The highly repeat-diverse (Peri) centromeres of white lupin (Lupinus albus L.)

Marques André, Hufnagel Maciel Bárbara, Soriano Alexandre, Péret Benjamin. 2022. The highly repeat-diverse (Peri) centromeres of white lupin (Lupinus albus L.). Frontiers in Plant Science, 13:862079, 10 p.

Résumé : Plant genomes are known to be mainly composed of repetitive DNA sequences. Regardless of the non-genic function of these sequences, they are important for chromosome structure and stability during cell-cycle. Based on the recent available whole-genome assembly of white lupin (Lupinus albus L.; WL), we have in silico annotated and in situ mapped the main classes of DNA repeats identified with RepeatExplorer. A highly diverse and an abundance of satellite DNAs were found representing more than 10 families, where three of them were highly associated with CENH3-immunoprecipitated chromatin. Applying a strategy of several re-hybridization steps with different combinations of satDNA, rDNA, and LTR-RTs probes, we were able to construct a repeat-based chromosome map for the identification of most chromosome pairs. Two families of LTR retrotransposons, Ty1/copia SIRE and Ty3/gypsy Tekay, were highly abundant at pericentromeric regions, while the centromeric retrotransposon of WL (CRWL) from the CRM clade showed strong centromere-specific localization in most chromosomes and was also highly enriched with CENH3-immunoprecipitated chromatin. FISH mapping of repeat DNA showed some incongruences with the reference genome, which can be further used for improving the current version of the genome. Our results demonstrate that despite the relatively small genome of WL, a high diversity of pericentromeric repeats was found, emphasizing the rapid evolution of repeat sequences in plant genomes.

Mots-clés Agrovoc : génome, Lupinus albus, carte génétique, chromosome, génomique, adn

Mots-clés libres : Heterochromatin, Repetitive DNA, Centromere, CENH3, Satellite DNA, Cytogenomics

Agences de financement européennes : European Research Council, European Commission

Programme de financement européen : H2020

Projets sur financement : (EU) Unravelling cluster root development in white lupin

Auteurs et affiliations

• Marques André, Max Planck Institute for Plant Breeding Research (DEU) - auteur correspondant
• Hufnagel Maciel Bárbara, CIRAD-BIOS-UMR AGAP (GLP) ORCID: 0000-0002-3515-2122
• Soriano Alexandre, CIRAD-BIOS-UMR AGAP (FRA) ORCID: 0000-0003-1406-4606
• Péret Benjamin, CNRS (FRA) - auteur correspondant

Source : Cirad-Agritrop (https://agritrop.cirad.fr/609592/)

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