Fig. 3: Intrachromosomal rearrangement in penaeid shrimp genomes. | Communications Biology

Fig. 3: Intrachromosomal rearrangement in penaeid shrimp genomes.

From: Simple sequence repeats drive genome plasticity and promote adaptive evolution in penaeid shrimp

Fig. 3

a Heatmap of the orthologous gene numbers in each pair of chromosomes from the two shrimp genomes. b Intrachromosomal rearrangement between the homologous chromosomes of the two shrimp genomes. c Synteny of Hox genes and neighboring genes on the homologous chromosomes of the two shrimp species. d Relationship between rearrangement sites and SSRs. The rearrangement sites were calculated according to the paired-end read (Illumina 170 bp libraries) mapping results. When the distance between the paired mapping reads was longer than 50 kb, the site considered a candidate rearrangement site. The number of rearrangement sites in a window of 10 kb was calculated and compared between the shrimp used for genome sequencing and other populations of L. vannamei (Mexico, USA, and Thailand). The blue boxes show areas that have high chromosomal rearrangements and low SSR content, but sharp peaks of high SSR content adjacently.

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