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DNA metabarcoding and the cytochrome c oxidase subunit I marker: not a perfect match
Open accessAbstract
DNA metabarcoding enables efficient characterization of species composition in environmental DNA or bulk biodiversity samples, and this approach is making significant and unique contributions in the field of ecology. In metabarcoding of animals, the cytochrome c oxidase subunit I (COI) gene is frequently used as the marker of choice because no other genetic region can be found in taxonomically verified databases with sequences covering so many taxa. However, the accuracy of metabarcoding datasets is dependent on recovery of the targeted taxa using conserved amplification primers. We argue that COI does not contain suitably conserved regions for most amplicon-based metabarcoding applications. Marker selection deserves increased scrutiny and available marker choices should be broadened in order to maximize potential in this exciting field of research.
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Klindworth, A., Pruesse, E., Schweer, T., Peplies, J., Quast, C., Horn, M., & Glöckner, F. O. (2013) · Nucleic Acids Research · doi:10.1093/nar/gks808 · Cited by 8,850
Reducing the Effects of PCR Amplification and Sequencing Artifacts on 16S rRNA-Based Studies
Schloss, P. D., Gevers, D., & Westcott, S. L. (2011) · PLoS ONE · doi:10.1371/journal.pone.0027310 · Cited by 2,112
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Cited by
Environmental DNA – An emerging tool in conservation for monitoring past and present biodiversity
Thomsen, P. F., & Willerslev, E. (2015) · Biological Conservation · doi:10.1016/j.biocon.2014.11.019 · Cited by 2,082
Elbrecht, V., & Leese, F. (2015) · PLOS ONE · doi:10.1371/journal.pone.0130324 · Cited by 765
Elbrecht, V., Vamos, E. E., Meissner, K., Aroviita, J., & Leese, F. (2017) · Methods in Ecology and Evolution · doi:10.1111/2041-210x.12789 · Cited by 385
High Throughput Sequencing for Detection of Foodborne Pathogens
Sekse, C., Holst-Jensen, A., Dobrindt, U., Johannessen, G. S., Li, W., Spilsberg, B., & Shi, J. (2017) · Frontiers in Microbiology · doi:10.3389/fmicb.2017.02029 · Cited by 98
de Santana, C. D., Parenti, L. R., Dillman, C. B., Coddington, J. A., Bastos, D. A., Baldwin, C. C., Zuanon, J., Torrente-Vilara, G., Covain, R., Menezes, N. A., et al. (2021) · Scientific Reports · doi:10.1038/s41598-021-97128-3 · Cited by 38
Metadata
- Authors
- Deagle, B. E., Jarman, S. N., Coissac, E., Pompanon, F., & Taberlet, P.
- Venue
- Biology Letters
- Publisher
- The Royal Society
- Published
- 2014-09
- Volume
- 10
- Issue
- 9
- Pages
- 20140562
- ISSN
- 1744-9561 (ISSN-L)
- 1744-957X
- OpenAlex
- W2098869000
- Cited by
- 572
- References
- 2
- FWCI
- 30.77
- Type
- journal article
- Language
- en
- Open access
- green
- Licence
- royalsociety.org/journals/ethics-policies/data-sharing-mining/ (tdm)
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- Deagle, B. E., Jarman, S. N., Coissac, E., Pompanon, F., & Taberlet, P. (2014). DNA metabarcoding and the cytochrome c oxidase subunit I marker: not a perfect match. Biology Letters. https://doi.org/10.1098/rsbl.2014.0562
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Contains information from the Semantic Scholar Academic Graph Datasets, made available under the ODC Attribution License (ODC-BY 1.0).
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