dc.contributor.author | Pawluczyk, Marta | |
dc.contributor.author | Weiss, Julia | |
dc.contributor.author | Links, Matthew | |
dc.contributor.author | Egaña Aranguren, Mikel | |
dc.contributor.author | Wilkinson, Mark D. | |
dc.contributor.author | Egea Cortines, Marcos | |
dc.date.accessioned | 2024-07-22T08:43:20Z | |
dc.date.available | 2024-07-22T08:43:20Z | |
dc.date.issued | 2015-01-11 | |
dc.identifier.citation | Analytical and Bioanalytical Chemistry 407 : 1841-1848 (2015) | es_ES |
dc.identifier.issn | 1618-2650 | |
dc.identifier.issn | 1618-2642 | |
dc.identifier.uri | http://hdl.handle.net/10810/68965 | |
dc.description.abstract | Unbiased identification of organisms by PCR reactions using universal primers followed by DNA sequencing assumes positive amplification. We used six universal loci spanning 48 plant species and quantified the bias at each step of the identification process from end point PCR to next-generation sequencing. End point amplification was significantly different for single loci and between species. Quantitative PCR revealed that Cq threshold for various loci, even within a single DNA extraction, showed 2,000-fold differences in DNA quantity after amplification. Next-generation sequencing (NGS) experiments in nine species showed significant biases towards species and specific loci using adaptor-specific primers. NGS sequencing bias may be predicted to some extent by the Cq values of qPCR amplification. | es_ES |
dc.description.sponsorship | This work was performed as partial fulfillment of the PhD of Marta Pawluczyk. This work was funded by the Comunidad Autónoma de la Región de Murcia Project “Molecular markers in conservation and management of the flora of Murcia Region” (“Marcadores moleculares en conservación y gestión de la flora murciana”). Part of the work was performed under the Proyecto Vitalis Campus Mare Nostrum “Espacio Mediterráneo de Investigación en Red en Alimentos y Salud” - CEI10-2-0002. | es_ES |
dc.language.iso | eng | es_ES |
dc.publisher | Springer | es_ES |
dc.rights | info:eu-repo/semantics/openAccess | es_ES |
dc.subject | metabarcoding | es_ES |
dc.subject | next-generation sequencing | es_ES |
dc.subject | Ion torrent | es_ES |
dc.subject | cq value | es_ES |
dc.subject | PCR efficiency | es_ES |
dc.subject | bioinformatics | es_ES |
dc.title | Quantitative evaluation of bias in PCR amplification and next-generation sequencing derived from metabarcoding samples | es_ES |
dc.type | info:eu-repo/semantics/article | es_ES |
dc.rights.holder | © 2015, Springer-Verlag Berlin Heidelberg | es_ES |
dc.relation.publisherversion | https://doi.org/10.1007/s00216-014-8435-y | es_ES |
dc.identifier.doi | 10.1007/s00216-014-8435-y | |
dc.departamentoes | Lenguajes y sistemas informáticos | es_ES |
dc.departamentoeu | Hizkuntza eta sistema informatikoak | es_ES |