Long-Read Sequencing and Genome Assembly Pipeline of Two Clones (3D7, W2) Using Only the PromethION Sequencer from Oxford Nanopore Technologies without Whole-Genome Amplification.

Antimalarial drug resistance has become a real public health problem despite WHO measures. New sequencing technologies make it possible to investigate genomic variations associated with resistant phenotypes at the genome-wide scale. Based on the use of hemisynthetic nanopores, the PromethION technology from Oxford Nanopore Technologies can produce long-read sequences, in contrast to previous short-read technologies used as the gold standard to sequence Plasmodium. Two clones of (3D7 and W2) were sequenced in long-read using the PromethION sequencer from Oxford Nanopore Technologies without genomic amplification. This made it possible to create a processing analysis pipeline for human with ONT Fastq only. assembly revealed N50 lengths of 18,488 kb and 17,502 kb for the 3D7 and W2, respectively. The genome size was estimated at 23,235,407 base pairs for the clone and 21,712,038 base pairs for the W2 clone. The average genome coverage depth was estimated at 787X and 653X for the 3D7 and W2 clones, respectively. This study proposes an assembly processing pipeline for the human genome using software adapted to large ONT data and the high AT percentage of . This search provides all the parameters which were optimized for use with the software selected in the pipeline.