A method for studying protistan diversity using massively parallel sequencing of V9 hypervariable regions of small-subunit ribosomal RNA genes

Amaral-Zettler, Linda A.; McCliment, Elizabeth A.; Ducklow, Hugh W.; Huse, Susan M.

A method for studying protistan diversity using massively parallel sequencing of V9 hypervariable regions of small-subunit ribosomal RNA genes

dc.contributor.author	Amaral-Zettler, Linda A.
dc.contributor.author	McCliment, Elizabeth A.
dc.contributor.author	Ducklow, Hugh W.
dc.contributor.author	Huse, Susan M.
dc.date.accessioned	2010-01-19T21:34:48Z
dc.date.available	2010-01-19T21:34:48Z
dc.date.issued	2009-07-27
dc.description	© 2009 The Authors. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in PLoS ONE 4 (2009): e6372, doi:10.1371/journal.pone.0006372.	en_US
dc.description.abstract	Massively parallel pyrosequencing of amplicons from the V6 hypervariable regions of small-subunit (SSU) ribosomal RNA (rRNA) genes is commonly used to assess diversity and richness in bacterial and archaeal populations. Recent advances in pyrosequencing technology provide read lengths of up to 240 nucleotides. Amplicon pyrosequencing can now be applied to longer variable regions of the SSU rRNA gene including the V9 region in eukaryotes. We present a protocol for the amplicon pyrosequencing of V9 regions for eukaryotic environmental samples for biodiversity inventories and species richness estimation. The International Census of Marine Microbes (ICoMM) and the Microbial Inventory Research Across Diverse Aquatic Long Term Ecological Research Sites (MIRADA-LTERs) projects are already employing this protocol for tag sequencing of eukaryotic samples in a wide diversity of both marine and freshwater environments. Massively parallel pyrosequencing of eukaryotic V9 hypervariable regions of SSU rRNA genes provides a means of estimating species richness from deeply-sampled populations and for discovering novel species from the environment.	en_US
dc.description.sponsorship	This work was supported by grants from the W.M. Keck Foundation and the Woods Hole Center for Oceans and Human Health from the National Institutes of Health and National Science Foundation (NIH/NIEHS 1 P50 ES012742-01 and NSF/OCE 0430724-J) (LAZ and SH).	en_US
dc.format.mimetype	application/pdf
dc.format.mimetype	image/tiff
dc.identifier.citation	PLoS ONE 4 (2009): e6372	en_US
dc.identifier.doi	10.1371/journal.pone.0006372
dc.identifier.uri	https://hdl.handle.net/1912/3128
dc.language.iso	en_US	en_US
dc.publisher	Public Library of Science	en_US
dc.relation.uri	https://doi.org/10.1371/journal.pone.0006372
dc.rights	Attribution 3.0 United States	*
dc.rights.uri	http://creativecommons.org/licenses/by/3.0/us/	*
dc.title	A method for studying protistan diversity using massively parallel sequencing of V9 hypervariable regions of small-subunit ribosomal RNA genes	en_US
dc.type	Article	en_US
dspace.entity.type	Publication
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