Unlocking Short Read Sequencing for Metagenomics

Rodrigue, Sébastien; Materna, Arne C.; Timberlake, Sonia C.; Blackburn, Matthew C.; Malmstrom, Rex R.; Alm, Eric J.; Chisholm, Sallie W.; Gilbert, Jack Anthony

doi:10.1371/journal.pone.0011840

Title: Unlocking Short Read Sequencing for Metagenomics

Journal Article · Wed Jul 28 00:00:00 EDT 2010 · PLoS ONE

DOI:https://doi.org/10.1371/journal.pone.0011840· OSTI ID:1026647

Rodrigue, Sébastien ^[1]; Materna, Arne C. ^[1]; Timberlake, Sonia C. ^[1]; Blackburn, Matthew C. ^[1]; Malmstrom, Rex R. ^[1]; Alm, Eric J. ^[1]; Chisholm, Sallie W. ^[1]; Gilbert, Jack Anthony ^[1]

Massachusetts Inst. of Technology (MIT), Cambridge, MA (United States). Dept. of Civil and Environmental Engineering

We describe an experimental and computational pipeline yielding millions of reads that can exceed 200 bp with quality scores approaching that of traditional Sanger sequencing. The method combines an automatable gel-less library construction step with paired-end sequencing on a short-read instrument. With appropriately sized library inserts, mate-pair sequences can overlap, and we describe the SHERA software package that joins them to form a longer composite read.

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Research Organization:: Massachusetts Inst. of Technology (MIT), Cambridge, MA (United States)

Sponsoring Organization:: USDOE

Grant/Contract Number:: FG02-07ER64506

OSTI ID:: 1026647

Report Number(s):: DoE/ER/-64506-4

Journal Information:: PLoS ONE, Vol. 5, Issue 7; ISSN 1932-6203

Publisher:: Public Library of ScienceCopyright Statement

Country of Publication:: United States

Language:: English

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Cited by: 120 works

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59 BASIC BIOLOGICAL SCIENCES

Title: Unlocking Short Read Sequencing for Metagenomics

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