@article{0402211074314c738bb6d35c59c0f2ab,
title = "Efficient and robust RNA-seq process for cultured bacteria and complex community transcriptomes",
abstract = "We have developed a process for transcriptome analysis of bacterial communities that accommodates both intact and fragmented starting RNA and combines efficient rRNA removal with strand-specific RNA-seq. We applied this approach to an RNA mixture derived from three diverse cultured bacterial species and to RNA isolated from clinical stool samples. The resulting expression profiles were highly reproducible, enriched up to 40-fold for non-rRNA transcripts, and correlated well with profiles representing undepleted total RNA.",
author = "Georgia Giannoukos and Ciulla, {Dawn M.} and Katherine Huang and Haas, {Brian J.} and Jacques Izard and Levin, {Joshua Z.} and Jonathan Livny and Earl, {Ashlee M.} and Dirk Gevers and Ward, {Doyle V.} and Chad Nusbaum and Birren, {Bruce W.} and Andreas Gnirke",
note = "Funding Information: We thank Cris Kinross and Epicentre for Ribo-Zero kits in advance of the commercial release, Steven Kain and NuGEN Technologies for providing the Ovation Prokaryotic RNA-Seq System, Sallie (Penny) Chisholm and her lab, especially Allison Coe, for culturing Prochlorococcus marinus, Mellie Vizsla for a stool sample to test collection, preservation and RNA/DNA extraction procedures, Xian Adiconis for cDNA lab protocols, the staff of the Broad Institute Sequencing Platform for generating sequencing data, and James Bochicchio and Cristyn Kells for their assistance with the submission of data to the SRA. We also thank Lesley Gaffney for last-minute help with the artwork. This project has been funded in part with funds from the National Institute of Allergy and Infectious Diseases (NIAID), National Institutes of Health and Human Services under contract number HHSN272200900018C, the Human Microbiome Project (U54 HG004969), the NIAID under award AI-076608 to JL, and National Cancer Institute under award CA139193 to JI.",
year = "2012",
month = mar,
day = "28",
doi = "10.1186/gb-2012-13-3-r23",
language = "English (US)",
volume = "13",
journal = "Genome Biology",
issn = "1465-6906",
publisher = "BioMed Central",
number = "3",
}