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Estimating intraspecific genetic diversity from community DNA metabarcoding data.

Vasco ElbrechtEcaterina Edith VamosDirk SteinkeFlorian Leese
Published in: PeerJ (2018)
We developed a strategy to infer intraspecific genetic diversity from bulk invertebrate metabarcoding data. It needs to be stressed that at this point this metabarcoding-informed haplotyping is not capable of capturing the full diversity present in such samples, due to variation in specimen size, primer bias and loss of sequence variants with low abundance. Nevertheless, for a high number of species intraspecific diversity was recovered, identifying potentially isolated populations and taxa for further more detailed phylogeographic investigation. While we are currently lacking large-scale metabarcoding datasets to fully take advantage of our new approach, metabarcoding-informed haplotyping holds great promise for biomonitoring efforts that not only seek information about species diversity but also underlying genetic diversity.
Keyphrases
  • genetic diversity
  • big data
  • electronic health record
  • healthcare
  • mental health
  • machine learning
  • copy number
  • cell free
  • single molecule
  • data analysis
  • health information
  • social media
  • deep learning