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Table 1 Early bacterial genome-wide association studies based on whole-genome shotgun data

From: Characterizing the genetic basis of bacterial phenotypes using genome-wide association studies: a new direction for bacteriology

Organism Sample size Phenotype Finding Genome-wide association study program used Reference
Campylobacter jejuni and C. coli 192 Host adaptation Vitamin B5 biosynthesis is important 30 bp `word’ searching [17] [17]
Mycobacterium tuberculosis 123 Antibiotic resistance 39 novel resistance-associated loci PhyC [18] [18]
Staphylococcus aureus 75 Antibiotic resistance Novel associated single nucleotide polymorphism in rpoB gene ROADTRIPS [50] [20]
S. aureus 90 Virulence 121 novel associated loci PLINK [49] [19]
Streptococcus pneumoniae 3,701 Antibiotic resistance Multiple novel associated loci PLINK [49] [21]