Performance of amplicon and shotgun sequencing for accurate biomass estimation in invertebrate community samples.

摘要: New applications of DNA and RNA sequencing are expanding the field biodiversity discovery ecological monitoring, yet questions remain regarding precision efficiency. Due to primer bias, ability metabarcoding accurately depict biomass different taxa from bulk communities remains unclear, while PCR-free whole mitochondrial genome (mitogenome) may provide a more reliable alternative. Here, we used set documented mock comprising 13 species freshwater macroinvertebrates estimated individual biomass, compare detection efficiency COI (three amplicons) shotgun mitogenome sequencing. Additionally, barcoding de novo sequencing, reference sequences for OTU assignment metagenome mapping (mitogenome skimming), respectively. We found that, even though both methods occasionally failed recover very low abundance species, was less consistent, by failing some with higher abundances, probably due bias. Shotgun results provided highly significant correlations between read number in all but one species. Conversely, read-biomass relationships obtained varied across amplicons. Specifically, eight (amplicons B1FR-450 bp, FF130R-130 bp) or four (amplicon FFFR, 658 bp) Combining three amplicons (multiamplicon approach) improved Overall, mitogenomic yielded informative predictions content macroinvertebrate than metabarcoding. However, large-scale studies, currently most commonly approach diversity assessment.