Ultra-high-throughput microbial community analysis on the Illumina HiSeq and MiSeq platforms

被引：6754

作者：

Caporaso, J. Gregory ^{[2
]}

Lauber, Christian L. ^{[3
]}

Walters, William A. ^{[4
]}

Berg-Lyons, Donna ^{[3
]}

Huntley, James ^{[5
]}

Fierer, Noah ^{[3
,6
]}

Owens, Sarah M. ^{[7
]}

Betley, Jason ^{[8
]}

Fraser, Louise ^{[8
]}

Bauer, Markus ^{[8
]}

Gormley, Niall ^{[8
]}

Gilbert, Jack A. ^{[7
,9
]}

Smith, Geoff ^{[8
]}

Knight, Rob ^{[1
,10
]}

机构：

[1] Univ Colorado, Howard Hughes Med Inst, Boulder, CO 80309 USA

[2] No Arizona Univ, Dept Comp Sci, Flagstaff, AZ 86011 USA

[3] Univ Colorado, Cooperat Inst Res Environm Sci, Boulder, CO 80309 USA

[4] Univ Colorado, Dept Mol Cellular & Dev Biol, Boulder, CO 80309 USA

[5] Univ Colorado, Colorado Initiat Mol Biotechnol, Boulder, CO 80309 USA

[6] Univ Colorado, Dept Ecol & Evolutionary Biol, Boulder, CO 80309 USA

[7] Argonne Natl Lab, Argonne, IL 60439 USA

[8] Illumina Cambridge Ltd, Saffron Walden, Essex, England

[9] Univ Chicago, Dept Ecol & Evolut, Chicago, IL 60637 USA

[10] Univ Colorado, Dept Chem & Biochem, Boulder, CO 80309 USA

来源：

ISME JOURNAL | 2012年 / 6卷 / 08期

基金：

美国国家科学基金会;

关键词：

illumine; barcoded sequencing; QIIME; RIBOSOMAL-RNA GENE; DIVERSITY; PATTERNS; SAMPLE;

D O I：

10.1038/ismej.2012.8

中图分类号：

Q14 [生态学（生物生态学）];

学科分类号：

071012 ; 0713 ;

摘要：

DNA sequencing continues to decrease in cost with the Illumina HiSeq2000 generating up to 600 Gb of paired-end 100 base reads in a ten-day run. Here we present a protocol for community amplicon sequencing on the HiSeq2000 and MiSeq Illumina platforms, and apply that protocol to sequence 24 microbial communities from host-associated and free-living environments. A critical question as more sequencing platforms become available is whether biological conclusions derived on one platform are consistent with what would be derived on a different platform. We show that the protocol developed for these instruments successfully recaptures known biological results, and additionally that biological conclusions are consistent across sequencing platforms (the HiSeq2000 versus the MiSeq) and across the sequenced regions of amplicons. The ISME Journal (2012) 6, 1621-1624; doi:10.1038/ismej.2012.8; published online 8 March 2012

引用

页码：1621 / 1624

页数：4

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