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Fig. 4 | BMC Biology

Fig. 4

From: Engineered sex ratio distortion by X-shredding in the global agricultural pest Ceratitis capitata

Fig. 4

Cas9 kmers target X-chromosome-specific repeats. a Distribution of selected kmers in the EgII_Ccap3.2.1 genome assembly. For each of the top six longest scaffolds in the EgII_Ccap3.2.1 genome assembly, contig CQ is shown (rectangles: green for autosomal; red for X-chromosome; blue for Y-chromosome) and the position of the kmer hits from either all redkmer output (grey), the top25 selected kmers (pink) and for the four experimentally verified sgRNAs (Cas9.1 in green; Cas9.2 in purple; Cas12a.1 in red; Cas12a.2 in blue). The majority of the redkmer selected sequences map on scaffold 3, with few hits on other autosomal scaffolds. b Organization of the Cas9.1-targeted repeat region. c Organization of the Cas9.2-targeted repeat region. d The medfly genomic repeatome and the distribution of repeats associated with the ~ 85-kb and ~ 270-kb regions targeted by Cas9.1 (in green) and Cas9.2 (in purple), respectively. The de novo genomic repeatome was built with RepeatModeler and was broken down into the following main repeat families: DNA transposons, LINE retrotransposons, LTR retrotransposons, tandem repeats, rolling circle transposons and unknown repeats. Each box represents a single repeat and the size of the box represents its abundance in the genome as determined by RepeatMasker

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