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While an arrangement type accumulation curve (Figure 3) shows that other arrangement types will most likely be found in the future as more strains are analyzed, currently over 95% of theoretical arrangement types have not been observed.
The pan genome estimate of C. difficile (9,640 genes) derived from sequence data extrapolation, showed that many more strains are needed to be sequenced to reveal the complete species genome pool.
At the strain-to-species level, we believe our model is more reasonable since the total number of genes is going to increase to an upper bound approximately when more strains are counted.
Using several of these assays in combination for definitive identification could be important, as the Burkholderiaceae are highly recombining organisms [15], [19], [30], and as more and more strains are uncovered, the robustness and sensitivity of these assays will be challenged.
ND = Not done; + = 90% or more strains are positive; - = 90% or more strains are negative; V = Isolate variability (% 11.3-87.6).
The 547 genes gained by one or more strains are carried on phages or plasmids (Additional file 3).
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It is therefore essential that more strains be investigated to determine the biological significance of extracellular material in C. tropicalis phenotypic switching phenomenon.
How much diversity would be found if the arrangement types of more strains were determined?
Only species with five or more strains were analyzed.
In the MRSA group, more strains were resistant to erythromycin, clindamycin, gentamicin and amikacin than in the MSSA group.
As expected, the average size of the core genome decreased as more strains were included in the analysis.
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