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High-throughput seq...
High-throughput sequencing of African chikanda cake highlights conservation challenges in orchids
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- Veldman, Sarina (author)
- Uppsala universitet,Systematisk biologi
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- Gravendeel, Barbara (author)
- Naturalis Biodivers Ctr, Darwinweg 2, NL-2333 CR Leiden, Netherlands.;Univ Appl Sci Leiden, Leiden, Netherlands.
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- Otieno, Joseph N. (author)
- Muhimbili Univ Hlth & Allied Sci, Inst Tradit Med, Dar Es Salaam, Tanzania.
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- Lammers, Youri (author)
- Naturalis Biodivers Ctr, Darwinweg 2, NL-2333 CR Leiden, Netherlands.
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- Duijm, Elza (author)
- Naturalis Biodivers Ctr, Darwinweg 2, NL-2333 CR Leiden, Netherlands.
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- Nieman, Aline (author)
- Naturalis Biodivers Ctr, Darwinweg 2, NL-2333 CR Leiden, Netherlands.
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- Bytebier, Benny (author)
- Univ KwaZulu Natal, Sch Life Sci, Pr Bag X01, ZA-3209 Scottsville, South Africa.
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- Ngugi, Grace (author)
- Univ KwaZulu Natal, Sch Life Sci, Pr Bag X01, ZA-3209 Scottsville, South Africa.
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- Martos, Florent (author)
- Univ KwaZulu Natal, Sch Life Sci, Pr Bag X01, ZA-3209 Scottsville, South Africa.
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- van Andel, Tinde R. (author)
- Naturalis Biodivers Ctr, Darwinweg 2, NL-2333 CR Leiden, Netherlands.;Wageningen Univ & Res, Wageningen, Netherlands.
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- de Boer, Hugo J. (author)
- Uppsala universitet,Systematisk biologi,Naturalis Biodivers Ctr, Darwinweg 2, NL-2333 CR Leiden, Netherlands.;Univ Oslo, Nat Hist Museum, POB 1172, N-0318 Oslo, Norway.
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(creator_code:org_t)
- 2017-04-01
- 2017
- English.
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In: Biodiversity and Conservation. - : Springer Science and Business Media LLC. - 0960-3115 .- 1572-9710. ; 26:9, s. 2029-2046
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https://uu.diva-port... (primary) (Raw object)
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Abstract
Subject headings
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- Chikanda is a traditional dish made with wild-harvested ground orchid tubers belonging to three orchidioid genera, Disa, Satyrium and Habenaria, all of which are CITES appendix II-listed. Identification of collected orchid tubers is very difficult and documentation of constituent species in prepared chikanda has hitherto been impossible. Here amplicon metabarcoding was used in samples of six prepared chikanda cakes to study genetic sequence diversity and species diversity in this product. Molecular operational taxonomic unit identification using similarity-matching reveals that species of all three genera were present in the chikanda samples studied. Disa was present in all of the samples, Satyrium in five out of six and Habenaria in one of the samples, as well as a number of other plants. The fact that each sample contained orchids and the presence of a wide variety of species from all genera in this traditional dish raise serious concerns about the sustainability of this trade and the future of wild orchid populations in the main harvest areas. This proof-of-concept study shows that Ion-Torrent PGM is a cost-effective scalable platform for metabarcoding using the relatively long nrITS1 and nrITS2 regions. Furthermore, nrITS metabarcoding can be successfully used for the detection of specific ingredients in a highly-processed food product at genus level, and this makes it a useful tool in the detection of possible conservation issues arising from commercialized trade or processed plant products.
Subject headings
- NATURVETENSKAP -- Biologi -- Botanik (hsv//swe)
- NATURAL SCIENCES -- Biological Sciences -- Botany (hsv//eng)
- NATURVETENSKAP -- Biologi -- Biologisk systematik (hsv//swe)
- NATURAL SCIENCES -- Biological Sciences -- Biological Systematics (hsv//eng)
Keyword
- CITES
- Disa
- Ethnobotany
- Habenaria
- Ion-Torrent PGM
- Satyrium
- Wildlife forensics
Publication and Content Type
- ref (subject category)
- art (subject category)
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- By the author/editor
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Veldman, Sarina
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Gravendeel, Barb ...
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Otieno, Joseph N ...
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Lammers, Youri
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Duijm, Elza
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Nieman, Aline
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show more...
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Bytebier, Benny
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Ngugi, Grace
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Martos, Florent
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van Andel, Tinde ...
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de Boer, Hugo J.
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- About the subject
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- NATURAL SCIENCES
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NATURAL SCIENCES
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and Biological Scien ...
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and Botany
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- NATURAL SCIENCES
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NATURAL SCIENCES
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and Biological Scien ...
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and Biological Syste ...
- Articles in the publication
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Biodiversity and ...
- By the university
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Uppsala University