Data from: Quantitative DNA metabarcoding: improved estimates of species proportional biomass using correction factors derived from control material
DNA metabarcoding is a powerful new tool allowing characterization of species assemblages using high-throughput amplicon sequencing. The utility of DNA metabarcoding for quantifying relative species abundances is currently limited by both biological and technical biases which influence sequence read...
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ftdatacite:10.5061/dryad.7dv96 2023-05-15T16:33:39+02:00 Data from: Quantitative DNA metabarcoding: improved estimates of species proportional biomass using correction factors derived from control material Thomas, Austen C. Deagle, Bruce E. Eveson, J. Paige Harsch, Corie H. Trites, Andrew W. 2015 https://dx.doi.org/10.5061/dryad.7dv96 http://datadryad.org/stash/dataset/doi:10.5061/dryad.7dv96 en eng Dryad https://dx.doi.org/10.1111/1755-0998.12490 Creative Commons Zero v1.0 Universal https://creativecommons.org/publicdomain/zero/1.0/legalcode cc0-1.0 CC0 Predator Prey Interactions Diet Analysis dataset Dataset 2015 ftdatacite https://doi.org/10.5061/dryad.7dv96 https://doi.org/10.1111/1755-0998.12490 2022-02-08T12:42:49Z DNA metabarcoding is a powerful new tool allowing characterization of species assemblages using high-throughput amplicon sequencing. The utility of DNA metabarcoding for quantifying relative species abundances is currently limited by both biological and technical biases which influence sequence read counts. We tested the idea of sequencing 50/50 mixtures of target species and a control species in order to generate relative correction factors (RCFs) that account for multiple sources of bias and are applicable to field studies. RCFs will be most effective if they are not affected by input mass ratio or co-occurring species. In a model experiment involving three target fish species and a fixed control, we found RCFs did vary with input ratio but in a consistent fashion, and that 50/50 RCFs applied to DNA sequence counts from various mixtures of the target species still greatly improved relative abundance estimates (e.g. average per species error of 19 ± 8% for uncorrected vs. 3 ± 1% for corrected estimates). To demonstrate the use of correction factors in a field setting, we calculated 50/50 RCFs for 18 harbour seal (Phoca vitulina) prey species (RCFs ranging from 0.68 to 3.68). Applying these corrections to field-collected seal scats affected species percentages from individual samples (Δ 6.7 ± 6.6%) more than population-level species estimates (Δ 1.7 ± 1.2%). Our results indicate that the 50/50 RCF approach is an effective tool for evaluating and correcting biases in DNA metabarcoding studies. The decision to apply correction factors will be influenced by the feasibility of creating tissue mixtures for the target species, and the level of accuracy needed to meet research objectives. : Model System DataPlease see ReadMe filePrey_Library_DataPlease see ReadMe fileSupplemental_FilesTissue mix sequence counts Custom BLAST database Model system species sequences Dataset harbour seal Phoca vitulina DataCite Metadata Store (German National Library of Science and Technology) |
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Open Polar |
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DataCite Metadata Store (German National Library of Science and Technology) |
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ftdatacite |
language |
English |
topic |
Predator Prey Interactions Diet Analysis |
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Predator Prey Interactions Diet Analysis Thomas, Austen C. Deagle, Bruce E. Eveson, J. Paige Harsch, Corie H. Trites, Andrew W. Data from: Quantitative DNA metabarcoding: improved estimates of species proportional biomass using correction factors derived from control material |
topic_facet |
Predator Prey Interactions Diet Analysis |
description |
DNA metabarcoding is a powerful new tool allowing characterization of species assemblages using high-throughput amplicon sequencing. The utility of DNA metabarcoding for quantifying relative species abundances is currently limited by both biological and technical biases which influence sequence read counts. We tested the idea of sequencing 50/50 mixtures of target species and a control species in order to generate relative correction factors (RCFs) that account for multiple sources of bias and are applicable to field studies. RCFs will be most effective if they are not affected by input mass ratio or co-occurring species. In a model experiment involving three target fish species and a fixed control, we found RCFs did vary with input ratio but in a consistent fashion, and that 50/50 RCFs applied to DNA sequence counts from various mixtures of the target species still greatly improved relative abundance estimates (e.g. average per species error of 19 ± 8% for uncorrected vs. 3 ± 1% for corrected estimates). To demonstrate the use of correction factors in a field setting, we calculated 50/50 RCFs for 18 harbour seal (Phoca vitulina) prey species (RCFs ranging from 0.68 to 3.68). Applying these corrections to field-collected seal scats affected species percentages from individual samples (Δ 6.7 ± 6.6%) more than population-level species estimates (Δ 1.7 ± 1.2%). Our results indicate that the 50/50 RCF approach is an effective tool for evaluating and correcting biases in DNA metabarcoding studies. The decision to apply correction factors will be influenced by the feasibility of creating tissue mixtures for the target species, and the level of accuracy needed to meet research objectives. : Model System DataPlease see ReadMe filePrey_Library_DataPlease see ReadMe fileSupplemental_FilesTissue mix sequence counts Custom BLAST database Model system species sequences |
format |
Dataset |
author |
Thomas, Austen C. Deagle, Bruce E. Eveson, J. Paige Harsch, Corie H. Trites, Andrew W. |
author_facet |
Thomas, Austen C. Deagle, Bruce E. Eveson, J. Paige Harsch, Corie H. Trites, Andrew W. |
author_sort |
Thomas, Austen C. |
title |
Data from: Quantitative DNA metabarcoding: improved estimates of species proportional biomass using correction factors derived from control material |
title_short |
Data from: Quantitative DNA metabarcoding: improved estimates of species proportional biomass using correction factors derived from control material |
title_full |
Data from: Quantitative DNA metabarcoding: improved estimates of species proportional biomass using correction factors derived from control material |
title_fullStr |
Data from: Quantitative DNA metabarcoding: improved estimates of species proportional biomass using correction factors derived from control material |
title_full_unstemmed |
Data from: Quantitative DNA metabarcoding: improved estimates of species proportional biomass using correction factors derived from control material |
title_sort |
data from: quantitative dna metabarcoding: improved estimates of species proportional biomass using correction factors derived from control material |
publisher |
Dryad |
publishDate |
2015 |
url |
https://dx.doi.org/10.5061/dryad.7dv96 http://datadryad.org/stash/dataset/doi:10.5061/dryad.7dv96 |
genre |
harbour seal Phoca vitulina |
genre_facet |
harbour seal Phoca vitulina |
op_relation |
https://dx.doi.org/10.1111/1755-0998.12490 |
op_rights |
Creative Commons Zero v1.0 Universal https://creativecommons.org/publicdomain/zero/1.0/legalcode cc0-1.0 |
op_rightsnorm |
CC0 |
op_doi |
https://doi.org/10.5061/dryad.7dv96 https://doi.org/10.1111/1755-0998.12490 |
_version_ |
1766023332967219200 |