English   español  
Please use this identifier to cite or link to this item: http://hdl.handle.net/10261/13201
logo share SHARE logo core CORE   Add this article to your Mendeley library MendeleyBASE

Visualizar otros formatos: MARC | Dublin Core | RDF | ORE | MODS | METS | DIDL | DATACITE
Exportar a otros formatos:


Influence of primer mismatch and microdiversity on DGGE results: a case study with SAR 11

AuthorsSánchez, Olga ; Gasol, Josep M. ; Balagué, Vanessa ; Massana, Ramon ; Mas, Jordi; Pedrós-Alió, Carlos
Issue Date18-Feb-2009
PublisherInter Research
CitationAquatic Microbial Ecology 54(2): 211-216 (2009)
AbstractAlthough SAR 11 is usually the dominant bacterial group in most marine ecosystems when analyzed with clone libraries and fluorescence in situ hybridization, it is often not retrieved in studies where denaturing gradient gel electrophoresis (DGGE) has bee used. We analyzed the microdiversity of SAR11 in Blanes Bay (NW Mediterranean) and we suggest that the high evenness of multiple microdiverse phylotypes, none of which being particularly dominant, is the probable reason for this methodological discrepancy. We used seeding experiments in which different amounts of 2 SAR11-affiliated clones were mixed with DNA from an environmental sample obtained from the Blanes Bay Microbial Observatory. Two primer sets differing at 2 base positions produced DGGE images that varied in their SAR11 detection threshold concentration. Our results show that primer mismatches and/or the presence of faint bands due to microdiversity could explain why SAR11 is frequently not retrieved from DGGE gels
Description6 pages, 2 figures, 2 tables
Publisher version (URL)https://doi.org/10.3354/ame01267
Appears in Collections:(ICM) Artículos
Files in This Item:
File Description SizeFormat 
Sanchez_et_al_2009.pdf176,31 kBAdobe PDFThumbnail
Show full item record
Review this work

Related articles:

WARNING: Items in Digital.CSIC are protected by copyright, with all rights reserved, unless otherwise indicated.