comparing 16s rdna amplicon sequencing and hybridization capture for pea aphid microbiota diversity analysis

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ID: 149932
2018
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Abstract
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 Acyrthosiphon 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 sample. 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.
Reference Key
cariou2018bmccomparing Use this key to autocite in the manuscript while using SciMatic Manuscript Manager or Thesis Manager
Authors ;Marie Cariou;Céline Ribière;Stéphanie Morlière;Jean-Pierre Gauthier;Jean-Christophe Simon;Pierre Peyret;Sylvain Charlat
Journal journal of health and safety at work
Year 2018
DOI
10.1186/s13104-018-3559-3
URL
http://link.springer.com/article/10.1186/s13104-018-3559-3
Keywords
16s amplicon sequencing

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