Performance comparison of benchtop high-throughput sequencing platforms

被引：929

作者：

Loman, Nicholas J. ^{[1
]}

Misra, Raju V. ^{[2
]}

Dallman, Timothy J. ^{[2
]}

Constantinidou, Chrystala ^{[1
]}

Gharbia, Saheer E. ^{[2
]}

Wain, John ^{[2
,3
]}

Pallen, Mark J. ^{[1
]}

机构：

[1] Univ Birmingham, Ctr Syst Biol, Birmingham, W Midlands, England

[2] Hlth Protect Agcy, London, England

[3] Univ E Anglia, Sch Med, Norwich NR4 7TJ, Norfolk, England

来源：

NATURE BIOTECHNOLOGY | 2012年 / 30卷 / 05期

基金：

英国生物技术与生命科学研究理事会;

关键词：

COLI; OUTBREAK; GENES; DNA;

D O I：

10.1038/nbt.2198

中图分类号：

Q81 [生物工程学（生物技术）]; Q93 [微生物学];

学科分类号：

071005 ; 0836 ; 090102 ; 100705 ;

摘要：

Three benchtop high-throughput sequencing instruments are now available. The 454 GS Junior (Roche), MiSeq (Illumina) and Ion Torrent PGM (Life Technologies) are laser-printer sized and offer modest set-up and running costs. Each instrument can generate data required for a draft bacterial genome sequence in days, making them attractive for identifying and characterizing pathogens in the clinical setting. We compared the performance of these instruments by sequencing an isolate of Escherichia coli O104:H4, which caused an outbreak of food poisoning in Germany in 2011. The MiSeq had the highest throughput per run (1.6 Gb/run, 60 Mb/h) and lowest error rates. The 454 GS Junior generated the longest reads (up to 600 bases) and most contiguous assemblies but had the lowest throughput (70 Mb/run, 9 Mb/h). Run in 100-bp mode, the Ion Torrent PGM had the highest throughput (80-100 Mb/h). Unlike the MiSeq, the Ion Torrent PGM and 454 GS Junior both produced homopolymer-associated indel errors (1.5 and 0.38 errors per 100 bases, respectively).

引用

页码：434 / +

页数：8

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