Quantitative sequence characterization for repetitive DNA content in the supernumerary chromosome of the migratory locust
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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.
KeywordsB chromosome Illumina Locusta migratoria Satellite DNA Transposable elements
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.
Integrity of research
All experiments comply with the current Spanish laws.
Compliance with ethical standards
Conflict of interest
The authors declare that they have no conflict of interest.
Human and animal rights and informed consent
All applicable international, national, and/or institutional guidelines for the care and use of animals were followed
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