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Cited by 1Plant Molecular Biology ResearchEpigenetics and DNA MethylationPlant tissue culture and regeneration

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Role of the tomato MARS1/ROUGH gene encoding a LYSINE‐SPECIFIC HISTONE DEMETHYLASE 1 in adventitious root and fruit skin formation

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Larriba, Eduardo, Bres, Cécile, Alaguero‐Cordovilla, Aurora, Riyazuddin, Riyazuddin, Wang, Qingyi, Petit, Johann, Mauxion, Jean‐Philippe, Caballero, Lara, Latrasse, David, Bakan, Bénédicte, Brik‐Chaouche, Rim, Esteve‐Bruna, David, Benhamed, Moussa, Rothan, Christophe, Pérez‐Pérez, José Manuel·2026·Journal of Integrative Plant Biology
DOI 10.1111/jipb.70287PMC PMC13629273

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Abstract

In contrast to animals, plants possess a remarkable regenerative capacity and are capable of forming new organs or even entire organisms from a limited number of cells present in adult tissues, in response to injury or environmental changes. In this study, we describe the isolation and characterization of the more adventitious roots1‐1 ( mars1‐1 ) mutant, which exhibits enhanced regenerative potential upon wounding in tomato hypocotyl explants. Additionally, the mars1‐1 fruits exhibited a rough surface because of ectopic subepidermal cell proliferation, resulting in the formation of callus‐like structures on their cuticle. The MARS1/ROUGH gene encodes a conserved lysine‐specific histone demethylase, SlLDL1, which regulates processes such as cell proliferation, stem cell pluripotency, and embryogenesis in metazoans. Two CRISPR/Cas9 null alleles, mars1‐2 and mars1‐3 , were generated, and their pleiotropic phenotypes were characterized. ChIP‐seq analysis revealed elevated levels of methylated lysine 4 in histone 3 within specific regions of the mars1/rough genome. To determine the impact of altered epigenetic marks on gene expression regulation in mars1/rough mutants, we analyzed the transcriptome of tomato hypocotyls during adventitious root formation. Using specific bioinformatic workflows and the resolution of the directional RNA‐seq data, we identified several dozen distinct genomic regions with de novo expression in the mars1/rough mutants. One such region includes a novel B‐type cyclin gene that is upregulated in mars1/rough mutants and may account for adventitious root and fruit skin phenotypes. Our findings indicate that SlLDL1 plays a role in maintaining silencing in specific genomic regions that are essential for tissue‐specific reprogramming.

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Metadata

Authors
Larriba, E., Bres, C., Alaguero‐Cordovilla, A., Riyazuddin, R., Wang, Q., Petit, J., Mauxion, J., Caballero, L., Latrasse, D., Bakan, B., Brik‐Chaouche, R., Esteve‐Bruna, D., Benhamed, M., Rothan, C., & Pérez‐Pérez, J. M.
Affiliations
  • Universitat de Miguel Hernández d'Elx (ES)
  • UMR 1332 Biologie du Fruit et Pathologie INRAE, University of Bordeaux Villenave d'Ornon F33882 France
  • Université de Bordeaux (FR)
  • Centre National de la Recherche Scientifique (FR)
  • Instituto de Bioingeniería Universidad Miguel Hernández Elche 03202 Spain
ORCID
Venue
Journal of Integrative Plant Biology
Publisher
Wiley
Published
2026-05-15
Volume
68
Issue
10
Pages
3644-3669
ISSN
  • 0577-7496 (ISSN-L)
  • 1672-9072
  • 1744-7909
DOI
10.1111/jipb.70287
PMC
PMC13629273
OpenAlex
W4412828616
Cited by
1
References
2
Citations by year
2026: 1
FWCI
3.67
Type
journal article
Language
en
Open access
Licence
Locations
  • Journal of Integrative Plant Biology (publishedVersion, cc-by-nc)
  • bioRxiv (Cold Spring Harbor Laboratory) (acceptedVersion, cc-by)
  • PubMed Central (publishedVersion, cc-by-nc)
  • PubMed (publishedVersion)
  • HAL (submittedVersion)
  • HAL (submittedVersion, cc-by-nc)
Funders
  • European Regional Development Fund (PID2021-126840OB-I00)
  • Generalitat Valenciana (CIAPOS/2023/138)
Topics
  • Life Sciences › Agricultural and Biological Sciences › Plant Science › Plant Molecular Biology Research
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Epigenetics and DNA Methylation
  • Life Sciences › Agricultural and Biological Sciences › Plant Science › Plant tissue culture and regeneration
Keywords
histone H3 lysine 4 methylation, tomato, adventitious rooting, hypocotyl explants, epigenetic silencing, B-type cyclins, de novo gene expression
MeSH terms
Fruit, Lysine, Mutation, Phenotype, Plant Proteins, Genes, Plant, Gene Expression Regulation, Plant, Plant Roots, Solanum lycopersicum, Histone Demethylases

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