whole genome resequencing of E. coli. Escherichia coli

whole genome resequencing of E. coli (100 strains). (1) 1-45 strains: Genomes were paired-end re-sequenced using the Illumina HiSeq 2000/2500 instrument (Illumina inc., San Diego, CA, USA) with around 20 coverage for each genome. The initial strains in this experiment were genomes sequenced. Genomic DNA from different isolates was all genomes sequenced independently. Reads were 100/125 bp long, sequenced in pairs with a mean insert size of 500 bp. For E. coli between 405 and 1,260 Mb clean data (793 Mb on average) were obtained for each individual. (2) 46-100 strains: Genomes were paired-end re-sequenced using the Illumina HiSeq 4000 instrument (Illumina inc., San Diego, CA, USA) with around 20 coverage for each genome. The initial strains in this experiment were genomes sequenced. Genomic DNA from different isolates was all genomes sequenced independently. Reads were 150 bp long, sequenced in pairs with a mean insert size of 300 bp. For E. coli between 727 and 1,268 Mb clean data (921 Mb on average) were obtained for each individual.