Exact(16)
Illumina chips routinely have approximately 30 independent replicates of each gene (technical replicates) on the chip, and we used the average of these replicates.
The genewalking PCR procedure was used to explore sequences adjacent to the pla gene (Technical Appendix).
Most nucleotide sequence polymorphism occurred in the 3′ half of the gene (Technical Appendix).
Positive samples were verified by using a pan-bacterial PCR specific for the 16S rRNA gene (Technical Appendix).
All family members had positive results by molecular diagnostic test for >1 virus gene (Technical Appendix Table 1).
Resistance to tetracycline correlated with presence of the tetM gene (Technical Appendix Table 1) and was observed among strains of all STs except ST-452.
Similar(44)
Of these options, targeted panel testing is currently the least expensive, has the highest per-gene technical performance, and offers the most straightforward result interpretation with fewer variants of unknown significance.
This 1% sequence divergent segment covers 2 full genes (Technical Appendix 2, Table 2).
For all genes, technical triplicates were used for each of the three biological replicates (different clutches of embryos).
π S was significantly greater than π N for each of the other 6 genes (Technical Appendix Table).
Of the 293 SNPs, 95 gave rise to nonsynonymous mutations in several genes, including virulence factors (mammalian cell entry and yrbE proteins), transcriptional regulators (TetR family), and lipid metabolism genes (Technical Appendix).
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