Efficacy of DNA barcode internal transcribed spacer 2 (ITS 2) in phylogenetic study of Alpinia species from Peninsular Malaysia.

Autor: Tan WH; University of Nottingham Malaysia Campus, Semenyih, Malaysia., Chai LC; University of Nottingham Malaysia Campus, Semenyih, Malaysia., Chin CF; University of Nottingham Malaysia Campus, Semenyih, Malaysia.
Jazyk: angličtina
Zdroj: Physiology and molecular biology of plants : an international journal of functional plant biology [Physiol Mol Biol Plants] 2020 Sep; Vol. 26 (9), pp. 1889-1896. Date of Electronic Publication: 2020 Aug 29.
DOI: 10.1007/s12298-020-00868-1
Abstrakt: Alpinia belongs to a large genus with many species found in Peninsular Malaysia. Several species of Alpinia exhibit important medicinal potential. However, progressive studies on the genus Alpinia were hampered by difficulties encountered in species identification. With the advancement achieved in genomic technology, more sensitive tools such as DNA barcoding were developed, which can be used for species identification. Internal Transcribe Spacer 2 (ITS2) is a DNA barcode which has proven to be a promising tool for species identification. The criterions of ITS2 efficacy namely universality and efficacy for species identification were tested on Alpinia species collected from Peninsular Malaysia. The results showed that a success rate of 96.97% was achieved using ITS2 for screening 11 species of Alpinia and an outgroup sample ( Zingiber specatabile) . Combined with 15 additional sequences from the Genbank for five Alpinia species, ITS2 demonstrated high species identification efficacy with 88.2% of species identified using phylogenetic and distance analysis. The analysis was further improved with the use of ITS2 secondary structure. The results of both criterions demonstrated the ability of ITS2 to successfully discriminate Alpinia species, which will help to improve species identification of Alpinia species in Peninsular Malaysia.
Competing Interests: Conflict of interestThe authors declare that they have no conflict of interest.
(© Prof. H.S. Srivastava Foundation for Science and Society 2020.)
Databáze: MEDLINE
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