect the mutation rate across plant genomes. However, the extent to which environmental plasticity in mutation rates can facilitate or hinder adaptation remains a longstanding and unresolved question. Emerging discoveries of mechanisms affecting mutation rate variability provide opportunities to consider this question in a new light. Links between chromatin states, transposable elements, and DNA repair suggest cases of adaptive mutation rate plasticity could occur. Yet, numerous evolutionary and biological forces are expected to limit the impact of any such mutation rate plasticity on adaptive evolution. Persistent uncertainty about the significance of mutation rate plasticity on adaptation motivates new experimental and theoretical research relevant to understanding plant responses in changing environments.

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Section: How Chromatin Can Affect Mutation Ratementioning

confidence: 99%

Potential and limits of (mal)adaptive mutation rate plasticity in plants

Monroe

2022

New Phytologist

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Natural diversity of heat-induced transcription of retrotransposons inArabidopsis thaliana

Xu,

Thieme,

Roulin

2024

Preprint

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Transposable elements (TEs) are major components of plant genomes, profoundly impacting the fitness of their hosts. However, technical bottlenecks have long hindered our mechanistic understanding of TEs. Using RNA-Seq and long-read sequencing with Oxford Nanopore Technologies direct cDNA sequencing, we analyzed the heat-induced transcription of TEs in three natural accessions of Arabidopsis thaliana (Cvi-0, Col-0, and Ler-1). In addition to the well-studied ONSEN retrotransposon family, we identified Copia-35 as a second heat-responsive retrotransposon family with particularly high activity in the relict accession Cvi-0. Our analysis revealed distinct expression patterns of individual TE copies and suggest different mechanisms regulating the GAG protein production in the ONSEN versus Copia-35 families. In addition, analogously to ONSEN, Copia-35 activation led to the upregulation of flanking genes such as AMUP9 and potentially to the quantitative modulation of flowering time. Unexpectedly, our results indicate that for both families, the upregulation of flanking genes is not directly initiated by transcription from their 3 LTRs. These findings highlight the inter- and intraspecific expressional diversity linked to retrotransposon activation under stress, providing insights into their potential roles in plant adaptation and evolution at elevated temperatures.

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Causes of Mutation Rate Variability in Plant Genomes

Quiroz

Lensink

Kliebenstein

et al. 2023

Annu. Rev. Plant Biol.

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Mutation is the source of all heritable diversity, the essential material of evolution and breeding. While mutation rates are often regarded as constant, variability in mutation rates has been observed at nearly every level—varying across mutation types, genome locations, gene functions, epigenomic contexts, environmental conditions, genotypes, and species. This mutation rate variation arises from differential rates of DNA damage, repair, and transposable element activation and insertion that together produce what is measured by DNA mutation rates. We review historical and recent investigations into the causes and consequences of mutation rate variability in plants by focusing on the mechanisms shaping this variation. Emerging mechanistic models point to the evolvability of mutation rate variation across genomes via mechanisms that target DNA repair, shaping the diversification of plants at phenotypic and genomic scales. Expected final online publication date for the Annual Review of Plant Biology, Volume 74 is May 2023. Please see http://www.annualreviews.org/page/journal/pubdates for revised estimates.

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Heat-induced transposition increases drought tolerance in Arabidopsis

Cited by 3 publications

References 71 publications

Potential and limits of (mal)adaptive mutation rate plasticity in plants

Potential and limits of (mal)adaptive mutation rate plasticity in plants

Natural diversity of heat-induced transcription of retrotransposons inArabidopsis thaliana

Causes of Mutation Rate Variability in Plant Genomes

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