PP7L is essential for MAIL1‐mediated transposable element silencing and primary root growth

Luxán-Hernández, Cloe de; Lohmann, Julia; Hellmeyer, Wiebke; Seanpong, Senoch; Wöltje, Kerstin; Magyar, Zoltán; Pettkó‐Szandtner, Aladár; Pélissier, Thierry; Jaeger, Geert De; Hoth, Stefan; Mathieu, Olivier; Weingartner, Magdalena

doi:10.1111/tpj.14655

Cited by 12 publications

(18 citation statements)

References 56 publications

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“…Later, it was shown that MAIN and MAIL1 were required for the proper expression of a common subset of genes, as well as TE silencing [ 104 ] ( Figure 1 D). MAIN and MAIL1 physically interact together, as well as with a putative serine/threonine phosphoprotein phosphatase (PPP) called PP7-LIKE (PP7L), and the three mutants show similar developmental and molecular phenotypes, including TE silencing defects [ 107 , 108 ]. Genome-wide level of 5mC is mostly unchanged in main and mail1 mutants, with the notable exception of a slight increase in CHG methylation at pericentromeric regions and in chromosome arm TEs [ 108 ].…”

Section: A Plethora Of Sophisticated Epigenetic Pathways Dampen Tesmentioning

confidence: 99%

The Evolutionary Volte-Face of Transposable Elements: From Harmful Jumping Genes to Major Drivers of Genetic Innovation

Nicolau

Picault

Moissiard

2021

Cells

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Transposable elements (TEs) are self-replicating DNA elements that constitute major fractions of eukaryote genomes. Their ability to transpose can modify the genome structure with potentially deleterious effects. To repress TE activity, host cells have developed numerous strategies, including epigenetic pathways, such as DNA methylation or histone modifications. Although TE neo-insertions are mostly deleterious or neutral, they can become advantageous for the host under specific circumstances. The phenomenon leading to the appropriation of TE-derived sequences by the host is known as TE exaptation or co-option. TE exaptation can be of different natures, through the production of coding or non-coding DNA sequences with ultimately an adaptive benefit for the host. In this review, we first give new insights into the silencing pathways controlling TE activity. We then discuss a model to explain how, under specific environmental conditions, TEs are unleashed, leading to a TE burst and neo-insertions, with potential benefits for the host. Finally, we review our current knowledge of coding and non-coding TE exaptation by providing several examples in various organisms and describing a method to identify TE co-option events.

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Section: A Plethora Of Sophisticated Epigenetic Pathways Dampen Tesmentioning

confidence: 99%

The Evolutionary Volte-Face of Transposable Elements: From Harmful Jumping Genes to Major Drivers of Genetic Innovation

Nicolau

Picault

Moissiard

2021

Cells

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“…Six paralogs encoding a serine/threonineprotein phosphatase 7 long form-like protein were found in common between germination and longevity and seven of them common to the three traits. This gene (aka MAINTENANCE OF MERISTEMS LIKE-3, MAIL3) participates in transposable element silencing [58]. Additional genes associated with DNA repair (Solyc01g105520.3.1, Solyc01g105530.3.1, Solyc01g109460.3.1) were found among genes correlating with the three traits.…”

Section: Identi Cation Of a Conserved Regulatory Gene Module Associatmentioning

confidence: 99%

Gene co-expression analysis of tomato seed maturation reveals tissue-specific regulatory networks and hubs associated with the acquisition of desiccation tolerance and seed vigour

