DNA barcoding of flowering plants in Sumatra, Indonesia

2019 | journal article; research paper. A publication with affiliation to the University of Göttingen.

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​DNA barcoding of flowering plants in Sumatra, Indonesia​
Amandita, F. Y.; Rembold, K.; Vornam, B.; Rahayu, S.; Siregar, I. Z.; Kreft, H. & Finkeldey, R.​ (2019) 
Ecology and Evolution9(4) pp. 1858​-1868​.​ DOI: https://doi.org/10.1002/ece3.4875 

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Amandita, Fitri Y.; Rembold, Katja; Vornam, Barbara; Rahayu, Sri; Siregar, Iskandar Z.; Kreft, Holger; Finkeldey, Reiner
The rapid conversion of Southeast Asian lowland rainforests into monocultures calls for the development of rapid methods for species identification to support ecological research and sustainable land-use management. Here, we investigated the utilization of DNA barcodes for identifying flowering plants from Sumatra, Indonesia. A total of 1,207 matK barcodes (441 species) and 2,376 rbcL barcodes (750 species) were successfully generated. The barcode effectiveness is assessed using four approaches: (a) comparison between morphological and molecular identification results, (b) best-close match analysis with TaxonDNA, (c) barcoding gap analysis, and (d) formation of monophyletic groups. Results show that rbcL has a much higher level of sequence recoverability than matK (95% and 66%). The comparison between morphological and molecular identifications revealed that matK and rbcL worked best assigning a plant specimen to the genus level. Estimates of identification success using best-close match analysis showed that >70% of the investigated species were correctly identified when using single barcode. The use of two-loci barcodes was able to increase the identification success up to 80%. The barcoding gap analysis revealed that neither matK nor rbcL succeeded to create a clear gap between the intraspecific and interspecific divergences. However, these two barcodes were able to discriminate at least 70% of the species from each other. Fifteen genera and twenty-one species were found to be nonmonophyletic with both markers. The two-loci barcodes were sufficient to reconstruct evolutionary relationships among the plant taxa in the study area that are congruent with the broadly accepted APG III phylogeny.
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Ecology and Evolution 
SFB 990: Ökologische und sozioökonomische Funktionen tropischer Tieflandregenwald-Transformationssysteme (Sumatra, Indonesien) 
SFB 990 | B | B06: Taxonomische, funktionelle, phylogenetische und biogeographische Diversität vaskulärer Pflanzen in Regenwald-Transformationssystemen auf Sumatra (Indonesien) 
SFB 990 | Z | Z02: Central Scientific Support Unit 
Fakultät für Forstwissenschaften und Waldökologie ; Burckhardt-Institut ; Abteilung Biodiversität, Makroökologie und Biogeographie 



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