Borrelia burgdorferi Europe genome sequencing
DNA samples were prepared according to Nextera DNA sample preparation guide (Qiagen). The samples were diluted to 50ng/μl concentration and “tagmented” by simultaneously fragmenting DNA using transposomes and adding adapters. After tagmentation samples having adapters on both ends underwent 5 PCR cycles to amplify the product. The sequences were indexed and the resulting libraries were validated using Agilent 2100 Bioanalyser.    For TruSeq (TS) DNA samples were prepared according to TruSeq DNA sample preparation guide (Qiagen). One microgram of DNA sample was fragmented to appr. 550 bp using a Covaris instrument. TruSeq libraries were generated with an Illumina TruSeq library kit according to the manufacturer’s recommendations. Libraries were validated using genomic DNA analysis screen tapes and genomics DNA reagents in a Tapestation 2200.     Mate-paired (MP) libraries were generated using an Illumina Nextera Mate Pair Library Preparation Kit. After circularization samples were fragmented using a Covaris instrument. Adapter and index sequences were ligated to the fragments according to the manufacturer’s recommendation. Samples having adapters on both ends underwent 5 PCR cycles to amplify the product. The resulting libraries were validated using Agilent Tapestation 2200.
Bavarian Health and Food Safety Authority
PAbe_TS