Genomic DNA was isolated from Thiothrix
sp. AS and T. unzii
A1T (strain was obtained from ATCC collection ATCC 49747T) using a DNeasy PowerSoil DNA isolation kit (Mo Bio Laboratories, Carlsbad, CA, United States). Genomic DNA was sequenced using Illumina and Oxford Nanopore platforms. For Illumina sequencing, the shotgun genome libraries were prepared using the NEBNext Ultra II DNA library prep kit (New England Biolabs, United States). The libraries were sequenced on an Illumina MiSeq (Illumina, San Diego, CA, United States) in a paired reads mode (2 × 300 nt). Low quality sequences were trimmed using Sickle v.1.33 (q
. In addition, genomic DNA was sequenced on a MinION device (Oxford Nanopore, United Kingdom) using the ligation sequencing kit 1D and FLO-MIN110 cells. Sequencing statistics are shown in Supplementary Table 1
. For each genome, nanopore reads were assembled into a single circular contig using Flye v. 2.8.2 (Kolmogorov et al., 2019
). The consensus sequence of the assembled contig was corrected with two iterations of Pilon v.1.22 (Walker et al., 2014
) using Illumina MiSeq reads.