Genome organization of major tandem repeats and their specificity for heterochromatin of macro- and microchromosomes in Japanese quail - INRAE - Institut national de recherche pour l’agriculture, l’alimentation et l’environnement Accéder directement au contenu
Article Dans Une Revue Genome Année : 2022

Genome organization of major tandem repeats and their specificity for heterochromatin of macro- and microchromosomes in Japanese quail

Résumé

Tandemly repeated DNAs form heterochromatic regions of chromosomes, including the vital centromeric chromatin. Despite the progress in new genomic technologies, tandem repeats remain poorly deciphered and need targeted analysis in the species of interest. The Japanese quail is one of the highest-producing poultry species as well as a model organism. Its genome differs by a noticeable accumulation of heterochromatin, which led to an increase by 1/7 compared to the chicken genome size. Prominent heterochromatin blocks occupy the short arms of acrocentric macrochromosomes and of microchromosomes. We have applied de novo repeat finder approach to unassembled raw reads of the Japanese quail genome. We identified the 20 most common tandem repeats with the abundance >1 Mb, which represent about 4.8% of the genome. We found that tandem repeat CjapSAT primarily contributes to the centromeric regions of the macrochromosomes CJA1–8. Cjap31B together with previously characterized BglII makes up centromere regions of microchromosomes and W chromosome. Other repeats populate heterochromatin of microchromosomal short arms in unequal proportions, as revealed by fluorescence in situ hybridization. The Cjap84A, Cjap408A, and CjapSAT repeat sequences show similarities to retrotransposon motifs. This suggests that retroelements may have played a crucial role in the distribution of repeats throughout the Japanese quail genome.
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hal-03770775 , version 1 (06-09-2022)

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Maria Kulak, Aleksey Komissarov, Valerie Fillon, Kseniya Tsukanova, Alsu Saifitdinova, et al.. Genome organization of major tandem repeats and their specificity for heterochromatin of macro- and microchromosomes in Japanese quail. Genome, 2022, 65 (7), pp.391-403. ⟨10.1139/gen-2022-0012⟩. ⟨hal-03770775⟩
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