The utility of DNA barcodes to confirm the identification of palm collections in botanical gardens

Autor: Yu Qu Zhang, Duc Thanh Le, Yong Xu, Kevin S. Burgess, Li Xiu Guo, Xue-Jun Ge, Zhi Ping Ruan
Jazyk: angličtina
Rok vydání: 2020
Předmět:
0106 biological sciences
0301 basic medicine
Molecular biology
Plant genetics
Evolutionary biology
Plant Science
Arecaceae
Plant Genetics
Barcode
Biochemistry
01 natural sciences
DNA barcoding
law.invention
Database and Informatics Methods
law
Nucleic Acids
Plastids
Molecular systematics
Computer and information sciences
Multidisciplinary
biology
Phylogenetic Analysis
Plant taxonomy
Phylogenetics
Medicine
Identification (biology)
Palm
Sequence Analysis
Research Article
Bioinformatics
Plant Cell Biology
Science
Evolutionary systematics
Sequence Databases
Data management
010603 evolutionary biology
03 medical and health sciences
Genetics
DNA Barcoding
Taxonomic
Taxonomy
Biology and life sciences
Plant Taxonomy
DNA
Cell Biology
biology.organism_classification
Research and analysis methods
Molecular biology techniques
Biological Databases
030104 developmental biology
Taxon
Gardens
Sequence Alignment
Zdroj: PLoS ONE, Vol 15, Iss 7, p e0235569 (2020)
PLoS ONE
ISSN: 1932-6203
Popis: The palm family (Arecaceae) is of high ecological and economic value, yet identification in the family remains a challenge for both taxonomists and horticulturalists. The family consists of approximately 2600 species across 181 genera and DNA barcoding may be a useful tool for species identification within the group. However, there have been few systematic evaluations of DNA barcodes for the palm family. In the present study, five DNA barcodes (rbcL, matK, trnH-psbA, ITS, ITS2) were evaluated for species identification ability across 669 samples representing 314 species and 100 genera in the Arecaceae, employing four analytical methods. The ITS gene region was found to not be a suitable barcode for the palm family, due in part, to low recovery rates and paralogous gene copies. Among the four analyses used, species resolution for ITS2 was much higher than that achieved with the plastid barcodes alone (rbcL, matK, trnH-psbA), and the barcode combination ITS2 + matK + rbcL gave the highest resolution among all single barcodes and their combinations, followed by ITS2 + matK. Among 669 palm samples analyzed, 110 samples (16.3%) were found to be misidentified. The 2992 DNA barcode sequences generated in this study greatly enriches the existing identification toolbox available to plant taxonomists that are interested in researching genetic relationships among palm taxa as well as for horticulturalists that need to confirm palm collections for botanical garden curation and horticultural applications. Our results indicate that the use of the ITS2 DNA barcode gene region provides a useful and cost-effective tool to confirm the identity of taxa in the Palm family.
Databáze: OpenAIRE
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