Advancing DNA Barcoding and Metabarcoding Applications for Plants Requires Systematic Analysis of Herbarium Collections—An Australian Perspective
Building DNA barcode databases for plants has historically been ad hoc, and often with a relatively narrow taxonomic focus. To realize the full potential of DNA barcoding for plants, and particularly its application to metabarcoding for mixed-species environmental samples, systematic sequencing of r...
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| Format: | Article |
| Language: | English |
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Frontiers Media S.A.
2018-09-01
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| Series: | Frontiers in Ecology and Evolution |
| Subjects: | |
| Online Access: | https://www.frontiersin.org/article/10.3389/fevo.2018.00134/full |
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Article |
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DOAJ |
| language |
English |
| format |
Article |
| sources |
DOAJ |
| author |
Eleanor E. Dormontt Kor-jent van Dijk Karen L. Bell Karen L. Bell Ed Biffin Martin F. Breed Margaret Byrne Stefan Caddy-Retalic Stefan Caddy-Retalic Francisco Encinas-Viso Paul G. Nevill Alison Shapcott Jennifer M. Young Michelle Waycott Michelle Waycott Andrew J. Lowe |
| spellingShingle |
Eleanor E. Dormontt Kor-jent van Dijk Karen L. Bell Karen L. Bell Ed Biffin Martin F. Breed Margaret Byrne Stefan Caddy-Retalic Stefan Caddy-Retalic Francisco Encinas-Viso Paul G. Nevill Alison Shapcott Jennifer M. Young Michelle Waycott Michelle Waycott Andrew J. Lowe Advancing DNA Barcoding and Metabarcoding Applications for Plants Requires Systematic Analysis of Herbarium Collections—An Australian Perspective Frontiers in Ecology and Evolution natural history collections barcoding reference database conservation science infrastructure taxonomy |
| author_facet |
Eleanor E. Dormontt Kor-jent van Dijk Karen L. Bell Karen L. Bell Ed Biffin Martin F. Breed Margaret Byrne Stefan Caddy-Retalic Stefan Caddy-Retalic Francisco Encinas-Viso Paul G. Nevill Alison Shapcott Jennifer M. Young Michelle Waycott Michelle Waycott Andrew J. Lowe |
| author_sort |
Eleanor E. Dormontt |
| title |
Advancing DNA Barcoding and Metabarcoding Applications for Plants Requires Systematic Analysis of Herbarium Collections—An Australian Perspective |
| title_short |
Advancing DNA Barcoding and Metabarcoding Applications for Plants Requires Systematic Analysis of Herbarium Collections—An Australian Perspective |
| title_full |
Advancing DNA Barcoding and Metabarcoding Applications for Plants Requires Systematic Analysis of Herbarium Collections—An Australian Perspective |
| title_fullStr |
Advancing DNA Barcoding and Metabarcoding Applications for Plants Requires Systematic Analysis of Herbarium Collections—An Australian Perspective |
| title_full_unstemmed |
Advancing DNA Barcoding and Metabarcoding Applications for Plants Requires Systematic Analysis of Herbarium Collections—An Australian Perspective |
| title_sort |
advancing dna barcoding and metabarcoding applications for plants requires systematic analysis of herbarium collections—an australian perspective |
| publisher |
Frontiers Media S.A. |
| series |
Frontiers in Ecology and Evolution |
| issn |
2296-701X |
| publishDate |
2018-09-01 |
| description |
Building DNA barcode databases for plants has historically been ad hoc, and often with a relatively narrow taxonomic focus. To realize the full potential of DNA barcoding for plants, and particularly its application to metabarcoding for mixed-species environmental samples, systematic sequencing of reference collections is required using an augmented set of DNA barcode loci, applied according to agreed data generation and analysis standards. The largest and most complete reference collections of plants are held in herbaria. Australia has a globally significant flora that is well sampled and expertly curated by its herbaria, coordinated through the Council of Heads of Australasian Herbaria. There exists a tremendous opportunity to provide a comprehensive and taxonomically robust reference database for plant DNA barcoding applications by undertaking coordinated and systematic sequencing of the entire flora of Australia utilizing existing herbarium material. In this paper, we review the development of DNA barcoding and metabarcoding and consider the requirements for a robust and comprehensive system. We analyzed the current availability of DNA barcode reference data for Australian plants, recommend priority taxa for database inclusion, and highlight future applications of a comprehensive metabarcoding system. We urge that large-scale and coordinated analysis of herbarium collections be undertaken to realize the promise of DNA barcoding and metabarcoding, and propose that the generation and curation of reference data should become a national investment priority. |
