Use of DNA barcodes to identify flowering plants
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TLDR
Comparison of the total plastid genomes of tobacco and deadly nightshade enhanced with trials on widely divergent angiosperm taxa suggest that the sequences in this pair of loci have the potential to discriminate among the largest number of plant species for barcoding purposes.Abstract:
Methods for identifying species by using short orthologous DNA sequences, known as “DNA barcodes,” have been proposed and initiated to facilitate biodiversity studies, identify juveniles, associate sexes, and enhance forensic analyses. The cytochrome c oxidase 1 sequence, which has been found to be widely applicable in animal barcoding, is not appropriate for most species of plants because of a much slower rate of cytochrome c oxidase 1 gene evolution in higher plants than in animals. We therefore propose the nuclear internal transcribed spacer region and the plastid trnH-psbA intergenic spacer as potentially usable DNA regions for applying barcoding to flowering plants. The internal transcribed spacer is the most commonly sequenced locus used in plant phylogenetic investigations at the species level and shows high levels of interspecific divergence. The trnH-psbA spacer, although short (≈450-bp), is the most variable plastid region in angiosperms and is easily amplified across a broad range of land plants. Comparison of the total plastid genomes of tobacco and deadly nightshade enhanced with trials on widely divergent angiosperm taxa, including closely related species in seven plant families and a group of species sampled from a local flora encompassing 50 plant families (for a total of 99 species, 80 genera, and 53 families), suggest that the sequences in this pair of loci have the potential to discriminate among the largest number of plant species for barcoding purposes.read more
Citations
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Book Chapter
Strength and Limitations of DNA Barcode under the Multidimensional Species Perspective.
TL;DR: DNA barcoding represents just one important descriptor in the framework of the multidimensional species approach because in many taxa the species can be efficiently identified through the barcode, but other situations cannot be treated by this approach.
Journal ArticleDOI
Population demographic history of a temperate shrub, Rhododendron weyrichii (Ericaceae), on continental islands of Japan and South Korea.
Watanabe Yoichi,Ichiro Tamaki,Shota Sakaguchi,Jong-Suk Song,Shin-ichi Yamamoto,Nobuhiro Tomaru +5 more
TL;DR: Examination of the demographic history of a temperate shrub in the southwestern parts of the Japanese archipelago and on an island of South Korea indicates that exposed seafloors during the glacial period formed both effective and ineffective migration corridors, which may shed light on the effects of seafloor exposure on the migration of plants distributed across continental islands.
Book ChapterDOI
Plant DNA sequencing for phylogenetic analyses: from plants to sequences.
Susana S. Neves,Laura L. Forrest +1 more
TL;DR: This chapter gives an overview of methods and protocols involved in the sequencing of plant samples, including general recommendations on the selection of species/taxa and DNA regions to be sequenced, and field collection of plants samples.
Journal ArticleDOI
Intragenomic variations of multicopy ITS2 marker in Agrodiaetus blue butterflies (Lepidoptera, Lycaenidae)
TL;DR: It is demonstrated that a distinctly different intragenomic ITS2 pattern exists for every individual analysed in three species of Agrodiaetus Hübner, 1822 blue butterflies revealed by cloning technique.
Journal ArticleDOI
Comparison of matK and rbcL DNA barcodes for genetic classification of jewel orchid accessions in Vietnam
TL;DR: In this paper, a study was carried out to compare the identifying efficacy of maturase K (matK) and ribulose 1,5-biphosphate carboxylase (rbcL) loci on jewel orchid population collected throughout Vietnam.
References
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Biological identifications through DNA barcodes
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Journal ArticleDOI
Ten species in one: DNA barcoding reveals cryptic species in the neotropical skipper butterfly Astraptes fulgerator
TL;DR: The results add to the evidence that cryptic species are prevalent in tropical regions, a critical issue in efforts to document global species richness, and illustrate the value of DNA barcoding, especially when coupled with traditional taxonomic tools, in disclosing hidden diversity.
Journal ArticleDOI
The complete nucleotide sequence of the tobacco chloroplast genome: its gene organization and expression.
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TL;DR: Five sequences coding for proteins homologous to components of the respiratory‐chain NADH dehydrogenase from human mitochondria have been found and sequence and expression analyses indicate both prokaryotic and eukaryotic features of the chloroplast genes.
Journal ArticleDOI
Identification of Birds through DNA Barcodes
TL;DR: The finding of large COI sequence differences between, as compared to small differences within, species confirms the effectiveness of COI barcodes for the identification of bird species, and implies that a standard screening threshold of sequence difference could speed the discovery of new animal species.
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