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Cooperation is Fleeting in the World of Transposable Elements

Figure 2

No Significant Enrichment of Composite Transposons in 376 Completely Sequenced Bacterial Genomes and Plasmids

(A) The horizontal axis shows the number of nearest-neighbor IS pairs at a distance between 0.5 and 30 kb in the bacterial genomes examined. The p-value on the vertical axis is the likelihood that this number of IS pairs is greater than expected by chance alone, according to a randomization test described in Materials and Methods. There are two horizontal lines near the horizontal axis. The upper line represents a p-value of 0.01, the lower line a p-value of 0.00064, which is the Bonferroni-corrected value of p = 0.05, given that n = 78 independent statistical tests carried out for this analysis (0.00064 = 0.05/78).

(B) The randomized distribution of nearest-neighbor distance for IS91 in the genome of Rhodopirellula baltica. There are five members of this IS in the genome, and the closest pair of them is 3,051 bp apart. Based on this randomization test, this distance is significantly closer than expected by chance at a p = 0.0074.

(C) The horizontal axis shows the minimal distance between nearest-neighbor IS pairs that are between 0.5 and 30 kb apart in a genome. The vertical axis shows the likelihood that this minimal distance is observed by chance alone, based on the randomization test from (B) (described in Materials and Methods). The upper and lower horizontal lines represent Bonferroni-corrected p-values of p = 0.05 (0.00064 = 0.05/78) and p = 0.01 (0.000128 = 0.01/78). Both panels contain n = 78 datapoints derived from ISs in 28 different families.

Figure 2

doi: https://doi.org/10.1371/journal.pcbi.0020162.g002