| topic |
natural history collections barcoding reference database conservation science infrastructure taxonomy |
| url |
https://www.frontiersin.org/article/10.3389/fevo.2018.00134/full |
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doaj-045c7de56ff6493eaf7e01901c2cb1fd2020-11-25T01:02:26ZengFrontiers Media S.A.Frontiers in Ecology and Evolution2296-701X2018-09-01610.3389/fevo.2018.00134406014Advancing DNA Barcoding and Metabarcoding Applications for Plants Requires Systematic Analysis of Herbarium Collections—An Australian PerspectiveEleanor E. Dormontt0Kor-jent van Dijk1Karen L. Bell2Karen L. Bell3Ed Biffin4Martin F. Breed5Margaret Byrne6Stefan Caddy-Retalic7Stefan Caddy-Retalic8Francisco Encinas-Viso9Paul G. Nevill10Alison Shapcott11Jennifer M. Young12Michelle Waycott13Michelle Waycott14Andrew J. Lowe15Advanced DNA, Identification and Forensic Facility, The Environment Institute, Faculty of Sciences, University of Adelaide, Adelaide, SA, AustraliaAdvanced DNA, Identification and Forensic Facility, The Environment Institute, Faculty of Sciences, University of Adelaide, Adelaide, SA, AustraliaSchool of Biological Sciences, University of Western Australia, Perth, WA, AustraliaCSIRO Land and Water, Floreat, WA, AustraliaDepartment of Environment and Water, State Herbarium of South Australia, Adelaide, SA, AustraliaAdvanced DNA, Identification and Forensic Facility, The Environment Institute, Faculty of Sciences, University of Adelaide, Adelaide, SA, AustraliaBiodiversity and Conservation Science, Department of Biodiversity, Conservation and Attractions, Kensington, WA, AustraliaAdvanced DNA, Identification and Forensic Facility, The Environment Institute, Faculty of Sciences, University of Adelaide, Adelaide, SA, AustraliaSchool of Life and Environmental Sciences, University of Sydney, Sydney, NSW, AustraliaCentre for Australian National Biodiversity Research (CSIRO), Canberra, ACT, AustraliaARC Centre for Mine Site Restoration, School of Molecular and Life Sciences, Curtin University, Perth, WA, AustraliaGenecology Research Centre, University of the Sunshine Coast, Maroochydore, QLD, AustraliaAdvanced DNA, Identification and Forensic Facility, The Environment Institute, Faculty of Sciences, University of Adelaide, Adelaide, SA, AustraliaAdvanced DNA, Identification and Forensic Facility, The Environment Institute, Faculty of Sciences, University of Adelaide, Adelaide, SA, AustraliaDepartment of Environment and Water, State Herbarium of South Australia, Adelaide, SA, AustraliaAdvanced DNA, Identification and Forensic Facility, The Environment Institute, Faculty of Sciences, University of Adelaide, Adelaide, SA, AustraliaBuilding DNA barcode databases for plants has historically been ad hoc, and often with a relatively narrow taxonomic focus. To realize the full potential of DNA barcoding for plants, and particularly its application to metabarcoding for mixed-species environmental samples, systematic sequencing of reference collections is required using an augmented set of DNA barcode loci, applied according to agreed data generation and analysis standards. The largest and most complete reference collections of plants are held in herbaria. Australia has a globally significant flora that is well sampled and expertly curated by its herbaria, coordinated through the Council of Heads of Australasian Herbaria. There exists a tremendous opportunity to provide a comprehensive and taxonomically robust reference database for plant DNA barcoding applications by undertaking coordinated and systematic sequencing of the entire flora of Australia utilizing existing herbarium material. In this paper, we review the development of DNA barcoding and metabarcoding and consider the requirements for a robust and comprehensive system. We analyzed the current availability of DNA barcode reference data for Australian plants, recommend priority taxa for database inclusion, and highlight future applications of a comprehensive metabarcoding system. We urge that large-scale and coordinated analysis of herbarium collections be undertaken to realize the promise of DNA barcoding and metabarcoding, and propose that the generation and curation of reference data should become a national investment priority.https://www.frontiersin.org/article/10.3389/fevo.2018.00134/fullnatural history collectionsbarcoding reference databaseconservationscience infrastructuretaxonomy |