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Quantitative sequence characterization for repetitive DNA content in the supernumerary chromosome of the migratory locust

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Abstract

Repetitive DNA is a major component in most eukaryotic genomes but is ignored in most genome sequencing projects. Here, we report the quantitative composition in repetitive DNA for a supernumerary (B) chromosome, in the migratory locust (Locusta migratoria), by Illumina sequencing of genomic DNA from B-carrying and B-lacking individuals and DNA obtained from a microdissected B chromosome, as well as the physical mapping of some elements. B chromosome DNA of 94.9% was repetitive, in high contrast with the 64.1% of standard (A) chromosomes. B chromosomes are enriched in satellite DNA (satDNA) (65.2% of B-DNA), with a single satellite (LmiSat02-176) comprising 55% of the B. Six satDNAs were visualized by FISH on the B chromosome, and the only A chromosome carrying all these satellites was autosome 9, pointing to this chromosome, along with autosome 8 (which shares histone genes with the B) as putative ancestors of the B chromosome. We found several transposable elements (TEs) showing nucleotidic variation specific to B-carrying individuals, which was also present in B-carrying transcriptomes. Remarkably, an interstitial region of the B chromosome included a 17 kb chimera composed of 29 different TEs, suggesting reiterative TE insertion in this B chromosome region.

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Acknowledgements

We thank Francisco Jiménez-Cazalla and Jorge Doña for their collaboration in obtaining the material from Los Barrios (Cádiz). This study was supported by grants from the Spanish Plan Andaluz de Investigacion (CVI-6649) and Secretaría de Estado de Investigación, Desarrollo e Innovación (CGL2015-70750-P), and was partially performed by FEDER funds. FJ Ruiz-Ruano was supported by a Junta de Andalucía fellowship.

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  1. Departamento de Genética, Facultad de Ciencias, Universidad de Granada, Avda. Fuentenueva s/n, 18071, Granada, Spain

    Francisco J. Ruiz-Ruano, Josefa Cabrero, María Dolores López-León & Juan Pedro M. Camacho

  2. Departamento de Biología Experimental, Universidad de Jaén, Jaén, Spain

    Antonio Sánchez

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  1. Francisco J. Ruiz-Ruano
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  2. Josefa Cabrero
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  3. María Dolores López-León
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  5. Juan Pedro M. Camacho
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Correspondence to Francisco J. Ruiz-Ruano.

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Ruiz-Ruano, F.J., Cabrero, J., López-León, M.D. et al. Quantitative sequence characterization for repetitive DNA content in the supernumerary chromosome of the migratory locust. Chromosoma 127, 45–57 (2018). https://doi.org/10.1007/s00412-017-0644-7

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