English   español  
Por favor, use este identificador para citar o enlazar a este item: http://hdl.handle.net/10261/138836
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
Exportar a otros formatos:

Evaluation of Alternative High-Throughput Sequencing Methodologies for the Monitoring of Marine Picoplanktonic Biodiversity Based on rRNA Gene Amplicons

AutorFerrera, Isabel ; Giner, Caterina R.; Reñé, Albert ; Camp, Jordi ; Massana, Ramon ; Gasol, Josep M. ; Garcés, Esther
Palabras clavePlankton diversity
High-throughput sequencing
Marine ecosystems
Monitoring programs
Environmental status
Fecha de publicaciónago-2016
EditorFrontiers Media
CitaciónFrontiers in Marine Science 3: 147 (2016)
Bridging the Gap Between Policy and Science in Assessing the Health Status of Marine Ecosystems: 147 (2016)
ResumenSequencing of rRNA gene polymerase chain reaction amplicons (rRNA tags) is the most common approach for investigating microbial diversity. The recent development of high-throughput sequencing (HTS) technologies has enabled the exploration of microbial biodiversity at an unprecedented scale, greatly expanding our knowledge on the microbiomes of marine ecosystems. These approaches provide accurate, fast, and cost efficient observations of the marine communities, and thus, may be suitable tools in biodiversity monitoring programs. To reach this goal, consistent and comparable methodologies must be used over time and within sites. Here, we have performed a cross-platform study of the two most common HTS methodologies, i.e., 454-pyrosequencing and Illumina tags to evaluate their usefulness in biodiversity monitoring and assessment of environmental status. Picoplankton biodiversity has been compared through both methodologies by sequencing the 16 and 18 S rRNA genes of a set of samples collected in the coast of Barcelona (NW Mediterranean). The results show that, despite differences observed in the rare OTUs retrieved, both platforms provide a comparable view of the marine picoplankton communities. On a taxonomic level, there was an accurate overlap in the detected phyla between the two methods and the overall estimates of alpha- and betadiversity were comparable. In addition, we explored the concept of “indicator species” and found that certain taxa (i.e., members of the Gammaproteobacteria among others) as well as the ratio between some phylogenetic groups (i.e., the ratio of Alphaproteobacteria/Gammaproteobacteria, Alteromonas/SAR11, and Alteromonas + Oceanospirillales/SAR11) have potential for being useful indicators of environmental status. The data show that implementing new protocols and identifying indicators of environmental status based on rRNA amplicon sequencing is feasible, and that is worth exploring whether the identified indices are universally applicable
Descripción16 pages, 6 figures, 2 tables
Versión del editorhttp://dx.doi.org/10.3389/fmars.2016.00147
Identificadoresdoi: 10.3389/fmars.2016.00147
e-issn: 2296-7745
isbn: 978-2-88945-004-6
Aparece en las colecciones: (ICM) Artículos
Ficheros en este ítem:
Fichero Descripción Tamaño Formato  
Ferrera_et_al_2016.pdf689,79 kBAdobe PDFVista previa
Mostrar el registro completo

NOTA: Los ítems de Digital.CSIC están protegidos por copyright, con todos los derechos reservados, a menos que se indique lo contrario.