Comparing 16S rDNA amplicon sequencing and hybridization capture for pea aphid microbiota diversity analysis - Archive ouverte HAL Access content directly
Journal Articles BMC Research Notes Year : 2018

Comparing 16S rDNA amplicon sequencing and hybridization capture for pea aphid microbiota diversity analysis

Abstract

Objective: Targeted sequencing of 16S rDNA amplicons is routinely used for microbial community profiling but this method suffers several limitations such as bias affinity of universal primers and short read size. Gene capture by hybridization represents a promising alternative. Here we used a metagenomic extract from the pea aphid Acyrthosi- phon pisum to compare the performances of two widely used PCR primer pairs with DNA capture, based on solution hybrid selection.Results: All methods produced an exhaustive description of the 8 bacterial taxa known to be present in this sam‐ ple. In addition, the methods yielded similar quantitative results, with the number of reads strongly correlating with quantitative PCR controls. Both methods can thus be considered as qualitatively and quantitatively robust on such a sample with low microbial complexity.
Fichier principal
Vignette du fichier
61_Cariou_BMC_ResNotes_2018.pdf (1.05 Mo) Télécharger le fichier
Origin : Publisher files allowed on an open archive
Loading...

Dates and versions

hal-02140492 , version 1 (27-05-2019)

Identifiers

Cite

Marie Cariou, Céline Ribière, Stéphanie Morliere, Jean-Pierre Gauthier, Jean-Christophe Simon, et al.. Comparing 16S rDNA amplicon sequencing and hybridization capture for pea aphid microbiota diversity analysis. BMC Research Notes, 2018, 11 (1), pp.461. ⟨10.1186/s13104-018-3559-3⟩. ⟨hal-02140492⟩
81 View
97 Download

Altmetric

Share

Gmail Facebook X LinkedIn More