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Table 2 Comparison of de novo assembly between 454 GS FLX, Sanger and Illumina platforms.

From: High-throughput 454 resequencing for allele discovery and recombination mapping in Plasmodium falciparum

  454 pyrosequencing Sanger sequencing^ Illumina sequencing*
  Progeny Parents Reference genome
  7C126 SC05 Dd2 HB3 NP-3D7-S NP-3D7-L
Number of Scaffolds 970 2,349 2,837 1,189 NA NA
N50 Scaffold Size (kb) 35.5 11.1 19.11 96.5 NA NA
Number of Contigs 9,452 9,597 4,511 2,971 26,920 22,839
N50 Contig Size (kb) 3.3 3.3 11.61 20.62 1.5 1.6
Largest Contig (kb) 36.7 34.4 NA NA NA NA
Number of assembled bases (Mb) 20.8 21.1 19.5 23.4 19.02 21.09
Average Coverage 33× 36× 7.8× 7.1× 43× 64×
  1. ^ Sanger technology - [50], http://www.broadinstitute.org
  2. * Illumina technology - [26]http://www.sanger.ac.uk; NP:No-PCR libraries; Suffixes L and S indicate long and short sequencing runs performed from the same library
  3. We compared the de novo assembly results from 454 GS FLX platform with the parental genome assembly information obtained using conventional Sanger technology, and 3D7 resequencing assembly information using the Illumina platform.