Bizouerne

Buitink

Ly-Vu

et al. 2021

Preprint

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Background During maturation seeds acquire several physiological traits to enable them to survive drying and disseminate the species. Few studies have addressed the regulatory networks controlling acquisition of these traits at the tissue level particularly in endospermic seeds such as tomato, which matures in a fully hydrated environment and does not undergo maturation drying. Using temporal RNA-seq analyses of the different seed tissues during maturation, gene network and trait-based correlations were used to explore the transcriptome signatures associated with desiccation tolerance, longevity, germination under water stress and dormancy.Results During maturation, 15,173 differentially expressed genes were detected, forming a gene network representing 21 expression modules, with 3 being specific to seed coat and embryo and 5 to the endosperm. A gene-trait significance measure identified a common gene module between endosperm and embryo associated with desiccation tolerance and conserved with non-endospermic seeds. In addition to genes involved in protection such LEA and HSP and ABA response, the module included antioxidant and repair genes. Dormancy was released concomitantly with the increase in longevity throughout fruit ripening until 14 days after the red fruit stage. This was paralleled by an increase in SlDOG1-2 and PROCERA transcripts. The progressive increase in seed vigour was captured by three gene modules, one in common between embryo and endosperm and two tissue-specific. The common module was enriched with genes associated with mRNA processing in chloroplast and mitochondria (including penta- and tetratricopeptide repeat-containing proteins) and post-transcriptional regulation, as well several flowering genes. The embryo-specific module contained homologues of ABI4 and CHOTTO1 as hub genes associated with seed vigour, whereas the endosperm-specific module revealed a diverse set of processes that were related to genome stability, defence against pathogens and ABA/GA response genes. Conclusion The spatio-temporal co-expression atlas of tomato seed maturation will serve as a valuable resource for the in-depth understanding of the dynamics of gene expression associated with the acquisition of seed vigour at the tissue level.

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“…long form-like protein were found in common between germination and longevity and seven of them common to the three traits. This gene (aka MAINTENANCE OF MERISTEMS LIKE-3, MAIL3) participates in transposable element silencing [58]. Additional genes associated with DNA repair (Solyc01g105520.…”

Section: Identi Cation Of Tissue Speci C Modules Correlating With Phymentioning

confidence: 99%

Gene co-expression analysis of tomato seed maturation reveals tissue-specific regulatory networks and hubs associated with the acquisition of desiccation tolerance and seed vigour

Bizouerne

Buitink

Ly-Vu

et al. 2020

Preprint

View full text Add to dashboard Cite

Background During maturation seeds acquire several physiological traits to enable them to survive drying and disseminate the species. Few studies have addressed the regulatory networks controlling acquisition of these traits at the tissue level particularly in endospermic seeds such as tomato, which matures in a fully hydrated environment and does not undergo maturation drying. Using temporal RNA-seq analyses of the different seed tissues during maturation, gene network and trait-based correlations were used to explore the transcriptome signatures associated with desiccation tolerance, longevity, germination under water stress and dormancy. Results During maturation, 15,173 differentially expressed genes were detected, forming a gene network representing 21 expression modules, with 3 being specific to seed coat and embryo and 5 to the endosperm. A gene-trait significance measure identified a common gene module between endosperm and embryo associated with desiccation tolerance and conserved with non-endospermic seeds. In addition to genes involved in protection such LEA and HSP and ABA response, the module included antioxidant and repair genes. Dormancy was released concomitantly with increase in longevity throughout fruit ripening until 14 days after the red fruit stage. This was paralleled by an increase in SlDOG1-2 and PROCERA transcripts. The progressive increase in seed vigour was captured by three gene modules, one in common between embryo and endosperm and two tissue-specific. The common module was enriched with genes associated with mRNA processing in chloroplast and mitochondria (including penta- and tetratricopeptide repeat-containing proteins) and post-transcriptional regulation, as well several flowering genes. The embryo-specific module contained homologues of ABI4 and CHOTTO1 as hub genes associated with seed vigour, whereas the endosperm-specific module revealed a diverse set of processes that were related to genome stability, defence against pathogens and ABA/GA response genes. Conclusion The spatio-temporal co-expression atlas of seed maturation will serve as a valuable resource for the in-depth understanding of the dynamics of gene expression associated with the acquisition of seed vigour at the tissue level.

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PP7L is essential for MAIL1‐mediated transposable element silencing and primary root growth

Cited by 12 publications

References 56 publications

The Evolutionary Volte-Face of Transposable Elements: From Harmful Jumping Genes to Major Drivers of Genetic Innovation

The Evolutionary Volte-Face of Transposable Elements: From Harmful Jumping Genes to Major Drivers of Genetic Innovation

Gene co-expression analysis of tomato seed maturation reveals tissue-specific regulatory networks and hubs associated with the acquisition of desiccation tolerance and seed vigour

Gene co-expression analysis of tomato seed maturation reveals tissue-specific regulatory networks and hubs associated with the acquisition of desiccation tolerance and seed vigour

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