Sequencing genomes of 35 strains of Streptococcus thermophilus by hybrid assembly (ILLUMINA + Nanopore MinION). Streptococcus thermophilus genomes CIRMBIA

35 strains of Streptococcus thermophilus provided by the CIRM-BIA collection (International Centre for Microbial Ressources dedicated to Food Bacteria) were sequenced by ILLUMINA technology (2x125) and nanopore technology (MinION) to obtain an hybrid assembly using unicycler (https://github.com/rrwick/Unicycler).The strains were isolated from dairy products from year 1954 to 2008 in 11 different countries. DNA extraction of long fragments: QIAGEN Genomic-tip 100/G MinIOn device with flow cell R9.4, rapid barcoding kit (SQK-RBK004) with 12 barcodes. The MinKNOW software (version Release 18.12.9) was used to monitor the run and basecall the reads. All bioinformatics steps were carried out on the GenOuest platform (https://www.genouest.org/). The .fastq files have been demultiplexed using Deepbinner v0.2.0 (https://github.com/rrwick/Deepbinner). The hybrid assembly was carried out by Unicycler v0.4.7 (https://github.com/rrwick/Unicycler). The completeness of the genomes was assessed by BUSCO v3 (https://busco-archive.ezlab.org/v3/).