dc.contributor.author |
Kim, Soohong |
en |
dc.contributor.author |
De Jonghe, Joachim |
en |
dc.contributor.author |
Kulesa, Anthony B |
en |
dc.contributor.author |
Feldman, David |
en |
dc.contributor.author |
Vatanen, Tommi |
en |
dc.contributor.author |
Bhattacharyya, Roby P |
en |
dc.contributor.author |
Berdy, Brittany |
en |
dc.contributor.author |
Gomez, James |
en |
dc.contributor.author |
Nolan, Jill |
en |
dc.contributor.author |
Epstein, Slava |
en |
dc.contributor.author |
Blainey, Paul C |
en |
dc.date.accessioned |
2018-10-26T02:20:23Z |
en |
dc.date.issued |
2017-01-27 |
en |
dc.identifier.citation |
Nature Communications 8:10 pages Article number 13919 27 Jan 2017 |
en |
dc.identifier.issn |
2041-1723 |
en |
dc.identifier.uri |
http://hdl.handle.net/2292/43514 |
en |
dc.description.abstract |
Low-cost shotgun DNA sequencing is transforming the microbial sciences. Sequencing instruments are so effective that sample preparation is now the key limiting factor. Here, we introduce a microfluidic sample preparation platform that integrates the key steps in cells to sequence library sample preparation for up to 96 samples and reduces DNA input requirements 100-fold while maintaining or improving data quality. The general-purpose microarchitecture we demonstrate supports workflows with arbitrary numbers of reaction and clean-up or capture steps. By reducing the sample quantity requirements, we enabled low-input (∼10,000 cells) whole-genome shotgun (WGS) sequencing of Mycobacterium tuberculosis and soil micro-colonies with superior results. We also leveraged the enhanced throughput to sequence ∼400 clinical Pseudomonas aeruginosa libraries and demonstrate excellent single-nucleotide polymorphism detection performance that explained phenotypically observed antibiotic resistance. Fully-integrated lab-on-chip sample preparation overcomes technical barriers to enable broader deployment of genomics across many basic research and translational applications. |
en |
dc.format.medium |
Electronic |
en |
dc.language |
eng |
en |
dc.relation.ispartofseries |
Nature communications |
en |
dc.rights |
Items in ResearchSpace are protected by copyright, with all rights reserved, unless otherwise indicated. Previously published items are made available in accordance with the copyright policy of the publisher. |
en |
dc.rights.uri |
https://researchspace.auckland.ac.nz/docs/uoa-docs/rights.htm |
en |
dc.rights.uri |
https://creativecommons.org/licenses/by/4.0/ |
en |
dc.subject |
Humans |
en |
dc.subject |
Pseudomonas aeruginosa |
en |
dc.subject |
Mycobacterium tuberculosis |
en |
dc.subject |
Bacterial Infections |
en |
dc.subject |
Oligonucleotide Array Sequence Analysis |
en |
dc.subject |
Microfluidics |
en |
dc.subject |
Genomics |
en |
dc.subject |
Soil Microbiology |
en |
dc.subject |
Environmental Monitoring |
en |
dc.subject |
Drug Resistance, Microbial |
en |
dc.subject |
Polymorphism, Single Nucleotide |
en |
dc.subject |
Gene Library |
en |
dc.subject |
Genome, Bacterial |
en |
dc.subject |
Lab-On-A-Chip Devices |
en |
dc.subject |
High-Throughput Screening Assays |
en |
dc.subject |
High-Throughput Nucleotide Sequencing |
en |
dc.subject |
Whole Genome Sequencing |
en |
dc.title |
High-throughput automated microfluidic sample preparation for accurate microbial genomics. |
en |
dc.type |
Journal Article |
en |
dc.identifier.doi |
10.1038/ncomms13919 |
en |
pubs.begin-page |
13919 |
en |
pubs.volume |
8 |
en |
dc.rights.holder |
Copyright: The authors |
en |
dc.identifier.pmid |
28128213 |
en |
pubs.publication-status |
Published |
en |
dc.rights.accessrights |
http://purl.org/eprint/accessRights/OpenAccess |
en |
pubs.subtype |
Research Support, Non-U.S. Gov't |
en |
pubs.subtype |
research-article |
en |
pubs.subtype |
Journal Article |
en |
pubs.elements-id |
734568 |
en |
pubs.org-id |
Liggins Institute |
en |
dc.identifier.eissn |
2041-1723 |
en |
pubs.record-created-at-source-date |
2017-01-28 |
en |
pubs.dimensions-id |
28128213 |
en |